Note: /media/Script/prog/IGB/core/common/src/main/java/com/affymetrix/common/PreferenceUtils.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. Note: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ComparatorMetadata.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. Note: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/CThreadWorker.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. Note: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPComboBox.java uses unchecked or unsafe operations. Note: Recompile with -Xlint:unchecked for details. Note: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl.java uses or overrides a deprecated API. Note: Recompile with -Xlint:deprecation for details. /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:12: error: package javafx.application does not exist import javafx.application.Platform; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:13: error: package javafx.embed.swing does not exist import javafx.embed.swing.JFXPanel; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:14: error: package javafx.stage does not exist import javafx.stage.FileChooser; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:15: error: package javafx.stage.FileChooser does not exist import javafx.stage.FileChooser.ExtensionFilter; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:22: error: cannot find symbol private static final JFXPanel FX_RUNTIME_INITIALIZER = new JFXPanel(); // see https://docs.oracle.com/javase/8/javafx/api/javafx/application/Platform.html#runLater-java.lang.Runnable- for why this is needed ^ symbol: class JFXPanel location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:27: error: cannot find symbol private Optional> extensionFilters; ^ symbol: class ExtensionFilter location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:28: error: cannot find symbol private static ExtensionFilter selectedExtensionFilter = null; ^ symbol: class ExtensionFilter location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:63: error: cannot find symbol public FileChooserUtil setFileExtensionFilters(List extensionFilters) { ^ symbol: class ExtensionFilter location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:97: error: cannot find symbol private FileChooser getFileChooser() { ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:200: error: cannot find symbol public ExtensionFilter getSelectedFileExtension(){ ^ symbol: class ExtensionFilter location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:10: error: package javafx.application does not exist import javafx.application.Platform; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:11: error: package javafx.embed.swing does not exist import javafx.embed.swing.JFXPanel; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:12: error: package javafx.stage does not exist import javafx.stage.DirectoryChooser; ^ /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:19: error: cannot find symbol private static final JFXPanel FX_RUNTIME_INITIALIZER = new JFXPanel(); // see https://docs.oracle.com/javase/8/javafx/api/javafx/application/Platform.html#runLater-java.lang.Runnable- for why this is needed ^ symbol: class JFXPanel location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:78: error: cannot find symbol private DirectoryChooser getDirChooser() { ^ symbol: class DirectoryChooser location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:22: error: cannot find symbol private static final JFXPanel FX_RUNTIME_INITIALIZER = new JFXPanel(); // see https://docs.oracle.com/javase/8/javafx/api/javafx/application/Platform.html#runLater-java.lang.Runnable- for why this is needed ^ symbol: class JFXPanel location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:74: error: cannot find symbol Platform.runLater(() -> { ^ symbol: variable Platform location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:76: error: cannot find symbol final FileChooser fileChooser = getFileChooser(); ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:98: error: cannot find symbol FileChooser fileChooser = new FileChooser(); ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:98: error: cannot find symbol FileChooser fileChooser = new FileChooser(); ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:127: error: cannot find symbol Platform.runLater(() -> { ^ symbol: variable Platform location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:129: error: cannot find symbol final FileChooser fileChooser = getFileChooser(); ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:174: error: cannot find symbol Platform.runLater(() -> { ^ symbol: variable Platform location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/FileChooserUtil.java:176: error: cannot find symbol final FileChooser fileChooser = getFileChooser(); ^ symbol: class FileChooser location: class FileChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:19: error: cannot find symbol private static final JFXPanel FX_RUNTIME_INITIALIZER = new JFXPanel(); // see https://docs.oracle.com/javase/8/javafx/api/javafx/application/Platform.html#runLater-java.lang.Runnable- for why this is needed ^ symbol: class JFXPanel location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:55: error: cannot find symbol Platform.runLater(() -> { ^ symbol: variable Platform location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:57: error: cannot find symbol final DirectoryChooser dirChooser = getDirChooser(); ^ symbol: class DirectoryChooser location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:79: error: cannot find symbol DirectoryChooser dirChooser = new DirectoryChooser(); ^ symbol: class DirectoryChooser location: class DirectoryChooserUtil /media/Script/prog/IGB/core/igb-javafx-util/src/main/java/org/lorainelab/igb/javafx/DirectoryChooserUtil.java:79: error: cannot find symbol DirectoryChooser dirChooser = new DirectoryChooser(); ^ symbol: class DirectoryChooser location: class DirectoryChooserUtil 29 errors DEBUG] org.apache.maven.doxia:doxia-module-fml:jar:1.0:compile [DEBUG] org.apache.maven.doxia:doxia-module-xdoc:jar:1.0:compile [DEBUG] org.apache.maven.doxia:doxia-module-xhtml:jar:1.0:compile [DEBUG] Created new class realm extension>org.apache.felix:maven-bundle-plugin:3.0.0 [DEBUG] Importing foreign packages into class realm extension>org.apache.felix:maven-bundle-plugin:3.0.0 [DEBUG] Imported: < maven.api [DEBUG] Populating class realm extension>org.apache.felix:maven-bundle-plugin:3.0.0 [DEBUG] Included: org.apache.felix:maven-bundle-plugin:jar:3.0.0 [DEBUG] Included: org.osgi:org.osgi.core:jar:4.3.1 [DEBUG] Included: biz.aQute.bnd:biz.aQute.bndlib:jar:3.0.0 [DEBUG] Included: org.apache.felix:org.apache.felix.bundlerepository:jar:1.6.6 [DEBUG] Included: org.easymock:easymock:jar:2.5.2 [DEBUG] Included: org.apache.felix:org.apache.felix.utils:jar:1.6.0 [DEBUG] Included: org.osgi:org.osgi.compendium:jar:4.2.0 [DEBUG] Included: org.slf4j:slf4j-jdk14:jar:1.5.6 [DEBUG] Included: org.slf4j:jcl-over-slf4j:jar:1.5.6 [DEBUG] Included: org.apache.maven.reporting:maven-reporting-api:jar:2.2.0 [DEBUG] Included: org.apache.maven.doxia:doxia-logging-api:jar:1.1 [DEBUG] Included: junit:junit:jar:4.11 [DEBUG] Included: org.hamcrest:hamcrest-core:jar:1.3 [DEBUG] Included: commons-cli:commons-cli:jar:1.2 [DEBUG] Included: org.codehaus.plexus:plexus-interactivity-api:jar:1.0-alpha-4 [DEBUG] Included: backport-util-concurrent:backport-util-concurrent:jar:3.1 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: org.apache.maven:maven-archiver:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-archiver:jar:2.1 [DEBUG] Included: org.codehaus.plexus:plexus-io:jar:2.0.2 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.15 [DEBUG] Included: org.apache.maven.shared:maven-dependency-tree:jar:2.1 [DEBUG] Included: org.codehaus.plexus:plexus-component-annotations:jar:1.5.5 [DEBUG] Included: org.eclipse.aether:aether-util:jar:0.9.0.M2 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0.10 [DEBUG] Included: org.sonatype.plexus:plexus-build-api:jar:0.0.7 [DEBUG] Included: org.apache.maven.doxia:doxia-sink-api:jar:1.0 [DEBUG] Included: org.apache.maven.doxia:doxia-site-renderer:jar:1.0 [DEBUG] Included: org.apache.maven.doxia:doxia-core:jar:1.0 [DEBUG] Included: org.codehaus.plexus:plexus-i18n:jar:1.0-beta-7 [DEBUG] Included: org.codehaus.plexus:plexus-velocity:jar:1.1.7 [DEBUG] Included: org.apache.velocity:velocity:jar:1.5 [DEBUG] Included: commons-lang:commons-lang:jar:2.1 [DEBUG] Included: oro:oro:jar:2.0.8 [DEBUG] Included: org.apache.maven.doxia:doxia-decoration-model:jar:1.0 [DEBUG] Included: commons-collections:commons-collections:jar:3.2 [DEBUG] Included: org.apache.maven.doxia:doxia-module-apt:jar:1.0 [DEBUG] Included: org.apache.maven.doxia:doxia-module-fml:jar:1.0 [DEBUG] Included: org.apache.maven.doxia:doxia-module-xdoc:jar:1.0 [DEBUG] Included: org.apache.maven.doxia:doxia-module-xhtml:jar:1.0 [DEBUG] Extension realms for project org.lorainelab.igb:heatmap-editor:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Created new class realm project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:affymetrix-common:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:genometry:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igb:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igbSwingExt:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igb-services:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:window-service:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:shared-lib-wrapper:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:logging-config:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igb-preferences:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:weblinks:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:quickload:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:das:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:das2:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:frameManager:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:synonym-lookup:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igb-javafx-util:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:org.lorainelab.igb.menu.api:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:context-menu-service:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:apollo-library:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:annotation-tab:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:console-tab:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:track-operations-panel:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bigBedHandler:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bigWigHandler:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bookmark:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:externalView:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:graphTab:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:igbScript:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:keyWordSearch:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:ncbiBlast:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:propertyView:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:restrictionSites:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:searchModelIdOrProps:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:searchView:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:sequenceViewer:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:survey:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:thresholding:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:update:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:plugins-manager:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:paired-data-preprocessor:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:image-exporter:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:session-manager:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:keybinding-registry:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:cache:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:cache-api:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:feedback:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:external-sort:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:narrowpeak:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:genotyping:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bed:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bam:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:bai:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:appstore:bundle:9.1.4: [ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586]] [DEBUG] Looking up lifecycle mappings for packaging bundle from ClassRealm[project>org.lorainelab.igb:heatmap-editor:9.1.4, parent: ClassRealm[maven.api, parent: null]] [DEBUG] Extension realms for project org.lorainelab.igb:main:jar:9.1.4: (none) [DEBUG] Looking up lifecycle mappings for packaging jar from ClassRealm[plexus.core, parent: null] [INFO] ------------------------------------------------------------------------ [INFO] Reactor Build Order: [INFO] [INFO] IGB Project [pom] [INFO] Core - Heatmap Editor [bundle] [INFO] Core - Affymetrix Common [bundle] [INFO] Plugin - Sorting API and Impl [bundle] [INFO] Plugin - Data caching API [bundle] [INFO] Core - Synonym Lookup [bundle] [INFO] Core - Genometry (Data Models) [bundle] [INFO] Core - Preferences [bundle] [INFO] Core - IGB Swing Extensions [bundle] [INFO] Core - Genoviz Extensions [bundle] [INFO] Core - IGB Services API [bundle] [INFO] Core - Frame Manager [bundle] [INFO] Core - Window Service [bundle] [INFO] Core - JavaFX Utilities [bundle] [INFO] Core - Menu API [bundle] [INFO] Core - Context Menu Service [bundle] [INFO] Core - IGB [bundle] [INFO] Core - Bundle wrapper, deployer [bundle] [INFO] Core - Logging Config [bundle] [INFO] Core - Web Links [bundle] [INFO] Plugin - Data caching GUI [bundle] [INFO] Core - Quickload (data source) [bundle] [INFO] Core - DAS (data source) [bundle] [INFO] Core - Das 2 (data source) [bundle] [INFO] Plugin - Apollo Library [bundle] [INFO] Plugin - Track Operations API, GUI [bundle] [INFO] Plugin - Annotation Tab [bundle] [INFO] Plugin - Console Tab [bundle] [INFO] Plugin - Bigbed data format handler [bundle] [INFO] Plugin - Bigwig data format handler [bundle] [INFO] Plugin - Bookmarks and REST API [bundle] [INFO] Plugin - External View [bundle] [INFO] Plugin - Graph Tab [bundle] [INFO] Plugin - Save Image GUI [bundle] [INFO] Plugin - Script handler [bundle] [INFO] Plugin - Keyword Search [bundle] [INFO] Plugin - NCBI Blast [bundle] [INFO] Plugin - Selection Info tab [bundle] [INFO] Plugin - Restriction Sites tab [bundle] [INFO] Plugin - Search Id or Props [bundle] [INFO] Plugin - Advanced Search Tab [bundle] [INFO] Plugin - Sequence Viewer GUI [bundle] [INFO] Plugin - Survey GUI [bundle] [INFO] Plugin - Graph thresholding visual analytics [bundle] [INFO] Plugin - Update [bundle] [INFO] Plugin - App Manager GUI [bundle] [INFO] Plugin - Paired-end Read Preprocessor [bundle] [INFO] Plugin - Save Session Manager [bundle] [INFO] Plugin - Toolbar Preferences GUI [bundle] [INFO] Plugin - Error reporting [bundle] [INFO] Plugin - Feedback [bundle] [INFO] Plugin - Narrowpeak data format handler [bundle] [INFO] Plugin - File Handler - Genotyping Results [bundle] [INFO] Plugin - BED file format handler [bundle] [INFO] Plugin - BAM data format handler [bundle] [INFO] Plugin - BAI index visualization handler [bundle] [INFO] Plugin - App Store REST API [bundle] [INFO] IGB Main (run me) [jar] [DEBUG] === REACTOR BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igb-project:pom:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:heatmap-editor:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:genometry:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igb-preferences:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igb-services:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:frameManager:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:window-service:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igb-javafx-util:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:org.lorainelab.igb.menu.api:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:context-menu-service:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igb:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:shared-lib-wrapper:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:logging-config:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:weblinks:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:cache:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:quickload:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:das:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:das2:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:apollo-library:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:track-operations-panel:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:annotation-tab:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:console-tab:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bigBedHandler:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bigWigHandler:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bookmark:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:externalView:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:graphTab:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:image-exporter:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:igbScript:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:keyWordSearch:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:ncbiBlast:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:propertyView:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:restrictionSites:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:searchModelIdOrProps:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:searchView:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:sequenceViewer:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:survey:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:thresholding:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:update:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:plugins-manager:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:paired-data-preprocessor:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:session-manager:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:keybinding-registry:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:feedback:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:narrowpeak:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:genotyping:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bed:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bam:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:bai:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:appstore:bundle:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ----------------------------------------------------------------------- [DEBUG] Project: org.lorainelab.igb:main:jar:9.1.4 [DEBUG] Tasks: [clean, install] [DEBUG] Style: Regular [DEBUG] ======================================================================= [INFO] [INFO] -------------------< org.lorainelab.igb:igb-project >------------------- [INFO] Building IGB Project 9.1.4 [1/58] [INFO] --------------------------------[ pom ]--------------------------------- [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igb-project:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/bundles *.jar repository.xml false /media/Script/prog/IGB/bundles/dynamic *.jar false /root/.igb/bundles/v9.1.4-bundle-cache ** false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:2.4:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${createChecksum} ${localRepository} ${maven.install.skip} ${updateReleaseInfo} [DEBUG] ======================================================================= [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igb-project --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=36687, ConflictMarker.markTime=74462, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=12851, ConflictIdSorter.topsortTime=15061, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=152021, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=3951694, DefaultDependencyCollector.transformTime=322669} [DEBUG] org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] org.apache.maven:maven-plugin-api:jar:2.0.6:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Imported: < maven.api [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Included: org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/bundles [DEBUG] (f) includes = [*.jar, repository.xml] [DEBUG] (f) followSymlinks = false [DEBUG] (f) directory = /media/Script/prog/IGB/bundles/dynamic [DEBUG] (f) includes = [*.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) directory = /root/.igb/bundles/v9.1.4-bundle-cache [DEBUG] (f) includes = [**] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/bundles (included: [*.jar, repository.xml], excluded: []), file set: /media/Script/prog/IGB/bundles/dynamic (included: [*.jar], excluded: []), file set: /root/.igb/bundles/v9.1.4-bundle-cache (included: [**], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/target/test-classes [DEBUG] -- end configuration -- [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/target/site [INFO] Deleting /media/Script/prog/IGB/bundles (includes = [*.jar, repository.xml], excludes = []) [INFO] Deleting file /media/Script/prog/IGB/bundles/window-service-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/frameManager-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/igb-services-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/igb-genoviz-extensions-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/igbSwingExt-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/igb-preferences-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/genometry-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/synonym-lookup-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/cache-api-9.1.4.jar [DEBUG] Not recursing into directory without included files /media/Script/prog/IGB/bundles/dynamic [INFO] Deleting file /media/Script/prog/IGB/bundles/affymetrix-common-9.1.4.jar [INFO] Deleting file /media/Script/prog/IGB/bundles/heatmap-editor-9.1.4.jar [INFO] Deleting /media/Script/prog/IGB/bundles/dynamic (includes = [*.jar], excludes = []) [INFO] Deleting file /media/Script/prog/IGB/bundles/dynamic/external-sort-9.1.4.jar [DEBUG] Skipping non-existing directory /root/.igb/bundles/v9.1.4-bundle-cache [INFO] [INFO] --- maven-install-plugin:2.4:install (default-install) @ igb-project --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=289646, ConflictMarker.markTime=164970, ConflictMarker.nodeCount=38, ConflictIdSorter.graphTime=114094, ConflictIdSorter.topsortTime=35095, ConflictIdSorter.conflictIdCount=15, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=817510, ConflictResolver.conflictItemCount=35, DefaultDependencyCollector.collectTime=18685866, DefaultDependencyCollector.transformTime=1483765} [DEBUG] org.apache.maven.plugins:maven-install-plugin:jar:2.4 [DEBUG] org.apache.maven:maven-plugin-api:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-project:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-settings:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-profile:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-plugin-registry:jar:2.0.6:compile [DEBUG] org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile [DEBUG] junit:junit:jar:3.8.1:compile [DEBUG] classworlds:classworlds:jar:1.1-alpha-2:compile [DEBUG] org.apache.maven:maven-model:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-artifact-manager:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:2.0.6:compile [DEBUG] org.apache.maven:maven-artifact:jar:2.0.6:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0.5:compile [DEBUG] org.codehaus.plexus:plexus-digest:jar:1.0:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-install-plugin:2.4 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-install-plugin:2.4 [DEBUG] Imported: < maven.api [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-install-plugin:2.4 [DEBUG] Included: org.apache.maven.plugins:maven-install-plugin:jar:2.4 [DEBUG] Included: junit:junit:jar:3.8.1 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0.5 [DEBUG] Included: org.codehaus.plexus:plexus-digest:jar:1.0 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:2.4:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:2.4, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:2.4:install' with basic configurator --> [DEBUG] (f) artifact = org.lorainelab.igb:igb-project:pom:9.1.4 [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) createChecksum = false [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) packaging = pom [DEBUG] (f) pomFile = /media/Script/prog/IGB/pom.xml [DEBUG] (s) skip = false [DEBUG] (f) updateReleaseInfo = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/pom.xml to /root/.m2/repository/org/lorainelab/igb/igb-project/9.1.4/igb-project-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-project/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:igb-project/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/igb-project/maven-metadata-local.xml [INFO] [INFO] -----------------< org.lorainelab.igb:heatmap-editor >------------------ [INFO] Building Core - Heatmap Editor 9.1.4 [2/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/heatmap-editor/bundles heatmap-editor-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} heatmap-editor *;scope=compile|runtime true *;resolution:=optional cytoscape.visual.ui.editors.continuous lazy ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb heatmap-editor 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=86299, ConflictMarker.markTime=88026, ConflictMarker.nodeCount=4, ConflictIdSorter.graphTime=10885, ConflictIdSorter.topsortTime=13240, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=345008, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=10516014, DefaultDependencyCollector.transformTime=620217} [DEBUG] org.lorainelab.igb:heatmap-editor:bundle:9.1.4 [DEBUG] org.swinglabs.swingx:swingx-all:jar:1.6.4:provided [DEBUG] org.swinglabs:swing-layout:jar:1.0.3:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=57587, ConflictMarker.markTime=38268, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=18395, ConflictIdSorter.topsortTime=11226, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=99909, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=3056846, DefaultDependencyCollector.transformTime=245120} [DEBUG] org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] org.apache.maven:maven-plugin-api:jar:2.0.6:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385 [DEBUG] Included: org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/heatmap-editor/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/heatmap-editor/bundles [DEBUG] (f) includes = [heatmap-editor-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/heatmap-editor/bundles (included: [heatmap-editor-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/heatmap-editor/target [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/heatmap-editor-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/GradientEditorPanel.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/GradientEditorPanel$1.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/CyColorChooser.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/CyColorChooser$ColorListener.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/MinMaxDialog.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/MinMaxDialog$NumericFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/MinMaxDialog$1.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/Main.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/MultiColorThumbModel.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/CyGradientTrackRenderer.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/YValueLegendPanel.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/TriangleThumbRenderer.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/ColorInterpolator.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/GradientColorInterpolator.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/BasicVirtualRange.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/BelowAndAbovePanel.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/BelowAndAbovePanel$MouseEventHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/ContinuousMappingEditorPanel.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/ContinuousMappingEditorPanel$SpinnerChangeListener.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/ContinuousMappingEditorPanel$ThumbMouseListener.class [INFO] Deleting file /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous/VirtualRange.class [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors/continuous [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui/editors [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual/ui [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape/visual [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes/cytoscape [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/heatmap-editor/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/heatmap-editor/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/heatmap-editor/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=3076308, ConflictMarker.markTime=145752, ConflictMarker.nodeCount=68, ConflictIdSorter.graphTime=5176385, ConflictIdSorter.topsortTime=58557, ConflictIdSorter.conflictIdCount=28, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=10013496, ConflictResolver.conflictItemCount=67, DefaultDependencyCollector.collectTime=169947197, DefaultDependencyCollector.transformTime=20106499} [DEBUG] org.apache.maven.plugins:maven-resources-plugin:jar:3.1.0 [DEBUG] org.apache.maven:maven-plugin-api:jar:3.0:compile [DEBUG] org.apache.maven:maven-artifact:jar:3.0:compile [DEBUG] org.sonatype.sisu:sisu-inject-plexus:jar:1.4.2:compile [DEBUG] org.sonatype.sisu:sisu-inject-bean:jar:1.4.2:compile [DEBUG] org.sonatype.sisu:sisu-guice:jar:noaop:2.1.7:compile [DEBUG] org.apache.maven:maven-core:jar:3.0:compile [DEBUG] org.apache.maven:maven-settings:jar:3.0:compile [DEBUG] org.apache.maven:maven-settings-builder:jar:3.0:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:3.0:compile [DEBUG] org.apache.maven:maven-model-builder:jar:3.0:compile [DEBUG] org.apache.maven:maven-aether-provider:jar:3.0:runtime [DEBUG] org.sonatype.aether:aether-impl:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-spi:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-api:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-util:jar:1.7:compile [DEBUG] org.codehaus.plexus:plexus-classworlds:jar:2.2.3:compile [DEBUG] org.codehaus.plexus:plexus-component-annotations:jar:1.7.1:compile (version managed from default) [DEBUG] org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile [DEBUG] org.sonatype.plexus:plexus-cipher:jar:1.4:compile [DEBUG] org.apache.maven:maven-model:jar:3.0:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.1.0:compile [DEBUG] org.apache.maven.shared:maven-filtering:jar:3.1.1:compile [DEBUG] org.apache.maven.shared:maven-shared-utils:jar:3.0.0:compile [DEBUG] com.google.code.findbugs:jsr305:jar:2.0.1:compile [DEBUG] org.sonatype.plexus:plexus-build-api:jar:0.0.7:compile [DEBUG] commons-io:commons-io:jar:2.5:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.24:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0 [DEBUG] Included: org.apache.maven.plugins:maven-resources-plugin:jar:3.1.0 [DEBUG] Included: org.sonatype.sisu:sisu-inject-bean:jar:1.4.2 [DEBUG] Included: org.sonatype.sisu:sisu-guice:jar:noaop:2.1.7 [DEBUG] Included: org.sonatype.aether:aether-util:jar:1.7 [DEBUG] Included: org.codehaus.plexus:plexus-component-annotations:jar:1.7.1 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.1.0 [DEBUG] Included: org.apache.maven.shared:maven-filtering:jar:3.1.1 [DEBUG] Included: org.apache.maven.shared:maven-shared-utils:jar:3.0.0 [DEBUG] Included: com.google.code.findbugs:jsr305:jar:2.0.1 [DEBUG] Included: org.sonatype.plexus:plexus-build-api:jar:0.0.7 [DEBUG] Included: commons-io:commons-io:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.24 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/heatmap-editor/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/heatmap-editor/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:30Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/heatmap-editor/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 0 resource [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=414155, ConflictMarker.markTime=182506, ConflictMarker.nodeCount=162, ConflictIdSorter.graphTime=171856, ConflictIdSorter.topsortTime=84600, ConflictIdSorter.conflictIdCount=55, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=2131969, ConflictResolver.conflictItemCount=89, DefaultDependencyCollector.collectTime=92104815, DefaultDependencyCollector.transformTime=3046227} [DEBUG] org.apache.maven.plugins:maven-compiler-plugin:jar:3.3 [DEBUG] org.codehaus.plexus:plexus-compiler-javac-errorprone:jar:2.5:runtime [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0.10:compile [DEBUG] com.google.errorprone:error_prone_core:jar:2.0.1:runtime [DEBUG] com.google.errorprone:error_prone_annotation:jar:2.0.1:runtime [DEBUG] com.github.stephenc.jcip:jcip-annotations:jar:1.0-1:runtime [DEBUG] org.pcollections:pcollections:jar:2.1.2:runtime [DEBUG] com.google.guava:guava:jar:18.0:runtime [DEBUG] com.google.code.findbugs:jFormatString:jar:3.0.0:runtime [DEBUG] org.checkerframework:dataflow:jar:1.8.10:runtime [DEBUG] org.checkerframework:javacutil:jar:1.8.10:runtime [DEBUG] com.google.errorprone:javac:jar:1.8.0-u20:runtime [DEBUG] com.google.errorprone:error_prone_annotations:jar:2.0.1:runtime [DEBUG] org.apache.maven:maven-plugin-api:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-artifact:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-core:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-settings:jar:2.2.1:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.11:compile [DEBUG] org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile [DEBUG] org.slf4j:slf4j-jdk14:jar:1.5.6:runtime [DEBUG] org.slf4j:slf4j-api:jar:1.5.6:runtime [DEBUG] org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime [DEBUG] org.apache.maven:maven-profile:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-model:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-project:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-plugin-registry:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-artifact-manager:jar:2.2.1:compile [DEBUG] backport-util-concurrent:backport-util-concurrent:jar:3.1:compile [DEBUG] org.apache.maven:maven-monitor:jar:2.2.1:compile [DEBUG] org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile [DEBUG] org.sonatype.plexus:plexus-cipher:jar:1.4:compile [DEBUG] org.apache.maven:maven-toolchain:jar:2.2.1:compile [DEBUG] org.apache.maven.shared:maven-shared-utils:jar:0.7:compile [DEBUG] com.google.code.findbugs:jsr305:jar:2.0.1:compile [DEBUG] org.apache.maven.shared:maven-shared-incremental:jar:1.1:compile [DEBUG] org.codehaus.plexus:plexus-component-annotations:jar:1.5.5:compile (version managed from default) [DEBUG] org.codehaus.plexus:plexus-compiler-api:jar:2.5:compile [DEBUG] org.codehaus.plexus:plexus-compiler-manager:jar:2.5:compile [DEBUG] org.codehaus.plexus:plexus-compiler-javac:jar:2.5:runtime [DEBUG] org.codehaus.plexus:plexus-container-default:jar:1.5.5:compile [DEBUG] org.codehaus.plexus:plexus-classworlds:jar:2.2.2:compile [DEBUG] org.apache.xbean:xbean-reflect:jar:3.4:compile [DEBUG] log4j:log4j:jar:1.2.12:compile [DEBUG] commons-logging:commons-logging-api:jar:1.1:compile [DEBUG] com.google.collections:google-collections:jar:1.0:compile [DEBUG] junit:junit:jar:3.8.2:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3 [DEBUG] Included: org.apache.maven.plugins:maven-compiler-plugin:jar:3.3 [DEBUG] Included: org.codehaus.plexus:plexus-compiler-javac-errorprone:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0.10 [DEBUG] Included: com.google.errorprone:error_prone_core:jar:2.0.1 [DEBUG] Included: com.google.errorprone:error_prone_annotation:jar:2.0.1 [DEBUG] Included: com.github.stephenc.jcip:jcip-annotations:jar:1.0-1 [DEBUG] Included: org.pcollections:pcollections:jar:2.1.2 [DEBUG] Included: com.google.guava:guava:jar:18.0 [DEBUG] Included: com.google.code.findbugs:jFormatString:jar:3.0.0 [DEBUG] Included: org.checkerframework:dataflow:jar:1.8.10 [DEBUG] Included: org.checkerframework:javacutil:jar:1.8.10 [DEBUG] Included: com.google.errorprone:javac:jar:1.8.0-u20 [DEBUG] Included: com.google.errorprone:error_prone_annotations:jar:2.0.1 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.11 [DEBUG] Included: org.slf4j:slf4j-jdk14:jar:1.5.6 [DEBUG] Included: org.slf4j:jcl-over-slf4j:jar:1.5.6 [DEBUG] Included: backport-util-concurrent:backport-util-concurrent:jar:3.1 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: org.apache.maven.shared:maven-shared-utils:jar:0.7 [DEBUG] Included: com.google.code.findbugs:jsr305:jar:2.0.1 [DEBUG] Included: org.apache.maven.shared:maven-shared-incremental:jar:1.1 [DEBUG] Included: org.codehaus.plexus:plexus-component-annotations:jar:1.5.5 [DEBUG] Included: org.codehaus.plexus:plexus-compiler-api:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-compiler-manager:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-compiler-javac:jar:2.5 [DEBUG] Included: org.apache.xbean:xbean-reflect:jar:3.4 [DEBUG] Included: log4j:log4j:jar:1.2.12 [DEBUG] Included: commons-logging:commons-logging-api:jar:1.1 [DEBUG] Included: com.google.collections:google-collections:jar:1.0 [DEBUG] Included: junit:junit:jar:3.8.2 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/heatmap-editor [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/heatmap-editor/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/heatmap-editor/target/classes, /root/.m2/repository/org/swinglabs/swingx/swingx-all/1.6.4/swingx-all-1.6.4.jar, /root/.m2/repository/org/swinglabs/swing-layout/1.0.3/swing-layout-1.0.3.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/heatmap-editor/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:heatmap-editor:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/heatmap-editor/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/heatmap-editor/target/classes /root/.m2/repository/org/swinglabs/swingx/swingx-all/1.6.4/swingx-all-1.6.4.jar /root/.m2/repository/org/swinglabs/swing-layout/1.0.3/swing-layout-1.0.3.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/heatmap-editor/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/heatmap-editor/src/main/java /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/ContinuousMappingEditorPanel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/VirtualRange.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/BasicVirtualRange.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/TriangleThumbRenderer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/GradientColorInterpolator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/YValueLegendPanel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/BelowAndAbovePanel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/ColorInterpolator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/MinMaxDialog.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/Main.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/MultiColorThumbModel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/CyGradientTrackRenderer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/CyColorChooser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/heatmap-editor/src/main/java/cytoscape/visual/ui/editors/continuous/GradientEditorPanel.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] /root/.m2/repository/org/swinglabs/swingx/swingx-all/1.6.4/swingx-all-1.6.4.jar [DEBUG] /root/.m2/repository/org/swinglabs/swing-layout/1.0.3/swing-layout-1.0.3.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/heatmap-editor/src/main/java [DEBUG] /media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 14 source files to /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ heatmap-editor --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/heatmap-editor/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/heatmap-editor/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:32Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/heatmap-editor/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 0 resource [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ heatmap-editor --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/heatmap-editor [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/heatmap-editor/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/heatmap-editor/target/test-classes, /media/Script/prog/IGB/core/heatmap-editor/target/classes, /root/.m2/repository/org/swinglabs/swingx/swingx-all/1.6.4/swingx-all-1.6.4.jar, /root/.m2/repository/org/swinglabs/swing-layout/1.0.3/swing-layout-1.0.3.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/heatmap-editor/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=198062, ConflictMarker.markTime=119556, ConflictMarker.nodeCount=114, ConflictIdSorter.graphTime=158410, ConflictIdSorter.topsortTime=93787, ConflictIdSorter.conflictIdCount=34, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1507234, ConflictResolver.conflictItemCount=80, DefaultDependencyCollector.collectTime=39081456, DefaultDependencyCollector.transformTime=2130575} [DEBUG] org.apache.maven.plugins:maven-surefire-plugin:jar:2.19 [DEBUG] org.apache.maven:maven-plugin-api:jar:2.2.1:compile [DEBUG] org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile [DEBUG] org.apache.maven.surefire:surefire-booter:jar:2.19:compile (version managed from default) [DEBUG] org.apache.maven:maven-artifact:jar:2.2.1:compile (version managed from default) [DEBUG] org.codehaus.plexus:plexus-utils:jar:1.5.15:compile [DEBUG] org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile (version managed from default) [DEBUG] org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile [DEBUG] junit:junit:jar:4.12:compile (version managed from default) [DEBUG] org.hamcrest:hamcrest-core:jar:1.3:compile [DEBUG] org.apache.maven:maven-project:jar:2.2.1:compile (version managed from default) [DEBUG] org.apache.maven:maven-settings:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-profile:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-artifact-manager:jar:2.2.1:compile [DEBUG] backport-util-concurrent:backport-util-concurrent:jar:3.1:compile [DEBUG] org.apache.maven:maven-plugin-registry:jar:2.2.1:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.11:compile [DEBUG] org.apache.maven:maven-model:jar:2.2.1:compile (version managed from default) [DEBUG] org.apache.maven:maven-core:jar:2.2.1:compile (version managed from default) (exclusions managed from default) [DEBUG] org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile [DEBUG] org.slf4j:slf4j-jdk14:jar:1.5.6:runtime [DEBUG] org.slf4j:slf4j-api:jar:1.5.6:runtime [DEBUG] org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime [DEBUG] org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile (version managed from default) [DEBUG] org.apache.maven:maven-repository-metadata:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-monitor:jar:2.2.1:compile [DEBUG] classworlds:classworlds:jar:1.1:compile [DEBUG] org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile [DEBUG] org.sonatype.plexus:plexus-cipher:jar:1.4:compile [DEBUG] org.apache.commons:commons-lang3:jar:3.1:compile (version managed from default) [DEBUG] org.apache.maven.surefire:surefire-api:jar:2.19:compile [DEBUG] org.apache.maven:maven-toolchain:jar:2.2.1:compile [DEBUG] org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19 [DEBUG] Included: org.apache.maven.plugins:maven-surefire-plugin:jar:2.19 [DEBUG] Included: org.apache.maven.surefire:maven-surefire-common:jar:2.19 [DEBUG] Included: org.apache.maven.surefire:surefire-booter:jar:2.19 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:1.5.15 [DEBUG] Included: junit:junit:jar:4.12 [DEBUG] Included: org.hamcrest:hamcrest-core:jar:1.3 [DEBUG] Included: backport-util-concurrent:backport-util-concurrent:jar:3.1 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.11 [DEBUG] Included: org.slf4j:slf4j-jdk14:jar:1.5.6 [DEBUG] Included: org.slf4j:jcl-over-slf4j:jar:1.5.6 [DEBUG] Included: org.apache.maven.reporting:maven-reporting-api:jar:3.0 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: org.apache.commons:commons-lang3:jar:3.1 [DEBUG] Included: org.apache.maven.surefire:surefire-api:jar:2.19 [DEBUG] Included: org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/heatmap-editor [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.swinglabs.swingx:swingx-all=org.swinglabs.swingx:swingx-all:jar:1.6.4:provided, org.swinglabs:swing-layout=org.swinglabs:swing-layout:jar:1.0.3:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/heatmap-editor/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/heatmap-editor [DEBUG] (s) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ heatmap-editor --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/heatmap-editor/target [DEBUG] (f) finalName = heatmap-editor-9.1.4 [DEBUG] (f) instructions = {Bundle-ActivationPolicy=lazy, Bundle-SymbolicName=heatmap-editor, Embed-Dependency=*;scope=compile|runtime, Embed-Transitive=true, Export-Package=cytoscape.visual.ui.editors.continuous, Import-Package=*;resolution:=optional} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/heatmap-editor/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/heatmap-editor/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:heatmap-editor:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=50661, ConflictMarker.markTime=32983, ConflictMarker.nodeCount=4, ConflictIdSorter.graphTime=8227, ConflictIdSorter.topsortTime=16197, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=262179, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=1535662, DefaultDependencyCollector.transformTime=404523} [DEBUG] org.lorainelab.igb:heatmap-editor:bundle:9.1.4 [DEBUG] org.swinglabs.swingx:swingx-all:jar:1.6.4:provided [DEBUG] org.swinglabs:swing-layout:jar:1.0.3:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:03:33 CET 2020 pom.id=org.lorainelab.igb\:heatmap-editor\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io Embed-Dependency=*;scope\=compile|runtime felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/heatmap-editor/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 Bundle-ActivationPolicy=lazy pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.heatmap-editor java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/heatmap-editor/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/heatmap-editor/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=heatmap-editor env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Heatmap Editor file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:heatmap-editor\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=cytoscape.visual.ui.editors.continuous java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Embed-Transitive=true line.separator=\n project.build.directory=/media/Script/prog/IGB/core/heatmap-editor/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:heatmap-editor\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/heatmap-editor os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@38968752 env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@38968752 env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/heatmap-editor project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=heatmap-editor sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=cytoscape.visual.ui.editors.continuous project.build.artifactId=heatmap-editor felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Heatmap Editor env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@38968752 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/heatmap-editor project.build.name=Core - Heatmap Editor org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=*;resolution\:\=optional os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/heatmap-editor logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/heatmap-editor sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/heatmap-editor/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=heatmap-editor user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/heatmap-editor/src/main/java,/media/Script/prog/IGB/core/heatmap-editor/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Heatmap Editor maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/heatmap-editor/target/classes,\ /root/.m2/repository/org/swinglabs/swingx/swingx-all/1.6.4/swingx-all-1.6.4.jar,\ /root/.m2/repository/org/swinglabs/swing-layout/1.0.3/swing-layout-1.0.3.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514214047 Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - Heatmap Editor Bundle-SymbolicName: heatmap-editor Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: cytoscape.visual.ui.editors.continuous;uses:="javax.swin g,org.jdesktop.swingx,org.jdesktop.swingx.multislider";version="9.1.4" Import-Package: com.google.common.base;resolution:=optional;version="[16.0,17)", javax.swing;resolution:=optional, javax.swing.border;resolution:=optional, javax.swing.event;resolution:=optional, javax.swing.text;resolution:=optional, org.jdesktop.layout;resolution:=optional, org.jdesktop.swingx;resolution:=optional, org.jdesktop.swingx.multislider;resolution:=optional Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514214047 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - Heatmap Editor Bundle-SymbolicName: heatmap-editor Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: cytoscape.visual.ui.editors.continuous;uses:="javax.swin g,org.jdesktop.swingx,org.jdesktop.swingx.multislider";version="9.1.4" Import-Package: com.google.common.base;resolution:=optional;version="[16.0,17)", javax.swing;resolution:=optional, javax.swing.border;resolution:=optional, javax.swing.event;resolution:=optional, javax.swing.text;resolution:=optional, org.jdesktop.layout;resolution:=optional, org.jdesktop.swingx;resolution:=optional, org.jdesktop.swingx.multislider;resolution:=optional Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=78337, ConflictMarker.markTime=64087, ConflictMarker.nodeCount=70, ConflictIdSorter.graphTime=61897, ConflictIdSorter.topsortTime=46733, ConflictIdSorter.conflictIdCount=29, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=816570, ConflictResolver.conflictItemCount=69, DefaultDependencyCollector.collectTime=24346904, DefaultDependencyCollector.transformTime=1112500} [DEBUG] org.apache.maven.plugins:maven-install-plugin:jar:3.0.0-M1 [DEBUG] org.apache.maven:maven-plugin-api:jar:3.0:compile [DEBUG] org.apache.maven:maven-model:jar:3.0:compile [DEBUG] org.sonatype.sisu:sisu-inject-plexus:jar:1.4.2:compile [DEBUG] org.codehaus.plexus:plexus-classworlds:jar:2.2.3:compile [DEBUG] org.sonatype.sisu:sisu-inject-bean:jar:1.4.2:compile [DEBUG] org.sonatype.sisu:sisu-guice:jar:noaop:2.1.7:compile [DEBUG] org.apache.maven:maven-artifact:jar:3.0:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:2.0.4:compile [DEBUG] org.apache.maven.shared:maven-artifact-transfer:jar:0.10.0:compile [DEBUG] org.apache.maven:maven-core:jar:3.0:compile [DEBUG] org.apache.maven:maven-settings:jar:3.0:compile [DEBUG] org.apache.maven:maven-settings-builder:jar:3.0:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:3.0:compile [DEBUG] org.apache.maven:maven-model-builder:jar:3.0:compile [DEBUG] org.apache.maven:maven-aether-provider:jar:3.0:runtime [DEBUG] org.sonatype.aether:aether-impl:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-spi:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-api:jar:1.7:compile [DEBUG] org.sonatype.aether:aether-util:jar:1.7:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.14:compile [DEBUG] org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile [DEBUG] org.sonatype.plexus:plexus-cipher:jar:1.4:compile [DEBUG] org.codehaus.plexus:plexus-component-annotations:jar:1.7.1:compile (version managed from default) [DEBUG] org.apache.maven.shared:maven-common-artifact-filters:jar:3.0.1:compile [DEBUG] org.apache.maven.shared:maven-shared-utils:jar:3.1.0:compile [DEBUG] commons-io:commons-io:jar:2.5:compile [DEBUG] commons-codec:commons-codec:jar:1.11:compile [DEBUG] org.slf4j:slf4j-api:jar:1.7.5:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1 [DEBUG] Included: org.apache.maven.plugins:maven-install-plugin:jar:3.0.0-M1 [DEBUG] Included: org.sonatype.sisu:sisu-inject-bean:jar:1.4.2 [DEBUG] Included: org.sonatype.sisu:sisu-guice:jar:noaop:2.1.7 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:2.0.4 [DEBUG] Included: org.apache.maven.shared:maven-artifact-transfer:jar:0.10.0 [DEBUG] Included: org.sonatype.aether:aether-util:jar:1.7 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.14 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: org.codehaus.plexus:plexus-component-annotations:jar:1.7.1 [DEBUG] Included: org.apache.maven.shared:maven-common-artifact-filters:jar:3.0.1 [DEBUG] Included: org.apache.maven.shared:maven-shared-utils:jar:3.1.0 [DEBUG] Included: commons-io:commons-io:jar:2.5 [DEBUG] Included: commons-codec:commons-codec:jar:1.11 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/heatmap-editor/target/heatmap-editor-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/heatmap-editor/9.1.4/heatmap-editor-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/heatmap-editor/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/heatmap-editor/pom.xml to /root/.m2/repository/org/lorainelab/igb/heatmap-editor/9.1.4/heatmap-editor-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/heatmap-editor/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:heatmap-editor/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/heatmap-editor/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ heatmap-editor --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/heatmap-editor/9.1.4/heatmap-editor-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/heatmap-editor/9.1.4/heatmap-editor-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ heatmap-editor --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=479972, ConflictMarker.markTime=310475, ConflictMarker.nodeCount=340, ConflictIdSorter.graphTime=167907, ConflictIdSorter.topsortTime=125267, ConflictIdSorter.conflictIdCount=83, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=2968203, ConflictResolver.conflictItemCount=200, DefaultDependencyCollector.collectTime=175153769, DefaultDependencyCollector.transformTime=4161677} [DEBUG] org.apache.maven.plugins:maven-dependency-plugin:jar:2.9 [DEBUG] org.apache.maven:maven-artifact:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-plugin-api:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-project:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-settings:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-profile:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-plugin-registry:jar:2.2.1:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.11:compile [DEBUG] org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile [DEBUG] junit:junit:jar:3.8.1:compile [DEBUG] org.apache.maven:maven-model:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-core:jar:2.2.1:compile [DEBUG] org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile [DEBUG] org.slf4j:slf4j-jdk14:jar:1.5.6:runtime [DEBUG] org.slf4j:slf4j-api:jar:1.5.6:runtime [DEBUG] org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime [DEBUG] org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile [DEBUG] commons-cli:commons-cli:jar:1.2:compile [DEBUG] org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile [DEBUG] org.codehaus.plexus:plexus-interactivity-api:jar:1.0-alpha-4:compile [DEBUG] org.apache.maven:maven-monitor:jar:2.2.1:compile [DEBUG] org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile [DEBUG] org.sonatype.plexus:plexus-cipher:jar:1.4:compile [DEBUG] org.apache.maven:maven-artifact-manager:jar:2.2.1:compile [DEBUG] backport-util-concurrent:backport-util-concurrent:jar:3.1:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:2.2.1:compile [DEBUG] org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile [DEBUG] org.apache.maven.reporting:maven-reporting-impl:jar:2.2:compile [DEBUG] org.apache.maven.doxia:doxia-core:jar:1.2:compile [DEBUG] xerces:xercesImpl:jar:2.9.1:compile [DEBUG] xml-apis:xml-apis:jar:1.3.04:compile [DEBUG] org.apache.httpcomponents:httpclient:jar:4.0.2:compile [DEBUG] org.apache.httpcomponents:httpcore:jar:4.0.1:compile [DEBUG] commons-codec:commons-codec:jar:1.3:compile [DEBUG] commons-validator:commons-validator:jar:1.3.1:compile [DEBUG] commons-beanutils:commons-beanutils:jar:1.7.0:compile [DEBUG] commons-digester:commons-digester:jar:1.6:compile [DEBUG] commons-logging:commons-logging:jar:1.0.4:compile [DEBUG] commons-io:commons-io:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-sink-api:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-logging-api:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-site-renderer:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-decoration-model:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-module-xhtml:jar:1.4:compile [DEBUG] org.apache.maven.doxia:doxia-module-fml:jar:1.4:compile [DEBUG] org.codehaus.plexus:plexus-i18n:jar:1.0-beta-7:compile [DEBUG] org.codehaus.plexus:plexus-velocity:jar:1.1.7:compile [DEBUG] org.apache.velocity:velocity:jar:1.5:compile [DEBUG] oro:oro:jar:2.0.8:compile [DEBUG] org.apache.velocity:velocity-tools:jar:2.0:compile [DEBUG] commons-chain:commons-chain:jar:1.1:compile [DEBUG] dom4j:dom4j:jar:1.1:compile [DEBUG] sslext:sslext:jar:1.2-0:compile [DEBUG] org.apache.struts:struts-core:jar:1.3.8:compile [DEBUG] antlr:antlr:jar:2.7.2:compile [DEBUG] org.apache.struts:struts-taglib:jar:1.3.8:compile [DEBUG] org.apache.struts:struts-tiles:jar:1.3.8:compile [DEBUG] org.codehaus.plexus:plexus-component-annotations:jar:1.5.5:compile (version managed from default) [DEBUG] org.codehaus.plexus:plexus-archiver:jar:2.4.4:compile [DEBUG] org.apache.commons:commons-compress:jar:1.5:compile [DEBUG] org.tukaani:xz:jar:1.2:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0.15:compile [DEBUG] org.apache.maven.shared:file-management:jar:1.2.1:compile [DEBUG] org.apache.maven.shared:maven-shared-io:jar:1.1:compile [DEBUG] org.apache.maven.wagon:wagon-provider-api:jar:1.0-alpha-6:compile [DEBUG] org.codehaus.plexus:plexus-io:jar:2.0.9:compile [DEBUG] org.apache.maven.shared:maven-dependency-analyzer:jar:1.5:compile [DEBUG] org.ow2.asm:asm:jar:5.0.2:compile [DEBUG] org.apache.maven.shared:maven-dependency-tree:jar:2.2:compile [DEBUG] org.eclipse.aether:aether-util:jar:0.9.0.M2:compile [DEBUG] org.apache.maven.shared:maven-common-artifact-filters:jar:1.4:compile [DEBUG] org.apache.maven.shared:maven-invoker:jar:2.1.1:compile [DEBUG] commons-lang:commons-lang:jar:2.6:compile [DEBUG] commons-collections:commons-collections:jar:3.2.1:compile [DEBUG] classworlds:classworlds:jar:1.1:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9 [DEBUG] Imported: < project>org.lorainelab.igb:heatmap-editor:9.1.4 [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9 [DEBUG] Included: org.apache.maven.plugins:maven-dependency-plugin:jar:2.9 [DEBUG] Included: org.codehaus.plexus:plexus-interpolation:jar:1.11 [DEBUG] Included: junit:junit:jar:3.8.1 [DEBUG] Included: org.slf4j:slf4j-jdk14:jar:1.5.6 [DEBUG] Included: org.slf4j:jcl-over-slf4j:jar:1.5.6 [DEBUG] Included: commons-cli:commons-cli:jar:1.2 [DEBUG] Included: org.codehaus.plexus:plexus-interactivity-api:jar:1.0-alpha-4 [DEBUG] Included: org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3 [DEBUG] Included: org.sonatype.plexus:plexus-cipher:jar:1.4 [DEBUG] Included: backport-util-concurrent:backport-util-concurrent:jar:3.1 [DEBUG] Included: org.apache.maven.reporting:maven-reporting-api:jar:3.0 [DEBUG] Included: org.apache.maven.reporting:maven-reporting-impl:jar:2.2 [DEBUG] Included: org.apache.maven.doxia:doxia-core:jar:1.2 [DEBUG] Included: xerces:xercesImpl:jar:2.9.1 [DEBUG] Included: xml-apis:xml-apis:jar:1.3.04 [DEBUG] Included: org.apache.httpcomponents:httpclient:jar:4.0.2 [DEBUG] Included: org.apache.httpcomponents:httpcore:jar:4.0.1 [DEBUG] Included: commons-codec:commons-codec:jar:1.3 [DEBUG] Included: commons-validator:commons-validator:jar:1.3.1 [DEBUG] Included: commons-beanutils:commons-beanutils:jar:1.7.0 [DEBUG] Included: commons-digester:commons-digester:jar:1.6 [DEBUG] Included: commons-logging:commons-logging:jar:1.0.4 [DEBUG] Included: commons-io:commons-io:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-sink-api:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-logging-api:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-site-renderer:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-decoration-model:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-module-xhtml:jar:1.4 [DEBUG] Included: org.apache.maven.doxia:doxia-module-fml:jar:1.4 [DEBUG] Included: org.codehaus.plexus:plexus-i18n:jar:1.0-beta-7 [DEBUG] Included: org.codehaus.plexus:plexus-velocity:jar:1.1.7 [DEBUG] Included: org.apache.velocity:velocity:jar:1.5 [DEBUG] Included: oro:oro:jar:2.0.8 [DEBUG] Included: org.apache.velocity:velocity-tools:jar:2.0 [DEBUG] Included: commons-chain:commons-chain:jar:1.1 [DEBUG] Included: dom4j:dom4j:jar:1.1 [DEBUG] Included: sslext:sslext:jar:1.2-0 [DEBUG] Included: org.apache.struts:struts-core:jar:1.3.8 [DEBUG] Included: antlr:antlr:jar:2.7.2 [DEBUG] Included: org.apache.struts:struts-taglib:jar:1.3.8 [DEBUG] Included: org.apache.struts:struts-tiles:jar:1.3.8 [DEBUG] Included: org.codehaus.plexus:plexus-component-annotations:jar:1.5.5 [DEBUG] Included: org.codehaus.plexus:plexus-archiver:jar:2.4.4 [DEBUG] Included: org.apache.commons:commons-compress:jar:1.5 [DEBUG] Included: org.tukaani:xz:jar:1.2 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0.15 [DEBUG] Included: org.apache.maven.shared:file-management:jar:1.2.1 [DEBUG] Included: org.apache.maven.shared:maven-shared-io:jar:1.1 [DEBUG] Included: org.codehaus.plexus:plexus-io:jar:2.0.9 [DEBUG] Included: org.apache.maven.shared:maven-dependency-analyzer:jar:1.5 [DEBUG] Included: org.ow2.asm:asm:jar:5.0.2 [DEBUG] Included: org.apache.maven.shared:maven-dependency-tree:jar:2.2 [DEBUG] Included: org.eclipse.aether:aether-util:jar:0.9.0.M2 [DEBUG] Included: org.apache.maven.shared:maven-common-artifact-filters:jar:1.4 [DEBUG] Included: org.apache.maven.shared:maven-invoker:jar:2.1.1 [DEBUG] Included: commons-lang:commons-lang:jar:2.6 [DEBUG] Included: commons-collections:commons-collections:jar:3.2.1 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = heatmap-editor [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:heatmap-editor:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:heatmap-editor:9.1.4:jar [INFO] Copying heatmap-editor-9.1.4.jar to /media/Script/prog/IGB/bundles/heatmap-editor-9.1.4.jar [INFO] [INFO] ----------------< org.lorainelab.igb:affymetrix-common >---------------- [INFO] Building Core - Affymetrix Common 9.1.4 [3/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:affymetrix-common:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/common/bundles affymetrix-common-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} affymetrix-common *;scope=compile|runtime;inline=true true {maven-resources} *;resolution:=optional com.affymetrix.common lazy ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb affymetrix-common 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=29597, ConflictMarker.markTime=34365, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=10791, ConflictIdSorter.topsortTime=23367, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=223221, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=12171963, DefaultDependencyCollector.transformTime=366653} [DEBUG] org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:runtime [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] javax.jlfgr:jlfgr:jar:1.0:runtime [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:compile [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/common/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/common/bundles [DEBUG] (f) includes = [affymetrix-common-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/common/bundles (included: [affymetrix-common-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/common/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/common/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/common/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/common/target [INFO] Deleting file /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/common/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/common/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/CommonUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/ExtensionPointHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/ExtensionPointListener.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils.class [INFO] Deleting file 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/media/Script/prog/IGB/core/common/target/classes/16x16/igb/info_icon.gif [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/16x16/igb [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/yellow_pin.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/warning.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/up.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/unlock_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/uncolor_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/un_lock.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/un-Float.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/tair.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/summary.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandstogether.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandseparate.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandscoloredsame.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandscoloreddifferently.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stop_hex.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stop.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stock_pin.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/speech-bubble.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_visual_tools.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/set_summary_threshhold.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/searchweb.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/search.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save_session.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/run_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/right.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/resize_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/report_bug.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/remove_data.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/refresh.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/red_pin.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/red_close.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/print_whole_frame.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/print.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences_updated.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences_styles.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pref_import.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pref_export.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pointed.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/optimize_stack_depth.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/optimize_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/open_hand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/no_color_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/no_arrows.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/new_genome.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/ncbi.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/max_stack_depth.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/lock_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/lock.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/load_session.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/left.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/label_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/info.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home_updated.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide_visual_tools.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/help.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/google.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/gear_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/font_size.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/fit_to_window.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/fa-circle.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/export_image.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/expand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/equalizer.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/down.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/documentation.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/dna.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete_bookmark.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/cross.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/copy_sequence.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/copy.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/console.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/configure_autoscroll.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/colorschemechooser.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/color_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/collapse.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/clear_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/center_on_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/cancel_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/camera_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/camera.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/blunt.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/blank_placeholder.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/black_pin.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoscroll_stop.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoscroll.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoload.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/arrows.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/arrow.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/applications-graphics-5.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/anchor.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/about_igb.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Shrinkwrap.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Set_Autoload_threshhold.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Sequence_Viewer_export.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Sequence_Viewer.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Select_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Repack_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Repack.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences_other_options.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences_data_sources(configure).png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences shortcuts.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences plug-ins.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Load_sequence_in_view.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Genome_Viewer_reads.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Float.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/FG_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Customize.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Clamp_to_view.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/BG_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/2_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/16x16/actions/1_track.png [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/16x16/actions [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/16x16 [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/common/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/common/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/common/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/common/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/common/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/common/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: true, FileSet {directory: /media/Script/prog/IGB/core/common/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/common/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:36Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/common/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 285 resources [DEBUG] Copying file 16x16/actions/1_track.png [DEBUG] file 1_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/1_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/1_track.png [DEBUG] Copying file 16x16/actions/2_track.png [DEBUG] file 2_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/2_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/2_track.png [DEBUG] Copying file 16x16/actions/BG_color.png [DEBUG] file BG_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/BG_color.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/BG_color.png [DEBUG] Copying file 16x16/actions/Clamp_to_view.png [DEBUG] file Clamp_to_view.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Clamp_to_view.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Clamp_to_view.png [DEBUG] Copying file 16x16/actions/Customize.png [DEBUG] file Customize.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Customize.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Customize.png [DEBUG] Copying file 16x16/actions/FG_color.png [DEBUG] file FG_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/FG_color.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/FG_color.png [DEBUG] Copying file 16x16/actions/Float.png [DEBUG] file Float.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Float.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Float.png [DEBUG] Copying file 16x16/actions/Genome_Viewer_reads.png [DEBUG] file Genome_Viewer_reads.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Genome_Viewer_reads.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Genome_Viewer_reads.png [DEBUG] Copying file 16x16/actions/Load_sequence_in_view.png [DEBUG] file Load_sequence_in_view.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Load_sequence_in_view.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Load_sequence_in_view.png [DEBUG] Copying file 16x16/actions/Preferences plug-ins.png [DEBUG] file Preferences plug-ins.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Preferences plug-ins.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences plug-ins.png [DEBUG] Copying file 16x16/actions/Preferences shortcuts.png [DEBUG] file Preferences shortcuts.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Preferences shortcuts.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences shortcuts.png [DEBUG] Copying file 16x16/actions/Preferences_data_sources(configure).png [DEBUG] file Preferences_data_sources(configure).png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Preferences_data_sources(configure).png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences_data_sources(configure).png [DEBUG] Copying file 16x16/actions/Preferences_other_options.png [DEBUG] file Preferences_other_options.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Preferences_other_options.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Preferences_other_options.png [DEBUG] Copying file 16x16/actions/Repack.png [DEBUG] file Repack.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Repack.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Repack.png [DEBUG] Copying file 16x16/actions/Repack_all.png [DEBUG] file Repack_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Repack_all.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Repack_all.png [DEBUG] Copying file 16x16/actions/Select_all.png [DEBUG] file Select_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Select_all.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Select_all.png [DEBUG] Copying file 16x16/actions/Sequence_Viewer.png [DEBUG] file Sequence_Viewer.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Sequence_Viewer.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Sequence_Viewer.png [DEBUG] Copying file 16x16/actions/Sequence_Viewer_export.png [DEBUG] file Sequence_Viewer_export.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Sequence_Viewer_export.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Sequence_Viewer_export.png [DEBUG] Copying file 16x16/actions/Set_Autoload_threshhold.png [DEBUG] file Set_Autoload_threshhold.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Set_Autoload_threshhold.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Set_Autoload_threshhold.png [DEBUG] Copying file 16x16/actions/Shrinkwrap.png [DEBUG] file Shrinkwrap.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/Shrinkwrap.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/Shrinkwrap.png [DEBUG] Copying file 16x16/actions/about_igb.png [DEBUG] file about_igb.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/about_igb.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/about_igb.png [DEBUG] Copying file 16x16/actions/anchor.png [DEBUG] file anchor.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/anchor.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/anchor.png [DEBUG] Copying file 16x16/actions/applications-graphics-5.png [DEBUG] file applications-graphics-5.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/applications-graphics-5.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/applications-graphics-5.png [DEBUG] Copying file 16x16/actions/arrow.png [DEBUG] file arrow.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/arrow.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/arrow.png [DEBUG] Copying file 16x16/actions/arrows.png [DEBUG] file arrows.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/arrows.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/arrows.png [DEBUG] Copying file 16x16/actions/autoload.png [DEBUG] file autoload.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/autoload.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoload.png [DEBUG] Copying file 16x16/actions/autoscroll.png [DEBUG] file autoscroll.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/autoscroll.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoscroll.png [DEBUG] Copying file 16x16/actions/autoscroll_stop.png [DEBUG] file autoscroll_stop.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/autoscroll_stop.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/autoscroll_stop.png [DEBUG] Copying file 16x16/actions/black_pin.png [DEBUG] file black_pin.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/black_pin.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/black_pin.png [DEBUG] Copying file 16x16/actions/blank_placeholder.png [DEBUG] file blank_placeholder.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/blank_placeholder.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/blank_placeholder.png [DEBUG] Copying file 16x16/actions/blunt.png [DEBUG] file blunt.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/blunt.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/blunt.png [DEBUG] Copying file 16x16/actions/camera.png [DEBUG] file camera.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/camera.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/camera.png [DEBUG] Copying file 16x16/actions/camera_toolbar.png [DEBUG] file camera_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/camera_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/camera_toolbar.png [DEBUG] Copying file 16x16/actions/cancel_script.png [DEBUG] file cancel_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/cancel_script.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/cancel_script.png [DEBUG] Copying file 16x16/actions/center_on_zoom_stripe.png [DEBUG] file center_on_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/center_on_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/center_on_zoom_stripe.png [DEBUG] Copying file 16x16/actions/clear_script.png [DEBUG] file clear_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/clear_script.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/clear_script.png [DEBUG] Copying file 16x16/actions/collapse.png [DEBUG] file collapse.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/collapse.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/collapse.png [DEBUG] Copying file 16x16/actions/color_by_strand.png [DEBUG] file color_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/color_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/color_by_strand.png [DEBUG] Copying file 16x16/actions/colorschemechooser.png [DEBUG] file colorschemechooser.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/colorschemechooser.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/colorschemechooser.png [DEBUG] Copying file 16x16/actions/configure_autoscroll.png [DEBUG] file configure_autoscroll.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/configure_autoscroll.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/configure_autoscroll.png [DEBUG] Copying file 16x16/actions/console.png [DEBUG] file console.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/console.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/console.png [DEBUG] Copying file 16x16/actions/copy.png [DEBUG] file copy.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/copy.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/copy.png [DEBUG] Copying file 16x16/actions/copy_sequence.png [DEBUG] file copy_sequence.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/copy_sequence.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/copy_sequence.png [DEBUG] Copying file 16x16/actions/cross.png [DEBUG] file cross.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/cross.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/cross.png [DEBUG] Copying file 16x16/actions/delete.gif [DEBUG] file delete.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/delete.gif to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete.gif [DEBUG] Copying file 16x16/actions/delete.png [DEBUG] file delete.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/delete.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete.png [DEBUG] Copying file 16x16/actions/delete_bookmark.png [DEBUG] file delete_bookmark.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/delete_bookmark.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete_bookmark.png [DEBUG] Copying file 16x16/actions/delete_track.png [DEBUG] file delete_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/delete_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/delete_track.png [DEBUG] Copying file 16x16/actions/dna.gif [DEBUG] file dna.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/dna.gif to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/dna.gif [DEBUG] Copying file 16x16/actions/documentation.png [DEBUG] file documentation.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/documentation.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/documentation.png [DEBUG] Copying file 16x16/actions/down.png [DEBUG] file down.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/down.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/down.png [DEBUG] Copying file 16x16/actions/equalizer.png [DEBUG] file equalizer.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/equalizer.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/equalizer.png [DEBUG] Copying file 16x16/actions/expand.png [DEBUG] file expand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/expand.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/expand.png [DEBUG] Copying file 16x16/actions/export_image.png [DEBUG] file export_image.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/export_image.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/export_image.png [DEBUG] Copying file 16x16/actions/fa-circle.png [DEBUG] file fa-circle.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/fa-circle.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/fa-circle.png [DEBUG] Copying file 16x16/actions/fit_to_window.png [DEBUG] file fit_to_window.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/fit_to_window.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/fit_to_window.png [DEBUG] Copying file 16x16/actions/font_size.png [DEBUG] file font_size.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/font_size.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/font_size.png [DEBUG] Copying file 16x16/actions/gear_toolbar.png [DEBUG] file gear_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/gear_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/gear_toolbar.png [DEBUG] Copying file 16x16/actions/google.png [DEBUG] file google.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/google.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/google.png [DEBUG] Copying file 16x16/actions/help.png [DEBUG] file help.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/help.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/help.png [DEBUG] Copying file 16x16/actions/hide.png [DEBUG] file hide.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/hide.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide.png [DEBUG] Copying file 16x16/actions/hide_visual_tools.png [DEBUG] file hide_visual_tools.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/hide_visual_tools.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide_visual_tools.png [DEBUG] Copying file 16x16/actions/hide_zoom_stripe.png [DEBUG] file hide_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/hide_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/hide_zoom_stripe.png [DEBUG] Copying file 16x16/actions/home.png [DEBUG] file home.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/home.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home.png [DEBUG] Copying file 16x16/actions/home_toolbar.png [DEBUG] file home_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/home_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home_toolbar.png [DEBUG] Copying file 16x16/actions/home_updated.png [DEBUG] file home_updated.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/home_updated.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/home_updated.png [DEBUG] Copying file 16x16/actions/info.png [DEBUG] file info.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/info.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/info.png [DEBUG] Copying file 16x16/actions/label_color.png [DEBUG] file label_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/label_color.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/label_color.png [DEBUG] Copying file 16x16/actions/left.png [DEBUG] file left.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/left.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/left.png [DEBUG] Copying file 16x16/actions/load_session.png [DEBUG] file load_session.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/load_session.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/load_session.png [DEBUG] Copying file 16x16/actions/lock.png [DEBUG] file lock.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/lock.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/lock.png [DEBUG] Copying file 16x16/actions/lock_track.png [DEBUG] file lock_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/lock_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/lock_track.png [DEBUG] Copying file 16x16/actions/max_stack_depth.png [DEBUG] file max_stack_depth.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/max_stack_depth.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/max_stack_depth.png [DEBUG] Copying file 16x16/actions/ncbi.png [DEBUG] file ncbi.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/ncbi.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/ncbi.png [DEBUG] Copying file 16x16/actions/new_genome.png [DEBUG] file new_genome.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/new_genome.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/new_genome.png [DEBUG] Copying file 16x16/actions/no_arrows.png [DEBUG] file no_arrows.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/no_arrows.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/no_arrows.png [DEBUG] Copying file 16x16/actions/no_color_by_strand.png [DEBUG] file no_color_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/no_color_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/no_color_by_strand.png [DEBUG] Copying file 16x16/actions/open_hand.png [DEBUG] file open_hand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/open_hand.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/open_hand.png [DEBUG] Copying file 16x16/actions/optimize_all.png [DEBUG] file optimize_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/optimize_all.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/optimize_all.png [DEBUG] Copying file 16x16/actions/optimize_stack_depth.png [DEBUG] file optimize_stack_depth.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/optimize_stack_depth.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/optimize_stack_depth.png [DEBUG] Copying file 16x16/actions/pointed.png [DEBUG] file pointed.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/pointed.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pointed.png [DEBUG] Copying file 16x16/actions/pref_export.png [DEBUG] file pref_export.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/pref_export.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pref_export.png [DEBUG] Copying file 16x16/actions/pref_import.png [DEBUG] file pref_import.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/pref_import.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/pref_import.png [DEBUG] Copying file 16x16/actions/preferences.png [DEBUG] file preferences.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/preferences.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences.png [DEBUG] Copying file 16x16/actions/preferences_styles.png [DEBUG] file preferences_styles.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/preferences_styles.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences_styles.png [DEBUG] Copying file 16x16/actions/preferences_updated.png [DEBUG] file preferences_updated.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/preferences_updated.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/preferences_updated.png [DEBUG] Copying file 16x16/actions/print.png [DEBUG] file print.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/print.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/print.png [DEBUG] Copying file 16x16/actions/print_whole_frame.png [DEBUG] file print_whole_frame.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/print_whole_frame.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/print_whole_frame.png [DEBUG] Copying file 16x16/actions/red_close.png [DEBUG] file red_close.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/red_close.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/red_close.png [DEBUG] Copying file 16x16/actions/red_pin.png [DEBUG] file red_pin.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/red_pin.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/red_pin.png [DEBUG] Copying file 16x16/actions/refresh.png [DEBUG] file refresh.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/refresh.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/refresh.png [DEBUG] Copying file 16x16/actions/remove_data.png [DEBUG] file remove_data.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/remove_data.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/remove_data.png [DEBUG] Copying file 16x16/actions/report_bug.png [DEBUG] file report_bug.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/report_bug.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/report_bug.png [DEBUG] Copying file 16x16/actions/resize_track.png [DEBUG] file resize_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/resize_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/resize_track.png [DEBUG] Copying file 16x16/actions/right.png [DEBUG] file right.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/right.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/right.png [DEBUG] Copying file 16x16/actions/run_script.png [DEBUG] file run_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/run_script.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/run_script.png [DEBUG] Copying file 16x16/actions/save.png [DEBUG] file save.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/save.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save.png [DEBUG] Copying file 16x16/actions/save_script.png [DEBUG] file save_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/save_script.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save_script.png [DEBUG] Copying file 16x16/actions/save_session.png [DEBUG] file save_session.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/save_session.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/save_session.png [DEBUG] Copying file 16x16/actions/search.png [DEBUG] file search.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/search.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/search.png [DEBUG] Copying file 16x16/actions/searchweb.png [DEBUG] file searchweb.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/searchweb.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/searchweb.png [DEBUG] Copying file 16x16/actions/set_summary_threshhold.png [DEBUG] file set_summary_threshhold.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/set_summary_threshhold.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/set_summary_threshhold.png [DEBUG] Copying file 16x16/actions/show.png [DEBUG] file show.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/show.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show.png [DEBUG] Copying file 16x16/actions/show_all.png [DEBUG] file show_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/show_all.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_all.png [DEBUG] Copying file 16x16/actions/show_visual_tools.png [DEBUG] file show_visual_tools.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/show_visual_tools.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_visual_tools.png [DEBUG] Copying file 16x16/actions/show_zoom_stripe.png [DEBUG] file show_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/show_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/show_zoom_stripe.png [DEBUG] Copying file 16x16/actions/speech-bubble.png [DEBUG] file speech-bubble.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/speech-bubble.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/speech-bubble.png [DEBUG] Copying file 16x16/actions/stock_pin.png [DEBUG] file stock_pin.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/stock_pin.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stock_pin.png [DEBUG] Copying file 16x16/actions/stop.png [DEBUG] file stop.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/stop.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stop.png [DEBUG] Copying file 16x16/actions/stop_hex.gif [DEBUG] file stop_hex.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/stop_hex.gif to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/stop_hex.gif [DEBUG] Copying file 16x16/actions/strandscoloreddifferently.png [DEBUG] file strandscoloreddifferently.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/strandscoloreddifferently.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandscoloreddifferently.png [DEBUG] Copying file 16x16/actions/strandscoloredsame.png [DEBUG] file strandscoloredsame.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/strandscoloredsame.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandscoloredsame.png [DEBUG] Copying file 16x16/actions/strandseparate.png [DEBUG] file strandseparate.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/strandseparate.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandseparate.png [DEBUG] Copying file 16x16/actions/strandstogether.png [DEBUG] file strandstogether.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/strandstogether.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/strandstogether.png [DEBUG] Copying file 16x16/actions/summary.png [DEBUG] file summary.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/summary.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/summary.png [DEBUG] Copying file 16x16/actions/tair.png [DEBUG] file tair.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/tair.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/tair.png [DEBUG] Copying file 16x16/actions/un-Float.png [DEBUG] file un-Float.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/un-Float.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/un-Float.png [DEBUG] Copying file 16x16/actions/un_lock.png [DEBUG] file un_lock.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/un_lock.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/un_lock.png [DEBUG] Copying file 16x16/actions/uncolor_by_strand.png [DEBUG] file uncolor_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/uncolor_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/uncolor_by_strand.png [DEBUG] Copying file 16x16/actions/unlock_track.png [DEBUG] file unlock_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/unlock_track.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/unlock_track.png [DEBUG] Copying file 16x16/actions/up.png [DEBUG] file up.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/up.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/up.png [DEBUG] Copying file 16x16/actions/warning.png [DEBUG] file warning.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/warning.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/warning.png [DEBUG] Copying file 16x16/actions/yellow_pin.png [DEBUG] file yellow_pin.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/actions/yellow_pin.png to /media/Script/prog/IGB/core/common/target/classes/16x16/actions/yellow_pin.png [DEBUG] Copying file 16x16/igb/info_icon.gif [DEBUG] file info_icon.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/16x16/igb/info_icon.gif to /media/Script/prog/IGB/core/common/target/classes/16x16/igb/info_icon.gif [DEBUG] Copying file 22x22/actions/1_track.png [DEBUG] file 1_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/1_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/1_track.png [DEBUG] Copying file 22x22/actions/2_track.png [DEBUG] file 2_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/2_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/2_track.png [DEBUG] Copying file 22x22/actions/BG_color.png [DEBUG] file BG_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/BG_color.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/BG_color.png [DEBUG] Copying file 22x22/actions/Clamp_to_view.png [DEBUG] file Clamp_to_view.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Clamp_to_view.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Clamp_to_view.png [DEBUG] Copying file 22x22/actions/Customize.png [DEBUG] file Customize.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Customize.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Customize.png [DEBUG] Copying file 22x22/actions/FG_color.png [DEBUG] file FG_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/FG_color.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/FG_color.png [DEBUG] Copying file 22x22/actions/Float.png [DEBUG] file Float.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Float.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Float.png [DEBUG] Copying file 22x22/actions/Genome_Viewer_reads.png [DEBUG] file Genome_Viewer_reads.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Genome_Viewer_reads.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Genome_Viewer_reads.png [DEBUG] Copying file 22x22/actions/Load_sequence_in_view.png [DEBUG] file Load_sequence_in_view.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Load_sequence_in_view.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Load_sequence_in_view.png [DEBUG] Copying file 22x22/actions/Preferences_data_sources(configure).png [DEBUG] file Preferences_data_sources(configure).png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Preferences_data_sources(configure).png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_data_sources(configure).png [DEBUG] Copying file 22x22/actions/Preferences_other_options.png [DEBUG] file Preferences_other_options.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Preferences_other_options.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_other_options.png [DEBUG] Copying file 22x22/actions/Preferences_plug-ins.png [DEBUG] file Preferences_plug-ins.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Preferences_plug-ins.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_plug-ins.png [DEBUG] Copying file 22x22/actions/Preferences_shortcuts.png [DEBUG] file Preferences_shortcuts.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Preferences_shortcuts.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_shortcuts.png [DEBUG] Copying file 22x22/actions/Repack.png [DEBUG] file Repack.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Repack.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Repack.png [DEBUG] Copying file 22x22/actions/Repack_all.png [DEBUG] file Repack_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Repack_all.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Repack_all.png [DEBUG] Copying file 22x22/actions/Select_all.png [DEBUG] file Select_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Select_all.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Select_all.png [DEBUG] Copying file 22x22/actions/Sequence_Viewer.png [DEBUG] file Sequence_Viewer.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Sequence_Viewer.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Sequence_Viewer.png [DEBUG] Copying file 22x22/actions/Sequence_Viewer_export.png [DEBUG] file Sequence_Viewer_export.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Sequence_Viewer_export.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Sequence_Viewer_export.png [DEBUG] Copying file 22x22/actions/Set_Autoload_threshhold.png [DEBUG] file Set_Autoload_threshhold.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Set_Autoload_threshhold.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Set_Autoload_threshhold.png [DEBUG] Copying file 22x22/actions/Shrinkwrap.png [DEBUG] file Shrinkwrap.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/Shrinkwrap.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Shrinkwrap.png [DEBUG] Copying file 22x22/actions/about_igb.png [DEBUG] file about_igb.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/about_igb.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/about_igb.png [DEBUG] Copying file 22x22/actions/anchor.png [DEBUG] file anchor.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/anchor.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/anchor.png [DEBUG] Copying file 22x22/actions/applications-graphics-5.png [DEBUG] file applications-graphics-5.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/applications-graphics-5.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/applications-graphics-5.png [DEBUG] Copying file 22x22/actions/arrows.png [DEBUG] file arrows.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/arrows.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/arrows.png [DEBUG] Copying file 22x22/actions/autoload.png [DEBUG] file autoload.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/autoload.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoload.png [DEBUG] Copying file 22x22/actions/autoscroll.png [DEBUG] file autoscroll.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/autoscroll.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoscroll.png [DEBUG] Copying file 22x22/actions/autoscroll_stop.png [DEBUG] file autoscroll_stop.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/autoscroll_stop.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoscroll_stop.png [DEBUG] Copying file 22x22/actions/blunt.png [DEBUG] file blunt.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/blunt.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/blunt.png [DEBUG] Copying file 22x22/actions/camera_toolbar.png [DEBUG] file camera_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/camera_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/camera_toolbar.png [DEBUG] Copying file 22x22/actions/cancel_script.png [DEBUG] file cancel_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/cancel_script.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/cancel_script.png [DEBUG] Copying file 22x22/actions/center_on_zoom_stripe.png [DEBUG] file center_on_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/center_on_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/center_on_zoom_stripe.png [DEBUG] Copying file 22x22/actions/clear_script.png [DEBUG] file clear_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/clear_script.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/clear_script.png [DEBUG] Copying file 22x22/actions/collapse.png [DEBUG] file collapse.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/collapse.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/collapse.png [DEBUG] Copying file 22x22/actions/color_by_strand.png [DEBUG] file color_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/color_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/color_by_strand.png [DEBUG] Copying file 22x22/actions/colorschemechooser.png [DEBUG] file colorschemechooser.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/colorschemechooser.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/colorschemechooser.png [DEBUG] Copying file 22x22/actions/configure_autoscroll.png [DEBUG] file configure_autoscroll.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/configure_autoscroll.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/configure_autoscroll.png [DEBUG] Copying file 22x22/actions/console.png [DEBUG] file console.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/console.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/console.png [DEBUG] Copying file 22x22/actions/copy_sequence.png [DEBUG] file copy_sequence.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/copy_sequence.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/copy_sequence.png [DEBUG] Copying file 22x22/actions/delete_bookmark.png [DEBUG] file delete_bookmark.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/delete_bookmark.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/delete_bookmark.png [DEBUG] Copying file 22x22/actions/delete_track.png [DEBUG] file delete_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/delete_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/delete_track.png [DEBUG] Copying file 22x22/actions/detail.png [DEBUG] file detail.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/detail.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/detail.png [DEBUG] Copying file 22x22/actions/documentation.png [DEBUG] file documentation.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/documentation.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/documentation.png [DEBUG] Copying file 22x22/actions/equalizer.png [DEBUG] file equalizer.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/equalizer.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/equalizer.png [DEBUG] Copying file 22x22/actions/expand.png [DEBUG] file expand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/expand.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/expand.png [DEBUG] Copying file 22x22/actions/export_image.png [DEBUG] file export_image.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/export_image.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/export_image.png [DEBUG] Copying file 22x22/actions/fa-circle.png [DEBUG] file fa-circle.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/fa-circle.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/fa-circle.png [DEBUG] Copying file 22x22/actions/fit_to_window.png [DEBUG] file fit_to_window.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/fit_to_window.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/fit_to_window.png [DEBUG] Copying file 22x22/actions/font_size.png [DEBUG] file font_size.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/font_size.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/font_size.png [DEBUG] Copying file 22x22/actions/gear_toolbar.png [DEBUG] file gear_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/gear_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/gear_toolbar.png [DEBUG] Copying file 22x22/actions/help.png [DEBUG] file help.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/help.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/help.png [DEBUG] Copying file 22x22/actions/hide.png [DEBUG] file hide.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/hide.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide.png [DEBUG] Copying file 22x22/actions/hide_visual_tools.png [DEBUG] file hide_visual_tools.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/hide_visual_tools.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide_visual_tools.png [DEBUG] Copying file 22x22/actions/hide_zoom_stripe.png [DEBUG] file hide_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/hide_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide_zoom_stripe.png [DEBUG] Copying file 22x22/actions/home.png [DEBUG] file home.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/home.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home.png [DEBUG] Copying file 22x22/actions/home_toolbar.png [DEBUG] file home_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/home_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home_toolbar.png [DEBUG] Copying file 22x22/actions/home_updated.png [DEBUG] file home_updated.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/home_updated.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home_updated.png [DEBUG] Copying file 22x22/actions/label_color.png [DEBUG] file label_color.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/label_color.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/label_color.png [DEBUG] Copying file 22x22/actions/load_session.png [DEBUG] file load_session.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/load_session.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/load_session.png [DEBUG] Copying file 22x22/actions/lock_track.png [DEBUG] file lock_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/lock_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/lock_track.png [DEBUG] Copying file 22x22/actions/max_stack_depth.png [DEBUG] file max_stack_depth.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/max_stack_depth.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/max_stack_depth.png [DEBUG] Copying file 22x22/actions/new_genome.png [DEBUG] file new_genome.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/new_genome.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/new_genome.png [DEBUG] Copying file 22x22/actions/no_arrows.png [DEBUG] file no_arrows.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/no_arrows.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/no_arrows.png [DEBUG] Copying file 22x22/actions/no_color_by_strand.png [DEBUG] file no_color_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/no_color_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/no_color_by_strand.png [DEBUG] Copying file 22x22/actions/optimize_all.png [DEBUG] file optimize_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/optimize_all.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/optimize_all.png [DEBUG] Copying file 22x22/actions/optimize_stack_depth.png [DEBUG] file optimize_stack_depth.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/optimize_stack_depth.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/optimize_stack_depth.png [DEBUG] Copying file 22x22/actions/pointed.png [DEBUG] file pointed.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/pointed.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pointed.png [DEBUG] Copying file 22x22/actions/pref_export.png [DEBUG] file pref_export.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/pref_export.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pref_export.png [DEBUG] Copying file 22x22/actions/pref_import.png [DEBUG] file pref_import.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/pref_import.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pref_import.png [DEBUG] Copying file 22x22/actions/preferences.png [DEBUG] file preferences.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/preferences.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences.png [DEBUG] Copying file 22x22/actions/preferences_configure(tracks tab).png [DEBUG] file preferences_configure(tracks tab).png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/preferences_configure(tracks tab).png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_configure(tracks tab).png [DEBUG] Copying file 22x22/actions/preferences_styles.png [DEBUG] file preferences_styles.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/preferences_styles.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_styles.png [DEBUG] Copying file 22x22/actions/preferences_updated.png [DEBUG] file preferences_updated.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/preferences_updated.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_updated.png [DEBUG] Copying file 22x22/actions/print.png [DEBUG] file print.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/print.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/print.png [DEBUG] Copying file 22x22/actions/print_whole_frame.png [DEBUG] file print_whole_frame.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/print_whole_frame.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/print_whole_frame.png [DEBUG] Copying file 22x22/actions/refresh.png [DEBUG] file refresh.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/refresh.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/refresh.png [DEBUG] Copying file 22x22/actions/remove_data.png [DEBUG] file remove_data.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/remove_data.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/remove_data.png [DEBUG] Copying file 22x22/actions/report_bug.png [DEBUG] file report_bug.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/report_bug.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/report_bug.png [DEBUG] Copying file 22x22/actions/resize_track.png [DEBUG] file resize_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/resize_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/resize_track.png [DEBUG] Copying file 22x22/actions/run_script.png [DEBUG] file run_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/run_script.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/run_script.png [DEBUG] Copying file 22x22/actions/save.png [DEBUG] file save.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/save.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save.png [DEBUG] Copying file 22x22/actions/save_script.png [DEBUG] file save_script.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/save_script.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save_script.png [DEBUG] Copying file 22x22/actions/save_session.png [DEBUG] file save_session.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/save_session.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save_session.png [DEBUG] Copying file 22x22/actions/set_summary_threshhold.png [DEBUG] file set_summary_threshhold.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/set_summary_threshhold.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/set_summary_threshhold.png [DEBUG] Copying file 22x22/actions/show.png [DEBUG] file show.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/show.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show.png [DEBUG] Copying file 22x22/actions/show_all.png [DEBUG] file show_all.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/show_all.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_all.png [DEBUG] Copying file 22x22/actions/show_visual_tools.png [DEBUG] file show_visual_tools.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/show_visual_tools.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_visual_tools.png [DEBUG] Copying file 22x22/actions/show_zoom_stripe.png [DEBUG] file show_zoom_stripe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/show_zoom_stripe.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_zoom_stripe.png [DEBUG] Copying file 22x22/actions/speech-bubble.png [DEBUG] file speech-bubble.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/speech-bubble.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/speech-bubble.png [DEBUG] Copying file 22x22/actions/strandscoloreddifferently.png [DEBUG] file strandscoloreddifferently.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/strandscoloreddifferently.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandscoloreddifferently.png [DEBUG] Copying file 22x22/actions/strandscoloredsame.png [DEBUG] file strandscoloredsame.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/strandscoloredsame.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandscoloredsame.png [DEBUG] Copying file 22x22/actions/strandseparate.png [DEBUG] file strandseparate.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/strandseparate.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandseparate.png [DEBUG] Copying file 22x22/actions/strandstogether.png [DEBUG] file strandstogether.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/strandstogether.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandstogether.png [DEBUG] Copying file 22x22/actions/summary.png [DEBUG] file summary.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/summary.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/summary.png [DEBUG] Copying file 22x22/actions/un-Float.png [DEBUG] file un-Float.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/un-Float.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/un-Float.png [DEBUG] Copying file 22x22/actions/uncolor_by_strand.png [DEBUG] file uncolor_by_strand.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/uncolor_by_strand.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/uncolor_by_strand.png [DEBUG] Copying file 22x22/actions/unlock_track.png [DEBUG] file unlock_track.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/22x22/actions/unlock_track.png to /media/Script/prog/IGB/core/common/target/classes/22x22/actions/unlock_track.png [DEBUG] Copying file 32x32/actions/appmanager.png [DEBUG] file appmanager.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/32x32/actions/appmanager.png to /media/Script/prog/IGB/core/common/target/classes/32x32/actions/appmanager.png [DEBUG] Copying file 32x32/actions/camera_toolbar.png [DEBUG] file camera_toolbar.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/32x32/actions/camera_toolbar.png to /media/Script/prog/IGB/core/common/target/classes/32x32/actions/camera_toolbar.png [DEBUG] Copying file 32x32/actions/colorschemechooser.png [DEBUG] file colorschemechooser.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/32x32/actions/colorschemechooser.png to /media/Script/prog/IGB/core/common/target/classes/32x32/actions/colorschemechooser.png [DEBUG] Copying file NOTICES.txt [DEBUG] file NOTICES.txt has a filtered file extension [DEBUG] filtering /media/Script/prog/IGB/core/common/src/main/resources/NOTICES.txt to /media/Script/prog/IGB/core/common/target/classes/NOTICES.txt [DEBUG] Copying file common.properties [DEBUG] file common.properties has a filtered file extension [DEBUG] filtering /media/Script/prog/IGB/core/common/src/main/resources/common.properties to /media/Script/prog/IGB/core/common/target/classes/common.properties [DEBUG] Copying file display_species.txt [DEBUG] file display_species.txt has a filtered file extension [DEBUG] filtering /media/Script/prog/IGB/core/common/src/main/resources/display_species.txt to /media/Script/prog/IGB/core/common/target/classes/display_species.txt [DEBUG] Copying file images/A_gambiae.png [DEBUG] file A_gambiae.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/A_gambiae.png to /media/Script/prog/IGB/core/common/target/classes/images/A_gambiae.png [DEBUG] Copying file images/A_lyrata.png [DEBUG] file A_lyrata.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/A_lyrata.png to /media/Script/prog/IGB/core/common/target/classes/images/A_lyrata.png [DEBUG] Copying file images/A_melanoleuca.png [DEBUG] file A_melanoleuca.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/A_melanoleuca.png to /media/Script/prog/IGB/core/common/target/classes/images/A_melanoleuca.png [DEBUG] Copying file images/A_mellifera.png [DEBUG] file A_mellifera.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/A_mellifera.png to /media/Script/prog/IGB/core/common/target/classes/images/A_mellifera.png [DEBUG] Copying file images/A_thaliana.png [DEBUG] file A_thaliana.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/A_thaliana.png to /media/Script/prog/IGB/core/common/target/classes/images/A_thaliana.png [DEBUG] Copying file images/B_distachyon.png [DEBUG] file B_distachyon.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/B_distachyon.png to /media/Script/prog/IGB/core/common/target/classes/images/B_distachyon.png [DEBUG] Copying file images/B_taurus.png [DEBUG] file B_taurus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/B_taurus.png to /media/Script/prog/IGB/core/common/target/classes/images/B_taurus.png [DEBUG] Copying file images/C_albicans_SC5314.png [DEBUG] file C_albicans_SC5314.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/C_albicans_SC5314.png to /media/Script/prog/IGB/core/common/target/classes/images/C_albicans_SC5314.png [DEBUG] Copying file images/C_elegans.png [DEBUG] file C_elegans.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/C_elegans.png to /media/Script/prog/IGB/core/common/target/classes/images/C_elegans.png [DEBUG] Copying file images/C_papaya.png [DEBUG] file C_papaya.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/C_papaya.png to /media/Script/prog/IGB/core/common/target/classes/images/C_papaya.png [DEBUG] Copying file images/C_porcellus.png [DEBUG] file C_porcellus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/C_porcellus.png to /media/Script/prog/IGB/core/common/target/classes/images/C_porcellus.png [DEBUG] Copying file images/C_reinhardtii.png [DEBUG] file C_reinhardtii.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/C_reinhardtii.png to /media/Script/prog/IGB/core/common/target/classes/images/C_reinhardtii.png [DEBUG] Copying file images/D_discoideum_Ax4.png [DEBUG] file D_discoideum_Ax4.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/D_discoideum_Ax4.png to /media/Script/prog/IGB/core/common/target/classes/images/D_discoideum_Ax4.png [DEBUG] Copying file images/D_melanogaster.png [DEBUG] file D_melanogaster.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/D_melanogaster.png to /media/Script/prog/IGB/core/common/target/classes/images/D_melanogaster.png [DEBUG] Copying file images/D_rerio.png [DEBUG] file D_rerio.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/D_rerio.png to /media/Script/prog/IGB/core/common/target/classes/images/D_rerio.png [DEBUG] Copying file images/E_caballus.png [DEBUG] file E_caballus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/E_caballus.png to /media/Script/prog/IGB/core/common/target/classes/images/E_caballus.png [DEBUG] Copying file images/E_coli_K12-MG1655.png [DEBUG] file E_coli_K12-MG1655.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/E_coli_K12-MG1655.png to /media/Script/prog/IGB/core/common/target/classes/images/E_coli_K12-MG1655.png [DEBUG] Copying file images/F_catus.png [DEBUG] file F_catus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/F_catus.png to /media/Script/prog/IGB/core/common/target/classes/images/F_catus.png [DEBUG] Copying file images/G_gallus.png [DEBUG] file G_gallus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/G_gallus.png to /media/Script/prog/IGB/core/common/target/classes/images/G_gallus.png [DEBUG] Copying file images/G_max.png [DEBUG] file G_max.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/G_max.png to /media/Script/prog/IGB/core/common/target/classes/images/G_max.png [DEBUG] Copying file images/H_sapiens.png [DEBUG] file H_sapiens.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/H_sapiens.png to /media/Script/prog/IGB/core/common/target/classes/images/H_sapiens.png [DEBUG] Copying file images/L_africana.png [DEBUG] file L_africana.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/L_africana.png to /media/Script/prog/IGB/core/common/target/classes/images/L_africana.png [DEBUG] Copying file images/M_domestica.png [DEBUG] file M_domestica.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/M_domestica.png to /media/Script/prog/IGB/core/common/target/classes/images/M_domestica.png [DEBUG] Copying file images/M_musculus.png [DEBUG] file M_musculus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/M_musculus.png to /media/Script/prog/IGB/core/common/target/classes/images/M_musculus.png [DEBUG] Copying file images/M_truncatula.png [DEBUG] file M_truncatula.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/M_truncatula.png to /media/Script/prog/IGB/core/common/target/classes/images/M_truncatula.png [DEBUG] Copying file images/O_aries.png [DEBUG] file O_aries.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/O_aries.png to /media/Script/prog/IGB/core/common/target/classes/images/O_aries.png [DEBUG] Copying file images/O_sativa_japonica.png [DEBUG] file O_sativa_japonica.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/O_sativa_japonica.png to /media/Script/prog/IGB/core/common/target/classes/images/O_sativa_japonica.png [DEBUG] Copying file images/P_patens.png [DEBUG] file P_patens.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/P_patens.png to /media/Script/prog/IGB/core/common/target/classes/images/P_patens.png [DEBUG] Copying file images/P_persica.png [DEBUG] file P_persica.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/P_persica.png to /media/Script/prog/IGB/core/common/target/classes/images/P_persica.png [DEBUG] Copying file images/P_trichocarpa.png [DEBUG] file P_trichocarpa.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/P_trichocarpa.png to /media/Script/prog/IGB/core/common/target/classes/images/P_trichocarpa.png [DEBUG] Copying file images/P_troglodytes.png [DEBUG] file P_troglodytes.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/P_troglodytes.png to /media/Script/prog/IGB/core/common/target/classes/images/P_troglodytes.png [DEBUG] Copying file images/R_communis.png [DEBUG] file R_communis.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/R_communis.png to /media/Script/prog/IGB/core/common/target/classes/images/R_communis.png [DEBUG] Copying file images/R_norvegicus.png [DEBUG] file R_norvegicus.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/R_norvegicus.png to /media/Script/prog/IGB/core/common/target/classes/images/R_norvegicus.png [DEBUG] Copying file images/S_bicolor.png [DEBUG] file S_bicolor.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/S_bicolor.png to /media/Script/prog/IGB/core/common/target/classes/images/S_bicolor.png [DEBUG] Copying file images/S_cerevisiae.png [DEBUG] file S_cerevisiae.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/S_cerevisiae.png to /media/Script/prog/IGB/core/common/target/classes/images/S_cerevisiae.png [DEBUG] Copying file images/S_lycopersicum.png [DEBUG] file S_lycopersicum.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/S_lycopersicum.png to /media/Script/prog/IGB/core/common/target/classes/images/S_lycopersicum.png [DEBUG] Copying file images/S_pombe.png [DEBUG] file S_pombe.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/S_pombe.png to /media/Script/prog/IGB/core/common/target/classes/images/S_pombe.png [DEBUG] Copying file images/S_tuberosum_DM.png [DEBUG] file S_tuberosum_DM.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/S_tuberosum_DM.png to /media/Script/prog/IGB/core/common/target/classes/images/S_tuberosum_DM.png [DEBUG] Copying file images/T_rubripes.png [DEBUG] file T_rubripes.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/T_rubripes.png to /media/Script/prog/IGB/core/common/target/classes/images/T_rubripes.png [DEBUG] Copying file images/V_carteri.png [DEBUG] file V_carteri.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/V_carteri.png to /media/Script/prog/IGB/core/common/target/classes/images/V_carteri.png [DEBUG] Copying file images/V_corymbosum.png [DEBUG] file V_corymbosum.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/V_corymbosum.png to /media/Script/prog/IGB/core/common/target/classes/images/V_corymbosum.png [DEBUG] Copying file images/V_vinifera.png [DEBUG] file V_vinifera.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/V_vinifera.png to /media/Script/prog/IGB/core/common/target/classes/images/V_vinifera.png [DEBUG] Copying file images/X_tropicalis.png [DEBUG] file X_tropicalis.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/X_tropicalis.png to /media/Script/prog/IGB/core/common/target/classes/images/X_tropicalis.png [DEBUG] Copying file images/Z_mays_B73.png [DEBUG] file Z_mays_B73.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/Z_mays_B73.png to /media/Script/prog/IGB/core/common/target/classes/images/Z_mays_B73.png [DEBUG] Copying file images/default.png [DEBUG] file default.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/default.png to /media/Script/prog/IGB/core/common/target/classes/images/default.png [DEBUG] Copying file images/hourglass.png [DEBUG] file hourglass.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/hourglass.png to /media/Script/prog/IGB/core/common/target/classes/images/hourglass.png [DEBUG] Copying file images/igb.gif [DEBUG] file igb.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/igb.gif to /media/Script/prog/IGB/core/common/target/classes/images/igb.gif [DEBUG] Copying file images/igb.png [DEBUG] file igb.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/igb.png to /media/Script/prog/IGB/core/common/target/classes/images/igb.png [DEBUG] Copying file images/igb_small.gif [DEBUG] file igb_small.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/igb_small.gif to /media/Script/prog/IGB/core/common/target/classes/images/igb_small.gif [DEBUG] Copying file images/igb_small.png [DEBUG] file igb_small.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/igb_small.png to /media/Script/prog/IGB/core/common/target/classes/images/igb_small.png [DEBUG] Copying file images/igb_splash.gif [DEBUG] file igb_splash.gif has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/igb_splash.gif to /media/Script/prog/IGB/core/common/target/classes/images/igb_splash.gif [DEBUG] Copying file images/left_more_selected.png [DEBUG] file left_more_selected.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/left_more_selected.png to /media/Script/prog/IGB/core/common/target/classes/images/left_more_selected.png [DEBUG] Copying file images/left_selected.png [DEBUG] file left_selected.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/left_selected.png to /media/Script/prog/IGB/core/common/target/classes/images/left_selected.png [DEBUG] Copying file images/picture_credits.txt [DEBUG] file picture_credits.txt has a filtered file extension [DEBUG] filtering /media/Script/prog/IGB/core/common/src/main/resources/images/picture_credits.txt to /media/Script/prog/IGB/core/common/target/classes/images/picture_credits.txt [DEBUG] Copying file images/right_more_selected.png [DEBUG] file right_more_selected.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/right_more_selected.png to /media/Script/prog/IGB/core/common/target/classes/images/right_more_selected.png [DEBUG] Copying file images/right_selected.png [DEBUG] file right_selected.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/right_selected.png to /media/Script/prog/IGB/core/common/target/classes/images/right_selected.png [DEBUG] Copying file images/wleft.png [DEBUG] file wleft.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/wleft.png to /media/Script/prog/IGB/core/common/target/classes/images/wleft.png [DEBUG] Copying file images/wright.png [DEBUG] file wright.png has a non filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/common/src/main/resources/images/wright.png to /media/Script/prog/IGB/core/common/target/classes/images/wright.png [DEBUG] Copying file welcome.html [DEBUG] file welcome.html has a filtered file extension [DEBUG] filtering /media/Script/prog/IGB/core/common/src/main/resources/welcome.html to /media/Script/prog/IGB/core/common/target/classes/welcome.html [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/common [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/common/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/common/target/classes, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/common/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/common/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/common/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/common/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/common/target/classes /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/common/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/common/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/common/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/common/src/main/java /media/Script/prog/IGB/core/common/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/common/src/main/java/com/affymetrix/common/ExtensionPointListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/common/src/main/java/com/affymetrix/common/PreferenceUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/common/src/main/java/com/affymetrix/common/ExtensionPointHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/common/src/main/java/com/affymetrix/common/CommonUtils.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/common/target/classes [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar [DEBUG] /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/common/src/main/java [DEBUG] /media/Script/prog/IGB/core/common/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 4 source files to /media/Script/prog/IGB/core/common/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/common/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/common/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/common/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:39Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/common/src/test/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/core/common/src/test/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/common [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/common/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/common/target/test-classes, /media/Script/prog/IGB/core/common/target/classes, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/common/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/common/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/common/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/common [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/common/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:runtime, org.apache.felix:org.apache.felix.main=org.apache.felix:org.apache.felix.main:jar:5.2.0:provided, org.apache.felix:org.apache.felix.framework=org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:runtime, com.affymetrix:genoviz=com.affymetrix:genoviz:jar:1.1.8:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:compile} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/common/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/common/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/common/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/common [DEBUG] (s) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/common/target [DEBUG] (f) finalName = affymetrix-common-9.1.4 [DEBUG] (f) instructions = {Bundle-ActivationPolicy=lazy, Bundle-SymbolicName=affymetrix-common, Embed-Dependency=*;scope=compile|runtime;inline=true, Embed-Transitive=true, Export-Package=com.affymetrix.common, Import-Package=*;resolution:=optional, Include-Resource={maven-resources}} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/common/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/common/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=36327, ConflictMarker.markTime=49556, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=13734, ConflictIdSorter.topsortTime=26952, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=227039, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=2679229, DefaultDependencyCollector.transformTime=407174} [DEBUG] org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:runtime [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] javax.jlfgr:jlfgr:jar:1.0:runtime [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:compile [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:03:40 CET 2020 pom.id=org.lorainelab.igb\:affymetrix-common\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io Embed-Dependency=*;scope\=compile|runtime;inline\=true felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/common/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 Bundle-ActivationPolicy=lazy pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.affymetrix-common java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/common/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/common/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=affymetrix-common env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Affymetrix Common file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:affymetrix-common\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=com.affymetrix.common java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Embed-Transitive=true Include-Resource=@/root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,@/root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,@/root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,{16x16/actions/1_track.png\=src/main/resources/16x16/actions/1_track.png},{16x16/actions/2_track.png\=src/main/resources/16x16/actions/2_track.png},{16x16/actions/BG_color.png\=src/main/resources/16x16/actions/BG_color.png},{16x16/actions/Clamp_to_view.png\=src/main/resources/16x16/actions/Clamp_to_view.png},{16x16/actions/Customize.png\=src/main/resources/16x16/actions/Customize.png},{16x16/actions/FG_color.png\=src/main/resources/16x16/actions/FG_color.png},{16x16/actions/Float.png\=src/main/resources/16x16/actions/Float.png},{16x16/actions/Genome_Viewer_reads.png\=src/main/resources/16x16/actions/Genome_Viewer_reads.png},{16x16/actions/Load_sequence_in_view.png\=src/main/resources/16x16/actions/Load_sequence_in_view.png},{16x16/actions/Preferences 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line.separator=\n project.build.directory=/media/Script/prog/IGB/core/common/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.modelEncoding=UTF-8 project.build.id=org.lorainelab.igb\:affymetrix-common\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/common os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@10c1682b env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@10c1682b env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/common project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=affymetrix-common sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=com.affymetrix.common project.build.artifactId=affymetrix-common felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Affymetrix Common pom.developers=[] env.USER=root project.build=org.apache.maven.model.Build@10c1682b felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/common project.build.name=Core - Affymetrix Common java.vm.specification.version=1.8 org.lorainelab.igb.remote.services-version=1.0.0 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=*;resolution\:\=optional os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 project.build.modelEncoding=UTF-8 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/common logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/common sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/common/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=affymetrix-common user.country=FR pom.modelEncoding=UTF-8 maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/common/src/main/java,/media/Script/prog/IGB/core/common/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Affymetrix Common maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/common/target/classes,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514225404 Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - Affymetrix Common Bundle-SymbolicName: affymetrix-common Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Embed-Dependency: *;scope=compile|runtime;inline=true Embed-Transitive: true Export-Package: com.affymetrix.common;uses:="javax.swing,org.osgi.framew ork";version="9.1.4" Import-Package: javax.annotation;resolution:=optional, javax.imageio;resolution:=optional, javax.swing;resolution:=optional, org.osgi.framework;resolution:=optional;version="[1.8,2)", org.slf4j;resolution:=optional;version="[1.7,2)", sun.misc;resolution:=optional Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514225404 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - Affymetrix Common Bundle-SymbolicName: affymetrix-common Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Embed-Dependency: *;scope=compile|runtime;inline=true Embed-Transitive: true Export-Package: com.affymetrix.common;uses:="javax.swing,org.osgi.framew ork";version="9.1.4" Import-Package: javax.annotation;resolution:=optional, javax.imageio;resolution:=optional, javax.swing;resolution:=optional, org.osgi.framework;resolution:=optional;version="[1.8,2)", org.slf4j;resolution:=optional;version="[1.7,2)", sun.misc;resolution:=optional Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/affymetrix-common/9.1.4/affymetrix-common-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/affymetrix-common/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/common/pom.xml to /root/.m2/repository/org/lorainelab/igb/affymetrix-common/9.1.4/affymetrix-common-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/affymetrix-common/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:affymetrix-common/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/affymetrix-common/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/affymetrix-common/9.1.4/affymetrix-common-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/affymetrix-common/9.1.4/affymetrix-common-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = affymetrix-common [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:affymetrix-common:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:affymetrix-common:9.1.4:jar [INFO] Copying affymetrix-common-9.1.4.jar to /media/Script/prog/IGB/bundles/affymetrix-common-9.1.4.jar [INFO] [INFO] ------------------< org.lorainelab.igb:external-sort >------------------ [INFO] Building Plugin - Sorting API and Impl 9.1.4 [4/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:external-sort:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} ${project.parent.basedir}/bundles/dynamic external-sort-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} * org.lorainelab.igb.externalsort.api * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb external-sort 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles/dynamic ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=76546, ConflictMarker.markTime=96193, ConflictMarker.nodeCount=19, ConflictIdSorter.graphTime=28213, ConflictIdSorter.topsortTime=47232, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=748884, ConflictResolver.conflictItemCount=18, DefaultDependencyCollector.collectTime=33104182, DefaultDependencyCollector.transformTime=1090940} [DEBUG] org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] ch.qos.logback:logback-core:jar:1.1.2:test [DEBUG] ch.qos.logback:logback-classic:jar:1.1.2:test [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.osgi:org.osgi.compendium:jar:5.0.0:provided [DEBUG] org.apache.commons:commons-compress:jar:1.5:provided [DEBUG] org.tukaani:xz:jar:1.5:provided (scope managed from compile) (version managed from 1.2) [DEBUG] htsjdk-igb:htsjdk-igb:jar:2.16.3:provided [DEBUG] commons-logging:commons-logging:jar:1.2:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-jexl:jar:2.1.1:provided (scope managed from compile) (version managed from 2.1.1) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/plugins/external-sort/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/bundles/dynamic [DEBUG] (f) includes = [external-sort-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/bundles/dynamic (included: [external-sort-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/plugins/external-sort/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/plugins/external-sort/target [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources/test-annotations [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/test-classes/org/lorainelab/igb/externalsort/ExternalSortTest.class [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes/org/lorainelab/igb/externalsort [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes/org [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/test-classes/test1.txt [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/test-classes/test1.answer.txt [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code/externalsorting/BinaryFileBuffer.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code/externalsorting/ExternalMergeSort.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code/externalsorting/ExternalMergeSort$1.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code/externalsorting/StringSizeEstimator.class [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code/externalsorting [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google/code [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/com/google [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/com [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api/ExternalSortConfiguration.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api/ExternalSortService.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api/ComparatorDataPreparer.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api/ComparatorMetadata.class [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api/ComparatorInstance.class [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort/api [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb/externalsort [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes/org [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/classes [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/testCompile [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/maven-status [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/external-sort/target/site [INFO] Deleting /media/Script/prog/IGB/bundles/dynamic (includes = [external-sort-9.1.4.jar], excludes = []) [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/plugins/external-sort/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/plugins/external-sort/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:49Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/plugins/external-sort/src/main/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/plugins/external-sort/src/main/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/plugins/external-sort [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/external-sort/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/plugins/external-sort/target/classes, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar, /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar, /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar, /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar, /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar, /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/plugins/external-sort/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/plugins/external-sort/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/plugins/external-sort/target/classes /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] Adding /media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/plugins/external-sort/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/plugins/external-sort/src/main/java /media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ExternalSortService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ComparatorDataPreparer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ComparatorInstance.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/com/google/code/externalsorting/StringSizeEstimator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ExternalSortConfiguration.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/com/google/code/externalsorting/ExternalMergeSort.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/main/java/org/lorainelab/igb/externalsort/api/ComparatorMetadata.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar [DEBUG] /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar [DEBUG] /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar [DEBUG] /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/plugins/external-sort/src/main/java [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 7 source files to /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/plugins/external-sort/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/plugins/external-sort/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:50Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/plugins/external-sort/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 2 resources [DEBUG] Copying file test1.answer.txt [DEBUG] file test1.answer.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/plugins/external-sort/src/test/resources/test1.answer.txt to /media/Script/prog/IGB/plugins/external-sort/target/test-classes/test1.answer.txt [DEBUG] Copying file test1.txt [DEBUG] file test1.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/plugins/external-sort/src/test/resources/test1.txt to /media/Script/prog/IGB/plugins/external-sort/target/test-classes/test1.txt [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/plugins/external-sort [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/external-sort/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/plugins/external-sort/target/test-classes, /media/Script/prog/IGB/plugins/external-sort/target/classes, /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar, /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar, /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar, /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar, /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar, /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar, /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/plugins/external-sort/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/plugins/external-sort/src/test/java] [DEBUG] Classpath: [/media/Script/prog/IGB/plugins/external-sort/target/test-classes /media/Script/prog/IGB/plugins/external-sort/target/classes /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] Adding /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources/test-annotations to test-compile source roots: /media/Script/prog/IGB/plugins/external-sort/src/test/java [DEBUG] New test-compile source roots: /media/Script/prog/IGB/plugins/external-sort/src/test/java /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources/test-annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/external-sort/src/test/java/org/lorainelab/igb/externalsort/ExternalSortTest.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar [DEBUG] /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar [DEBUG] /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar [DEBUG] /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar [DEBUG] /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/plugins/external-sort/src/test/java [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/generated-test-sources/test-annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 1 source file to /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/plugins/external-sort [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {ch.qos.logback:logback-core=ch.qos.logback:logback-core:jar:1.1.2:test, ch.qos.logback:logback-classic=ch.qos.logback:logback-classic:jar:1.1.2:test, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, junit:junit=junit:junit:jar:4.8.2:test, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, org.osgi:org.osgi.compendium=org.osgi:org.osgi.compendium:jar:5.0.0:provided, org.apache.commons:commons-compress=org.apache.commons:commons-compress:jar:1.5:provided, org.tukaani:xz=org.tukaani:xz:jar:1.5:provided, htsjdk-igb:htsjdk-igb=htsjdk-igb:htsjdk-igb:jar:2.16.3:provided, commons-logging:commons-logging=commons-logging:commons-logging:jar:1.2:provided, org.apache.commons:commons-jexl=org.apache.commons:commons-jexl:jar:2.1.1:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/plugins/external-sort/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/plugins/external-sort/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/plugins/external-sort/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/plugins/external-sort [DEBUG] (s) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ external-sort --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/external-sort/target [DEBUG] (f) finalName = external-sort-9.1.4 [DEBUG] (f) instructions = {Export-Package=org.lorainelab.igb.externalsort.api, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/plugins/external-sort/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/external-sort/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=73397, ConflictMarker.markTime=42297, ConflictMarker.nodeCount=19, ConflictIdSorter.graphTime=17017, ConflictIdSorter.topsortTime=23544, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=249303, ConflictResolver.conflictItemCount=18, DefaultDependencyCollector.collectTime=1246478, DefaultDependencyCollector.transformTime=454422} [DEBUG] org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] ch.qos.logback:logback-core:jar:1.1.2:test [DEBUG] ch.qos.logback:logback-classic:jar:1.1.2:test [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.osgi:org.osgi.compendium:jar:5.0.0:provided [DEBUG] org.apache.commons:commons-compress:jar:1.5:provided [DEBUG] org.tukaani:xz:jar:1.5:provided (scope managed from compile) (version managed from 1.2) [DEBUG] htsjdk-igb:htsjdk-igb:jar:2.16.3:provided [DEBUG] commons-logging:commons-logging:jar:1.2:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-jexl:jar:2.1.1:provided (scope managed from compile) (version managed from 2.1.1) [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:03:50 CET 2020 pom.id=org.lorainelab.igb\:external-sort\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/plugins/external-sort/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.external-sort java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/plugins/external-sort/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/plugins/external-sort/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=external-sort env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Plugin - Sorting API and Impl file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:external-sort\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.externalsort.api java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr line.separator=\n project.build.directory=/media/Script/prog/IGB/plugins/external-sort/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.modelEncoding=UTF-8 project.build.id=org.lorainelab.igb\:external-sort\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/plugins/external-sort os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@3b9f400c env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@3b9f400c env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/plugins/external-sort project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=org.lorainelab.igb.external-sort sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.externalsort.api,com.google.code.externalsorting project.build.artifactId=external-sort felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Plugin - Sorting API and Impl env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@3b9f400c felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/plugins/external-sort project.build.name=Plugin - Sorting API and Impl java.vm.specification.version=1.8 org.lorainelab.igb.remote.services-version=1.0.0 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 project.build.modelEncoding=UTF-8 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/plugins/external-sort logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/plugins/external-sort sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/plugins/external-sort/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=external-sort user.country=FR pom.modelEncoding=UTF-8 maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/plugins/external-sort/src/main/java,/media/Script/prog/IGB/plugins/external-sort/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Plugin - Sorting API and Impl maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/plugins/external-sort/target/classes,\ /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar,\ /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/org/osgi/org.osgi.compendium/5.0.0/org.osgi.compendium-5.0.0.jar,\ /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar,\ /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar,\ /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar,\ /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar,\ /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514231271 Bundle-ManifestVersion: 2 Bundle-Name: Plugin - Sorting API and Impl Bundle-SymbolicName: org.lorainelab.igb.external-sort Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.externalsort.api;version="9.1.4" Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.io;version="[16.0,17)", htsjdk.samtools.util;version="[2.16,3)", org.apache.commons.compress.archivers.tar;version="[1.5,2)", org.apache.commons.compress.compressors.bzip2;version="[1.5,2)", org.lorainelab.igb.externalsort.api, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/com.google.code.externalsorting.ExternalMerg eSort.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514231271 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Plugin - Sorting API and Impl Bundle-SymbolicName: org.lorainelab.igb.external-sort Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.externalsort.api;version="9.1.4" Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.io;version="[16.0,17)", htsjdk.samtools.util;version="[2.16,3)", org.apache.commons.compress.archivers.tar;version="[1.5,2)", org.apache.commons.compress.compressors.bzip2;version="[1.5,2)", org.lorainelab.igb.externalsort.api, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/com.google.code.externalsorting.ExternalMerg eSort.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/external-sort/9.1.4/external-sort-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/external-sort/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/plugins/external-sort/pom.xml to /root/.m2/repository/org/lorainelab/igb/external-sort/9.1.4/external-sort-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/external-sort/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:external-sort/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/external-sort/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ external-sort --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/external-sort/9.1.4/external-sort-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/external-sort/9.1.4/external-sort-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = external-sort [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:external-sort:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles/dynamic [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:external-sort:9.1.4:jar [INFO] Copying external-sort-9.1.4.jar to /media/Script/prog/IGB/bundles/dynamic/external-sort-9.1.4.jar [INFO] [INFO] --------------------< org.lorainelab.igb:cache-api >-------------------- [INFO] Building Plugin - Data caching API 9.1.4 [5/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:cache-api:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/plugins/cache-api/bundles cache-api-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} * * org.lorainelab.igb.cache.api ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb cache-api 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=38067, ConflictMarker.markTime=52920, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=22428, ConflictIdSorter.topsortTime=20783, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=128831, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=635042, DefaultDependencyCollector.transformTime=310851} [DEBUG] org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/plugins/cache-api/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/plugins/cache-api/bundles [DEBUG] (f) includes = [cache-api-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/plugins/cache-api/bundles (included: [cache-api-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/plugins/cache-api/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/plugins/cache-api/target [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb/cache/api/ChangeEvent.class [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb/cache/api/RemoteFileCacheService.class [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb/cache/api/CacheStatus.class [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb/cache/api [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb/cache [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes/org [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/classes [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/plugins/cache-api/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target/maven-status [INFO] Deleting directory /media/Script/prog/IGB/plugins/cache-api/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/cache-api/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/cache-api/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/plugins/cache-api/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/plugins/cache-api/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/plugins/cache-api/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:52Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/plugins/cache-api/src/main/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/plugins/cache-api/src/main/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/plugins/cache-api [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/cache-api/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/plugins/cache-api/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/plugins/cache-api/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/plugins/cache-api/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/plugins/cache-api/target/classes /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] Adding /media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/plugins/cache-api/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/plugins/cache-api/src/main/java /media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/cache-api/src/main/java/org/lorainelab/igb/cache/api/CacheStatus.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/cache-api/src/main/java/org/lorainelab/igb/cache/api/RemoteFileCacheService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/plugins/cache-api/src/main/java/org/lorainelab/igb/cache/api/ChangeEvent.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/plugins/cache-api/src/main/java [DEBUG] /media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 3 source files to /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/plugins/cache-api/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/plugins/cache-api/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:52Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/plugins/cache-api/src/test/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/plugins/cache-api/src/test/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/plugins/cache-api [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/cache-api/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/plugins/cache-api/target/test-classes, /media/Script/prog/IGB/plugins/cache-api/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/plugins/cache-api/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/plugins/cache-api/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/plugins/cache-api [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/plugins/cache-api/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/plugins/cache-api/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/plugins/cache-api/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/plugins/cache-api [DEBUG] (s) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ cache-api --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/plugins/cache-api/target [DEBUG] (f) finalName = cache-api-9.1.4 [DEBUG] (f) instructions = {Export-Package=org.lorainelab.igb.cache.api, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/plugins/cache-api/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/plugins/cache-api/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=38251, ConflictMarker.markTime=53132, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=23968, ConflictIdSorter.topsortTime=23678, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=150674, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=617855, DefaultDependencyCollector.transformTime=343131} [DEBUG] org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:03:52 CET 2020 pom.id=org.lorainelab.igb\:cache-api\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/plugins/cache-api/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.cache-api java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/plugins/cache-api/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/plugins/cache-api/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=cache-api env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Plugin - Data caching API file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:cache-api\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.cache.api java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr line.separator=\n project.build.directory=/media/Script/prog/IGB/plugins/cache-api/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.modelEncoding=UTF-8 project.build.id=org.lorainelab.igb\:cache-api\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/plugins/cache-api os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@64cd555c env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@64cd555c env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/plugins/cache-api project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=org.lorainelab.igb.cache-api sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.cache.api project.build.artifactId=cache-api felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Plugin - Data caching API env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@64cd555c felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/plugins/cache-api project.build.name=Plugin - Data caching API java.vm.specification.version=1.8 org.lorainelab.igb.remote.services-version=1.0.0 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 project.build.modelEncoding=UTF-8 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/plugins/cache-api logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/plugins/cache-api sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/plugins/cache-api/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=cache-api user.country=FR pom.modelEncoding=UTF-8 maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/plugins/cache-api/src/main/java,/media/Script/prog/IGB/plugins/cache-api/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Plugin - Data caching API maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/plugins/cache-api/target/classes,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514232927 Bundle-ManifestVersion: 2 Bundle-Name: Plugin - Data caching API Bundle-SymbolicName: org.lorainelab.igb.cache-api Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.cache.api;version="9.1.4" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514232927 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Plugin - Data caching API Bundle-SymbolicName: org.lorainelab.igb.cache-api Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.cache.api;version="9.1.4" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/cache-api/9.1.4/cache-api-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/cache-api/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/plugins/cache-api/pom.xml to /root/.m2/repository/org/lorainelab/igb/cache-api/9.1.4/cache-api-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/cache-api/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:cache-api/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/cache-api/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ cache-api --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/cache-api/9.1.4/cache-api-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/cache-api/9.1.4/cache-api-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = cache-api [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:cache-api:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:cache-api:9.1.4:jar [INFO] Copying cache-api-9.1.4.jar to /media/Script/prog/IGB/bundles/cache-api-9.1.4.jar [INFO] [INFO] -----------------< org.lorainelab.igb:synonym-lookup >------------------ [INFO] Building Core - Synonym Lookup 9.1.4 [6/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:synonym-lookup:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/synonym-lookup/bundles synonym-lookup-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} synonym-lookup * org.lorainelab.igb.synonymlookup.services * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb synonym-lookup 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=45981, ConflictMarker.markTime=66219, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=15986, ConflictIdSorter.topsortTime=85180, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=440752, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=20427100, DefaultDependencyCollector.transformTime=721367} [DEBUG] org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.apache.commons:commons-csv:jar:1.2:provided [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] junit:junit:jar:4.8.2:test [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/synonym-lookup/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/synonym-lookup/bundles [DEBUG] (f) includes = [synonym-lookup-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/synonym-lookup/bundles (included: [synonym-lookup-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/synonym-lookup/target [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources/test-annotations [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org/lorainelab/igb/synonymlookup/test/SynonymLookupTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org/lorainelab/igb/synonymlookup/test [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org/lorainelab/igb/synonymlookup [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/org [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData3 [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData2 [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData1 [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/testCompile [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/GenomeVersionSynonymLookup.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/ChromosomeSynonymLookup.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/impl/GenomeVersionSynonymLookupImpl.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/impl/ChromosomeSynonymLookupImpl.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/impl/SynonymLookup.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/impl/SpeciesSynonymsLookupImpl.class [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/impl [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/SpeciesInfo.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/SpeciesSynonymsLookup.class [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services/SynonymLookupService.class [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup/services [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb/synonymlookup [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes/org [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/synonyms.txt [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/species.txt [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/classes/chromosomes.txt [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/synonym-lookup/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/synonym-lookup/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/synonym-lookup/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/synonym-lookup/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:53Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/synonym-lookup/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 3 resources [DEBUG] Copying file chromosomes.txt [DEBUG] file chromosomes.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/main/resources/chromosomes.txt to /media/Script/prog/IGB/core/synonym-lookup/target/classes/chromosomes.txt [DEBUG] Copying file species.txt [DEBUG] file species.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/main/resources/species.txt to /media/Script/prog/IGB/core/synonym-lookup/target/classes/species.txt [DEBUG] Copying file synonyms.txt [DEBUG] file synonyms.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/main/resources/synonyms.txt to /media/Script/prog/IGB/core/synonym-lookup/target/classes/synonyms.txt [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/synonym-lookup [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/synonym-lookup/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/synonym-lookup/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/synonym-lookup/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/synonym-lookup/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/synonym-lookup/target/classes /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/synonym-lookup/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/synonym-lookup/src/main/java /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/impl/ChromosomeSynonymLookupImpl.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/SpeciesSynonymsLookup.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/impl/SpeciesSynonymsLookupImpl.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/SynonymLookupService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/impl/GenomeVersionSynonymLookupImpl.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/GenomeVersionSynonymLookup.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/SpeciesInfo.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/impl/SynonymLookup.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/main/java/org/lorainelab/igb/synonymlookup/services/ChromosomeSynonymLookup.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/src/main/java [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 9 source files to /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/synonym-lookup/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/synonym-lookup/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:54Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/synonym-lookup/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 3 resources [DEBUG] Copying file data/synonymLookup/synonymTestData1 [DEBUG] file synonymTestData1 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/test/resources/data/synonymLookup/synonymTestData1 to /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData1 [DEBUG] Copying file data/synonymLookup/synonymTestData2 [DEBUG] file synonymTestData2 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/test/resources/data/synonymLookup/synonymTestData2 to /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData2 [DEBUG] Copying file data/synonymLookup/synonymTestData3 [DEBUG] file synonymTestData3 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/synonym-lookup/src/test/resources/data/synonymLookup/synonymTestData3 to /media/Script/prog/IGB/core/synonym-lookup/target/test-classes/data/synonymLookup/synonymTestData3 [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/synonym-lookup [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/synonym-lookup/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/synonym-lookup/target/test-classes, /media/Script/prog/IGB/core/synonym-lookup/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/synonym-lookup/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/synonym-lookup/src/test/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/synonym-lookup/target/test-classes /media/Script/prog/IGB/core/synonym-lookup/target/classes /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] Adding /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources/test-annotations to test-compile source roots: /media/Script/prog/IGB/core/synonym-lookup/src/test/java [DEBUG] New test-compile source roots: /media/Script/prog/IGB/core/synonym-lookup/src/test/java /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources/test-annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/synonym-lookup/src/test/java/com/lorainelab/synonymlookup/test/SynonymLookupTest.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/src/test/java [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/generated-test-sources/test-annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 1 source file to /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/synonym-lookup [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, org.apache.commons:commons-csv=org.apache.commons:commons-csv:jar:1.2:provided, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.4:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, junit:junit=junit:junit:jar:4.8.2:test} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/synonym-lookup/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/synonym-lookup [DEBUG] (s) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/synonym-lookup/target [DEBUG] (f) finalName = synonym-lookup-9.1.4 [DEBUG] (f) instructions = {Bundle-SymbolicName=synonym-lookup, Export-Package=org.lorainelab.igb.synonymlookup.services, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/synonym-lookup/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/synonym-lookup/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=28632, ConflictMarker.markTime=37528, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=11218, ConflictIdSorter.topsortTime=16819, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=137171, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=690570, DefaultDependencyCollector.transformTime=266853} [DEBUG] org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.apache.commons:commons-csv:jar:1.2:provided [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:03:54 CET 2020 pom.id=org.lorainelab.igb\:synonym-lookup\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/synonym-lookup/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.synonym-lookup java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/synonym-lookup/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/synonym-lookup/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=synonym-lookup env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Synonym Lookup file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:synonym-lookup\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.synonymlookup.services java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Include-Resource=chromosomes.txt\=src/main/resources/chromosomes.txt,species.txt\=src/main/resources/species.txt,synonyms.txt\=src/main/resources/synonyms.txt line.separator=\n project.build.directory=/media/Script/prog/IGB/core/synonym-lookup/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:synonym-lookup\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/synonym-lookup os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@7589a53a env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@7589a53a env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/synonym-lookup project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=synonym-lookup sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.synonymlookup.services,org.lorainelab.igb.synonymlookup.services.impl project.build.artifactId=synonym-lookup felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Synonym Lookup env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@7589a53a felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/synonym-lookup project.build.name=Core - Synonym Lookup org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/synonym-lookup logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/synonym-lookup sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/synonym-lookup/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=synonym-lookup user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/synonym-lookup/src/main/java,/media/Script/prog/IGB/core/synonym-lookup/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Synonym Lookup maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/synonym-lookup/target/classes,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar,\ /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514235148 Bundle-ManifestVersion: 2 Bundle-Name: Core - Synonym Lookup Bundle-SymbolicName: synonym-lookup Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.synonymlookup.services;version="9.1.4 " Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.collect;version="[16.0,17)", org.apache.commons.csv;version="[1.2,2)", org.apache.commons.lang3;version="[3.4,4)", org.lorainelab.igb.synonymlookup.services, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/ChromosomeSynonymLookupImpl.xml,OSGI-INF/Gen omeVersionSynonymLookupImpl.xml,OSGI-INF/SpeciesSynonymsLookup.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514235148 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Core - Synonym Lookup Bundle-SymbolicName: synonym-lookup Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.synonymlookup.services;version="9.1.4 " Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.collect;version="[16.0,17)", org.apache.commons.csv;version="[1.2,2)", org.apache.commons.lang3;version="[3.4,4)", org.lorainelab.igb.synonymlookup.services, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/ChromosomeSynonymLookupImpl.xml,OSGI-INF/Gen omeVersionSynonymLookupImpl.xml,OSGI-INF/SpeciesSynonymsLookup.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/synonym-lookup/9.1.4/synonym-lookup-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/synonym-lookup/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/synonym-lookup/pom.xml to /root/.m2/repository/org/lorainelab/igb/synonym-lookup/9.1.4/synonym-lookup-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/synonym-lookup/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:synonym-lookup/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/synonym-lookup/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/synonym-lookup/9.1.4/synonym-lookup-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/synonym-lookup/9.1.4/synonym-lookup-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = synonym-lookup [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:synonym-lookup:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:synonym-lookup:9.1.4:jar [INFO] Copying synonym-lookup-9.1.4.jar to /media/Script/prog/IGB/bundles/synonym-lookup-9.1.4.jar [INFO] [INFO] --------------------< org.lorainelab.igb:genometry >-------------------- [INFO] Building Core - Genometry (Data Models) 9.1.4 [7/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:genometry:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/genometry/bundles genometry-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} genometry *;scope=compile|runtime true com.affymetrix.genometry.Activator com.affymetrix.genometry, com.affymetrix.genometry.color, com.affymetrix.genometry.comparator, com.affymetrix.genometry.das, com.affymetrix.genometry.das2, com.affymetrix.genometry.event, com.affymetrix.genometry.filter, com.affymetrix.genometry.general, com.affymetrix.genometry.operator, com.affymetrix.genometry.operator.comparator, com.affymetrix.genometry.operator.service, com.affymetrix.genometry.parsers, com.affymetrix.genometry.parsers.das, com.affymetrix.genometry.parsers.gchp, com.affymetrix.genometry.parsers.graph, com.affymetrix.genometry.parsers.useq, com.affymetrix.genometry.quickload, com.affymetrix.genometry.regionfinder, com.affymetrix.genometry.span, com.affymetrix.genometry.style, com.affymetrix.genometry.symloader, com.affymetrix.genometry.symmetry, com.affymetrix.genometry.symmetry.impl, com.affymetrix.genometry.thread, com.affymetrix.genometry.util, com.affymetrix.genometry.weblink, com.affymetrix.genometry.tooltip, com.affymetrix.genometry.search, com.affymetrix.genometry.data, com.affymetrix.genometry.data.* com.apple.laf,*;resolution:=optional lazy * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb genometry 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=58660, ConflictMarker.markTime=69655, ConflictMarker.nodeCount=34, ConflictIdSorter.graphTime=23683, ConflictIdSorter.topsortTime=67901, ConflictIdSorter.conflictIdCount=29, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=446387, ConflictResolver.conflictItemCount=33, DefaultDependencyCollector.collectTime=13642631, DefaultDependencyCollector.transformTime=727354} [DEBUG] org.lorainelab.igb:genometry:bundle:9.1.4 [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] org.lorainelab.igb:external-sort:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.apache.commons:commons-compress:jar:1.5:provided [DEBUG] org.tukaani:xz:jar:1.5:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] org.jdom:jdom:jar:1.1.3:provided [DEBUG] com.affymetrix:fusion:jar:1.0.1:provided [DEBUG] net.sf:image4j:jar:0.7:provided [DEBUG] colt:colt:jar:1.2.0:provided [DEBUG] concurrent:concurrent:jar:1.3.4:provided [DEBUG] org.apache.commons:commons-csv:jar:1.2:provided [DEBUG] commons-codec:commons-codec:jar:1.6:provided [DEBUG] commons-net:commons-net:jar:2.0:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] commons-pool:commons-pool:jar:1.6:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.github.kevinsawicki:http-request:jar:6.0:provided [DEBUG] org.lorainelab.igb:cache-api:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:synonym-lookup:jar:9.1.4:provided [DEBUG] htsjdk-igb:htsjdk-igb:jar:2.16.3:provided [DEBUG] commons-logging:commons-logging:jar:1.2:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-jexl:jar:2.1.1:provided (scope managed from compile) (version managed from 2.1.1) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/genometry/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/genometry/bundles [DEBUG] (f) includes = [genometry-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/genometry/bundles (included: [genometry-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/genometry/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/genometry/target [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/generated-test-sources/test-annotations [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/generated-test-sources [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/GFF3SymTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/util/IgbStringUtilsTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/util/SeqUtilsTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/util [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/comparator/SeqSymIdComparatorTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/comparator [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/NibbleBioSeqTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/BpsParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/Bprobe1ParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/NibbleResiduesParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/NibbleFileParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/CytobandParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/PSLParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/TwoBitNewTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/TwoBitParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/SamRecordFlagTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/GFF3ParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/FastaParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/GFFParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/CntParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/BarParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/BgrParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/SgrParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/GrParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/ScoredIntervalParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/UseqParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph/WiggleParserTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/graph [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/BrsParserTest.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers/TrackLineParserTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/parsers [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry/BioSeqTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix/genometry [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com/affymetrix [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/com [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wiggleExample2.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wiggleExample.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file5.wig [INFO] Deleting file 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/media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionScoreData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionScoreText.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/USeqData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionScoreTextData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/Position.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionScore.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/NibbleResiduesParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/PSLParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/GFFParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyCnChpParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/ChromLoadPolicy.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/ChromLoadPolicy$3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/ChromLoadPolicy$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/ChromLoadPolicy$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyDataGroup.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyGenericDataHeader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyChpColumnData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyChpColumnData$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyGenericChpFile.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffySingleChromData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyChpParameter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyChpParameter$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyDataSet.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyDataType.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp/AffyChpColumnType.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/gchp [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/GFF3Parser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/GFF3Parser$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeCategory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/TrackLineParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/Parser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/IndexWriter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/AnnotationWriter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/AbstractPSLParser.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/FileTypeCategoryUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/FileTypeCategoryUtils$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/GraphSymUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/OrderComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/GeneralUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/PropertyViewHelper.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/QueryBuilder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/FileTracker.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ThreadUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/Constants.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/DirectoryFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ImprovedStringCharIter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/FileDropHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LocalUrlCacher.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LocalUrlCacher$CacheOption.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LocalUrlCacher$CacheUsage.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/StatusAlert.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/UriUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/XMLUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ExportFileModel.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/BlockCompressedStreamPosition.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/SeekableFTPStream.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/NibbleIterator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/TwoBitIterator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/IDComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/UniFileFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/DisplaysError.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ErrorHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ErrorHandler$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/StringEncrypter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/StringEncrypter$EncryptionException.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/CachingInputStream.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/SeekableBufferedStream.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/GFileChooser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/UniFileChooser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/DisplayUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/DNAUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/Weighted.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/SelectionInfoUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/SeqUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ServerUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ModalUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/ModalUtils$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/HiddenFileFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/IgbStringUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/BioSeqUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LoadUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LoadUtils$RefreshStatus.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LoadUtils$ResourceStatus.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LoadUtils$LoadStatus.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/LoadUtils$LoadStrategy.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util/SearchableCharIterator.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/util [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/genometry.properties [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/annots.xsd [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/genometry/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/genometry/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/genometry/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/genometry/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:03:57Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/genometry/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 2 resources [DEBUG] Copying file annots.xsd [DEBUG] file annots.xsd has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/main/resources/annots.xsd to /media/Script/prog/IGB/core/genometry/target/classes/annots.xsd [DEBUG] Copying file genometry.properties [DEBUG] file genometry.properties has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/main/resources/genometry.properties to /media/Script/prog/IGB/core/genometry/target/classes/genometry.properties [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/genometry [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/genometry/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/genometry/target/classes, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar, /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar, /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar, /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar, /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar, /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar, /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar, /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar, /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar, /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar, /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar, /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar, /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar, /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar, /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/genometry/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/genometry/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:genometry:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/genometry/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/genometry/target/classes /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/genometry/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/genometry/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/genometry/src/main/java /media/Script/prog/IGB/core/genometry/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/quickload/QuickLoadSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BedParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/USeqRegionParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/NewSymLoadedListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleSymWithPropsWithCdsSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/HeatMapExtended.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/TabDelimitedParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/LineProcessor.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/MatchFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Sgr.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/StringEncrypter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/OKAction.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyChpColumnData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/GFileChooser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/service/OperatorServiceFactory.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/CytobandParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/ParameteredAction.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/BgrParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/IntersectionOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ErrorHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/span/MutableDoubleSeqSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/PropertyHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SymWithProps.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/SummaryOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/Parser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/UniFileFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyCnChpParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SingletonSymWithProps.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/IDComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/LogTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/Scored.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/DepthOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/FilterOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/RatioOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffySingleChromData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SingletonSymWithIntId.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/UcscGeneSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/CompositeMismatchGraphSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/SimpleBedParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FastaParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/TwoBitIterator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/UcscGffSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FileTypeHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/CThreadListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/quickload/QuickLoadSymLoaderHook.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/RepositoryChangeListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/SeqSymStartComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/sequence/ReferenceSequenceResource.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/IdentityTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyDataGroup.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/GraphSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/HeatMap.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/BedUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyChpParameter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/InverseLogTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/sequence/ReferenceSequenceDataSetProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/Bprobe1Parser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Gr.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/sequence/ReferenceSequenceProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/NotUniqueLocationFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyDataType.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/IndexZoomSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/GenometryConstants.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/SymLoaderTabix.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/SamRecordFlag.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/SeqMapRefreshed.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/MinOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/DisplayUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/EqualMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FileTypehandlerRegistry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/IndexedSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/CntParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/MedianOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionTextData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/ArchiveInfo.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/DataContainer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/UniFileChooser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/DerivedSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/CachingInputStream.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/AnnotationWriter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/LeafSingletonSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/SeekableBufferedStream.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/TwoBit.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/span/SimpleSeqSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/MutableSingletonSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/ChromLoadPolicy.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BpsParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/ProtocolConstants.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FileTypeHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/LeafTrioSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SimpleSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/LoadUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/MeanOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BrsParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/SymmetryFilterProps.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/StartDepthOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/TbiZoomSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/ColorProviderI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/PairedFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/CompositeGraphSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/DefaultTrackStyle.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/DataProviderFactory.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/SAMWriter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FishClonesParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/GraphIntervalSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/GenomeVersionDateComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/Parameter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/Operator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionText.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/USeqGraphParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/apps/Text2USeq.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/regionfinder/DefaultRegionFinder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/MutableSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/DNAUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ExclusiveAOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/GrParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Das2SliceSupport.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BgnParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/ResidueTrackSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GenericAction.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ProductOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/WaitHelperI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/search/SearchUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/EfficientSnpSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/SymSelectionEvent.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/SymmetryFilterIntersecting.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/GreaterThanMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionText.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/QualityScoreFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/LiftParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/SliceInfo.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/service/OperatorServiceRegistry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/BioSeqComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/AbstractPSLParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/SearchableCharIterator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/ContinuousAction.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimplePairSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/SupportsCdsSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/XorOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ExclusiveOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/GFF3.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/NewSymLoadedEvent.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyChpColumnType.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/IgbStringUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/GFFParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/PSLParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GenericActionDoneCallback.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/FastaIdx.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyDataSet.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/NibbleResiduesParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/ResiduesChars.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionScore.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/SymLoaderInst.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/SeqSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/BoundedParameter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/BioSeqUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/NewInstance.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/PropertyHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/Position.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/HiddenFileFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/SeqSymIdComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/apps/USeq2Text.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionScoreTextData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SymWithResidues.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ModalUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/USeqData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SupportsGeneName.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/StringVersionDateComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionScoreData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SearchableSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ServerUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GroupSelectionListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/TypedSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/GenometryModel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/Region.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/SelectionInfoUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/AlphanumComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/NoIntronFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/DiffOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/ScoredContainerSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/SeqSelectionListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/SymSelectionListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/ReadAlignmentsStrandFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/SeqUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/span/SeqSpanComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/GFF3Sym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleSymWithResidues.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractAnnotationOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/Paired.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractLogTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/PairedConnectorSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/BarParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/GraphParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/WiggleParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Delegate.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/UcscBedSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/DummyRootSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/SupportsFileTypeCategory.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/DataProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/RGB.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/OrderComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/NotOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/UnionOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/apps/Wig2USeq.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SymWithBaseQuality.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/PairedByRunNoFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/StateProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/SubtractMathTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/DuplicateFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionScoreTextData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractGraphOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/FindMateOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/GraphParserUtil.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SingletonSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/GraphSymUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GenomeVersionSelectionEvent.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionScore.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/GraphMultiplexer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/VCF.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/FileTypeCategoryUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/AminoAcid.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/PSL.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Bar.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/EfficientProbesetSymA.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/FileTypeCategory.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/SymLoaderInstNC.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/USeq.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/Duplicate.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/MutableSeqSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/UcscBedDetailSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/PariedByRunNo.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/MisMatchPileupGraphSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/ID.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/SymmetryFilterI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/MultiTierSymWrapper.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/BNIB.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/MismatchFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ExclusiveBOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/UcscPslSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/MultiplyMathTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ThreadUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BedDetailWriter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleMutableSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/ChromInfoParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/BAMSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/TrackLineParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/Activator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/GenometryServiceDependencyManager.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionScoreData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/CdsSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/FileTracker.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/QueryBuilder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/ColorProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/DataProviderPrefKeys.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/EventUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AddMathTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/UniqueLocationFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SeqSymmetryConverter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/MappingQualityFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/BioSeq.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/color/Strand.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/LocalDataProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/Residues.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/PositionScoreText.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/LessThanMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionScoreText.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/BasicSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/IParameters.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/MisMatchGraphSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/DisplaysError.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/PropertyViewHelper.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/ITrackStyle.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/GeneralUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/SymSpanWithCds.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/SeqSymReverseIdComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/data/RegionTextData.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/DataSetUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleScoredSymWithProps.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/CopyMismatchOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/RootSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/SeqSpanComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/IndexWriter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/DataProviderComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/SymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/AxisPopupListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/NotEqualMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BrptParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/UriUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/SharedProbesetInfo.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/StatusAlert.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/DataProviderUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/BaiZoomSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/DynamicStyleHeatMap.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/Weighted.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/BsnpParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractMathTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/MaxOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/GFF3Parser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/CopyXOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/QuantDetectByIntIdComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GenericActionHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/CopySequenceOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/USeqArchive.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/tooltip/ToolTipCategory.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/GFF.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/FastaCommon.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/LocalUrlCacher.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/assembly/AssemblyProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/span/SimpleMutableSeqSpan.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/LinkPSLParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/TwoBitNew.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/SeqSelectionEvent.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/SimpleTrackStyle.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ImprovedStringCharIter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/FileDropHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/EfficientPairSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/CThreadEvent.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/PropertyListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/ReportBugAction.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractFloatTransformer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/MathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Wiggle.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/DirectoryFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/BedGraph.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/CopyGraphOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/PowerTransformer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/ChildThresholdFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleDerivedSeqSymmetry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/TypeContainerAnnot.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SeqSymSummarizer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/PairedBamSymWrapper.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/ScoredIntervalParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyGenericChpFile.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/SgrParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/UnindexedSymLoader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/CThreadWorker.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/Constants.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/ExonArrayDesignParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/AbstractAnnotationTransformer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/thread/CThreadHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/IntId.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/DataProviderFactoryManager.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/GenericActionListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/Psl3Sym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/Parameters.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Genbank.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/GenbankSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/ScoredSingletonSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/ScoreFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/regionfinder/RegionFinder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/tooltip/ToolTipOperations.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ICopy.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/SymmetryFilterId.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/SegmenterRptParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/LessThanEqualMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ComplementSequenceOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/ITrackStyleExtended.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/event/ThreadProgressMonitor.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/VarParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/IndexedSingletonSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/SumOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/ChainFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/WithIntronFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/SimpleSymWithProps.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/GenomeVersion.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symmetry/impl/NarrowPeakSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/NibbleIterator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/SeekableFTPStream.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/ComboChainOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/apps/USeq2UCSCBig.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/GraphType.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/PropertyConstants.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/UcscPslComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/SeqSymMinComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/TwoBitParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/DefaultStateProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/useq/USeqUtilities.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/comparator/QuantByIntIdComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/BlockCompressedStreamPosition.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/data/BaseDataProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/filter/SymmetryFilter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/InverseTransformer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/ExportFileModel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/DivideMathTransform.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/gchp/AffyGenericDataHeader.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/tooltip/ToolTipConstants.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/util/XMLUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/symloader/Fasta.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/general/DataSet.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/style/GraphState.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/operator/comparator/GreaterThanEqualMathComparisonOperator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/ScoredMapParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/main/java/com/affymetrix/genometry/parsers/graph/WiggleData.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar [DEBUG] /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar [DEBUG] /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar [DEBUG] /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar [DEBUG] /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar [DEBUG] /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar [DEBUG] /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar [DEBUG] /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar [DEBUG] /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar [DEBUG] /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar [DEBUG] /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar [DEBUG] /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/genometry/src/main/java [DEBUG] /media/Script/prog/IGB/core/genometry/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 396 source files to /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/genometry/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/genometry/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:06Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/genometry/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 61 resources [DEBUG] Copying file data/2bit/at.2bit [DEBUG] file at.2bit has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/2bit/at.2bit to /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/at.2bit [DEBUG] Copying file data/2bit/maskblocks.2bit [DEBUG] file maskblocks.2bit has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/2bit/maskblocks.2bit to /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/maskblocks.2bit [DEBUG] Copying file data/2bit/mnblocks.2bit [DEBUG] file mnblocks.2bit has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/2bit/mnblocks.2bit to /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/mnblocks.2bit [DEBUG] Copying file data/2bit/nblocks.2bit [DEBUG] file nblocks.2bit has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/2bit/nblocks.2bit to /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/nblocks.2bit [DEBUG] Copying file data/2bit/noblocks.2bit [DEBUG] file noblocks.2bit has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/2bit/noblocks.2bit to /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/noblocks.2bit [DEBUG] Copying file data/bar/1.sgr [DEBUG] file 1.sgr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bar/1.sgr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bar/1.sgr [DEBUG] Copying file data/bar/small.bar [DEBUG] file small.bar has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bar/small.bar to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bar/small.bar [DEBUG] Copying file data/bed/bedDetailExample.bed [DEBUG] file bedDetailExample.bed has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bed/bedDetailExample.bed to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bedDetailExample.bed [DEBUG] Copying file data/bed/bed_01.bed [DEBUG] file bed_01.bed has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bed/bed_01.bed to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_01.bed [DEBUG] Copying file data/bed/bed_02.bed [DEBUG] file bed_02.bed has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bed/bed_02.bed to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_02.bed [DEBUG] Copying file data/bed/bed_03.bed [DEBUG] file bed_03.bed has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bed/bed_03.bed to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_03.bed [DEBUG] Copying file data/bgn/mgcGenes.bgn [DEBUG] file mgcGenes.bgn has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bgn/mgcGenes.bgn to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgn/mgcGenes.bgn [DEBUG] Copying file data/bgr/test1.bgr [DEBUG] file test1.bgr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bgr/test1.bgr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgr/test1.bgr [DEBUG] Copying file data/bnib/BNIB_chrQ.bnib [DEBUG] file BNIB_chrQ.bnib has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bnib/BNIB_chrQ.bnib to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bnib/BNIB_chrQ.bnib [DEBUG] Copying file data/bnib/BNIB_chrQ2.bnib [DEBUG] file BNIB_chrQ2.bnib has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bnib/BNIB_chrQ2.bnib to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bnib/BNIB_chrQ2.bnib [DEBUG] Copying file data/bp1/test.bp2 [DEBUG] file test.bp2 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bp1/test.bp2 to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bp1/test.bp2 [DEBUG] Copying file data/bps/mRNA1.mm.bps [DEBUG] file mRNA1.mm.bps has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bps/mRNA1.mm.bps to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bps/mRNA1.mm.bps [DEBUG] Copying file data/bps/test1.bps [DEBUG] file test1.bps has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/bps/test1.bps to /media/Script/prog/IGB/core/genometry/target/test-classes/data/bps/test1.bps [DEBUG] Copying file data/brs/refseq.brs [DEBUG] file refseq.brs has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/brs/refseq.brs to /media/Script/prog/IGB/core/genometry/target/test-classes/data/brs/refseq.brs [DEBUG] Copying file data/chp/ArabidopsisATH1-121502.CHP.gz [DEBUG] file ArabidopsisATH1-121502.CHP.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/chp/ArabidopsisATH1-121502.CHP.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/chp/ArabidopsisATH1-121502.CHP.gz [DEBUG] Copying file data/chp/TisMap_Brain_01_v1_WTGene1.rma-gene-default.chp.gz [DEBUG] file TisMap_Brain_01_v1_WTGene1.rma-gene-default.chp.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/chp/TisMap_Brain_01_v1_WTGene1.rma-gene-default.chp.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/chp/TisMap_Brain_01_v1_WTGene1.rma-gene-default.chp.gz [DEBUG] Copying file data/cnt/test1.cnt [DEBUG] file test1.cnt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/cnt/test1.cnt to /media/Script/prog/IGB/core/genometry/target/test-classes/data/cnt/test1.cnt [DEBUG] Copying file data/cyt/test1.cyt [DEBUG] file test1.cyt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/cyt/test1.cyt to /media/Script/prog/IGB/core/genometry/target/test-classes/data/cyt/test1.cyt [DEBUG] Copying file data/das2/test2.das2xml [DEBUG] file test2.das2xml has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/das2/test2.das2xml to /media/Script/prog/IGB/core/genometry/target/test-classes/data/das2/test2.das2xml [DEBUG] Copying file data/egr/test.egr [DEBUG] file test.egr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/egr/test.egr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/egr/test.egr [DEBUG] Copying file data/egr/test1.egr [DEBUG] file test1.egr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/egr/test1.egr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/egr/test1.egr [DEBUG] Copying file data/fasta/FASTA_chrQ.fasta [DEBUG] file FASTA_chrQ.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/FASTA_chrQ.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_chrQ.fasta [DEBUG] Copying file data/fasta/FASTA_chrQ2.fasta [DEBUG] file FASTA_chrQ2.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/FASTA_chrQ2.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_chrQ2.fasta [DEBUG] Copying file data/fasta/FASTA_not_obey_70.fasta [DEBUG] file FASTA_not_obey_70.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/FASTA_not_obey_70.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_not_obey_70.fasta [DEBUG] Copying file data/fasta/FASTA_obey_70.fasta [DEBUG] file FASTA_obey_70.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/FASTA_obey_70.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_obey_70.fasta [DEBUG] Copying file data/fasta/FASTA_small_genome.fasta [DEBUG] file FASTA_small_genome.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/FASTA_small_genome.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_small_genome.fasta [DEBUG] Copying file data/fasta/chrC.fasta [DEBUG] file chrC.fasta has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/fasta/chrC.fasta to /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/chrC.fasta [DEBUG] Copying file data/genbank/AE003650.gb.gz [DEBUG] file AE003650.gb.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/genbank/AE003650.gb.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/AE003650.gb.gz [DEBUG] Copying file data/genbank/AE014134.5.gb.gz [DEBUG] file AE014134.5.gb.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/genbank/AE014134.5.gb.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/AE014134.5.gb.gz [DEBUG] Copying file data/genbank/NC_00343.S_pombe.gb.gz [DEBUG] file NC_00343.S_pombe.gb.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/genbank/NC_00343.S_pombe.gb.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/NC_00343.S_pombe.gb.gz [DEBUG] Copying file data/gff1/GFF1_example.gff [DEBUG] file GFF1_example.gff has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/gff1/GFF1_example.gff to /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff1/GFF1_example.gff [DEBUG] Copying file data/gff3/GFF3_canonical_example.gff3 [DEBUG] file GFF3_canonical_example.gff3 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/gff3/GFF3_canonical_example.gff3 to /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff3/GFF3_canonical_example.gff3 [DEBUG] Copying file data/gff3/GFF3_with_errors.gff3 [DEBUG] file GFF3_with_errors.gff3 has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/gff3/GFF3_with_errors.gff3 to /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff3/GFF3_with_errors.gff3 [DEBUG] Copying file data/gr/test1.gr [DEBUG] file test1.gr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/gr/test1.gr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/gr/test1.gr [DEBUG] Copying file data/psl/RT_U34.link.psl.gz [DEBUG] file RT_U34.link.psl.gz has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/psl/RT_U34.link.psl.gz to /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/RT_U34.link.psl.gz [DEBUG] Copying file data/psl/search.psl [DEBUG] file search.psl has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/psl/search.psl to /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/search.psl [DEBUG] Copying file data/psl/test1.psl [DEBUG] file test1.psl has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/psl/test1.psl to /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/test1.psl [DEBUG] Copying file data/pslx/test.pslx [DEBUG] file test.pslx has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/pslx/test.pslx to /media/Script/prog/IGB/core/genometry/target/test-classes/data/pslx/test.pslx [DEBUG] Copying file data/server/A_thaliana/A_thaliana_TAIR8/mRNA1.mm.psl [DEBUG] file mRNA1.mm.psl has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/server/A_thaliana/A_thaliana_TAIR8/mRNA1.mm.psl to /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana/A_thaliana_TAIR8/mRNA1.mm.psl [DEBUG] Copying file data/server/A_thaliana/A_thaliana_TAIR8/mod_chromInfo.txt [DEBUG] file mod_chromInfo.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/server/A_thaliana/A_thaliana_TAIR8/mod_chromInfo.txt to /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana/A_thaliana_TAIR8/mod_chromInfo.txt [DEBUG] Copying file data/sgr/test1.sgr [DEBUG] file test1.sgr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/sgr/test1.sgr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test1.sgr [DEBUG] Copying file data/sgr/test2.sgr [DEBUG] file test2.sgr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/sgr/test2.sgr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test2.sgr [DEBUG] Copying file data/sgr/test4.sgr [DEBUG] file test4.sgr has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/sgr/test4.sgr to /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test4.sgr [DEBUG] Copying file data/speciesLookup/species.txt [DEBUG] file species.txt has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/speciesLookup/species.txt to /media/Script/prog/IGB/core/genometry/target/test-classes/data/speciesLookup/species.txt [DEBUG] Copying file data/useq/chr17_H_sapiens_Mar_2006_Graph.useq [DEBUG] file chr17_H_sapiens_Mar_2006_Graph.useq has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/useq/chr17_H_sapiens_Mar_2006_Graph.useq to /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_Graph.useq [DEBUG] Copying file data/useq/chr17_H_sapiens_Mar_2006_Region.useq [DEBUG] file chr17_H_sapiens_Mar_2006_Region.useq has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/useq/chr17_H_sapiens_Mar_2006_Region.useq to /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_Region.useq [DEBUG] Copying file data/useq/chr17_H_sapiens_Mar_2006_StrandedReadCoverage_Graph.useq [DEBUG] file chr17_H_sapiens_Mar_2006_StrandedReadCoverage_Graph.useq has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/useq/chr17_H_sapiens_Mar_2006_StrandedReadCoverage_Graph.useq to /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_StrandedReadCoverage_Graph.useq [DEBUG] Copying file data/vcf/test.vcf [DEBUG] file test.vcf has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/vcf/test.vcf to /media/Script/prog/IGB/core/genometry/target/test-classes/data/vcf/test.vcf [DEBUG] Copying file data/wiggle/testFile.wig [DEBUG] file testFile.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/testFile.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/testFile.wig [DEBUG] Copying file data/wiggle/wig_test_file1.wig [DEBUG] file wig_test_file1.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wig_test_file1.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file1.wig [DEBUG] Copying file data/wiggle/wig_test_file2.wig [DEBUG] file wig_test_file2.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wig_test_file2.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file2.wig [DEBUG] Copying file data/wiggle/wig_test_file3.wig [DEBUG] file wig_test_file3.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wig_test_file3.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file3.wig [DEBUG] Copying file data/wiggle/wig_test_file4.wig [DEBUG] file wig_test_file4.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wig_test_file4.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file4.wig [DEBUG] Copying file data/wiggle/wig_test_file5.wig [DEBUG] file wig_test_file5.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wig_test_file5.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file5.wig [DEBUG] Copying file data/wiggle/wiggleExample.wig [DEBUG] file wiggleExample.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wiggleExample.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wiggleExample.wig [DEBUG] Copying file data/wiggle/wiggleExample2.wig [DEBUG] file wiggleExample2.wig has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/genometry/src/test/resources/data/wiggle/wiggleExample2.wig to /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wiggleExample2.wig [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/genometry [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/genometry/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/genometry/target/test-classes, /media/Script/prog/IGB/core/genometry/target/classes, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar, /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar, /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar, /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar, /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar, /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar, /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar, /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar, /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar, /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar, /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar, /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar, /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar, /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar, /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar, /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/genometry/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/genometry/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/genometry/src/test/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/genometry/target/test-classes /media/Script/prog/IGB/core/genometry/target/classes /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] Adding /media/Script/prog/IGB/core/genometry/target/generated-test-sources/test-annotations to test-compile source roots: /media/Script/prog/IGB/core/genometry/src/test/java [DEBUG] New test-compile source roots: /media/Script/prog/IGB/core/genometry/src/test/java /media/Script/prog/IGB/core/genometry/target/generated-test-sources/test-annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/BrsParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/TrackLineParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/BioSeqTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/NibbleBioSeqTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/comparator/SeqSymIdComparatorTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/FastaParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/GFFParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/WiggleParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/util/SeqUtilsTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/GFF3SymTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/TwoBitNewTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/GFF3ParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/SamRecordFlagTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/TwoBitParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/PSLParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/UseqParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/CytobandParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/ScoredIntervalParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/GrParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/NibbleResiduesParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/NibbleFileParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/Bprobe1ParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/BpsParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/BgrParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/SgrParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/BarParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/parsers/graph/CntParserTest.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/genometry/src/test/java/com/affymetrix/genometry/util/IgbStringUtilsTest.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar [DEBUG] /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar [DEBUG] /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar [DEBUG] /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar [DEBUG] /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar [DEBUG] /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar [DEBUG] /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar [DEBUG] /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar [DEBUG] /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar [DEBUG] /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar [DEBUG] /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar [DEBUG] /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar [DEBUG] /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar [DEBUG] /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/genometry/src/test/java [DEBUG] /media/Script/prog/IGB/core/genometry/target/generated-test-sources/test-annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 28 source files to /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/genometry [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.apache.felix:org.apache.felix.main=org.apache.felix:org.apache.felix.main:jar:5.2.0:provided, org.apache.felix:org.apache.felix.framework=org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided, org.lorainelab.igb:external-sort=org.lorainelab.igb:external-sort:jar:9.1.4:provided, org.lorainelab.igb:affymetrix-common=org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided, org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, org.apache.commons:commons-compress=org.apache.commons:commons-compress:jar:1.5:provided, org.tukaani:xz=org.tukaani:xz:jar:1.5:provided, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.4:provided, org.jdom:jdom=org.jdom:jdom:jar:1.1.3:provided, com.affymetrix:fusion=com.affymetrix:fusion:jar:1.0.1:provided, net.sf:image4j=net.sf:image4j:jar:0.7:provided, colt:colt=colt:colt:jar:1.2.0:provided, concurrent:concurrent=concurrent:concurrent:jar:1.3.4:provided, org.apache.commons:commons-csv=org.apache.commons:commons-csv:jar:1.2:provided, commons-codec:commons-codec=commons-codec:commons-codec:jar:1.6:provided, commons-net:commons-net=commons-net:commons-net:jar:2.0:provided, junit:junit=junit:junit:jar:4.8.2:test, commons-pool:commons-pool=commons-pool:commons-pool:jar:1.6:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, com.github.kevinsawicki:http-request=com.github.kevinsawicki:http-request:jar:6.0:provided, org.lorainelab.igb:cache-api=org.lorainelab.igb:cache-api:jar:9.1.4:provided, org.lorainelab.igb:synonym-lookup=org.lorainelab.igb:synonym-lookup:jar:9.1.4:provided, htsjdk-igb:htsjdk-igb=htsjdk-igb:htsjdk-igb:jar:2.16.3:provided, commons-logging:commons-logging=commons-logging:commons-logging:jar:1.2:provided, org.apache.commons:commons-jexl=org.apache.commons:commons-jexl:jar:2.1.1:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/genometry/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/genometry/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/genometry/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/genometry [DEBUG] (s) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ genometry --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/genometry/target [DEBUG] (f) finalName = genometry-9.1.4 [DEBUG] (f) instructions = {Bundle-ActivationPolicy=lazy, Bundle-Activator=com.affymetrix.genometry.Activator, Bundle-SymbolicName=genometry, Embed-Dependency=*;scope=compile|runtime, Embed-Transitive=true, Export-Package=com.affymetrix.genometry, com.affymetrix.genometry.color, com.affymetrix.genometry.comparator, com.affymetrix.genometry.das, com.affymetrix.genometry.das2, com.affymetrix.genometry.event, com.affymetrix.genometry.filter, com.affymetrix.genometry.general, com.affymetrix.genometry.operator, com.affymetrix.genometry.operator.comparator, com.affymetrix.genometry.operator.service, com.affymetrix.genometry.parsers, com.affymetrix.genometry.parsers.das, com.affymetrix.genometry.parsers.gchp, com.affymetrix.genometry.parsers.graph, com.affymetrix.genometry.parsers.useq, com.affymetrix.genometry.quickload, com.affymetrix.genometry.regionfinder, com.affymetrix.genometry.span, com.affymetrix.genometry.style, com.affymetrix.genometry.symloader, com.affymetrix.genometry.symmetry, com.affymetrix.genometry.symmetry.impl, com.affymetrix.genometry.thread, com.affymetrix.genometry.util, com.affymetrix.genometry.weblink, com.affymetrix.genometry.tooltip, com.affymetrix.genometry.search, com.affymetrix.genometry.data, com.affymetrix.genometry.data.*, Import-Package=com.apple.laf,*;resolution:=optional, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/genometry/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/genometry/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:genometry:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=276205, ConflictMarker.markTime=71787, ConflictMarker.nodeCount=34, ConflictIdSorter.graphTime=33875, ConflictIdSorter.topsortTime=59095, ConflictIdSorter.conflictIdCount=29, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1791031, ConflictResolver.conflictItemCount=33, DefaultDependencyCollector.collectTime=3710307, DefaultDependencyCollector.transformTime=2354767} [DEBUG] org.lorainelab.igb:genometry:bundle:9.1.4 [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] org.lorainelab.igb:external-sort:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.apache.commons:commons-compress:jar:1.5:provided [DEBUG] org.tukaani:xz:jar:1.5:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] org.jdom:jdom:jar:1.1.3:provided [DEBUG] com.affymetrix:fusion:jar:1.0.1:provided [DEBUG] net.sf:image4j:jar:0.7:provided [DEBUG] colt:colt:jar:1.2.0:provided [DEBUG] concurrent:concurrent:jar:1.3.4:provided [DEBUG] org.apache.commons:commons-csv:jar:1.2:provided [DEBUG] commons-codec:commons-codec:jar:1.6:provided [DEBUG] commons-net:commons-net:jar:2.0:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] commons-pool:commons-pool:jar:1.6:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.github.kevinsawicki:http-request:jar:6.0:provided [DEBUG] org.lorainelab.igb:cache-api:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:synonym-lookup:jar:9.1.4:provided [DEBUG] htsjdk-igb:htsjdk-igb:jar:2.16.3:provided [DEBUG] commons-logging:commons-logging:jar:1.2:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-jexl:jar:2.1.1:provided (scope managed from compile) (version managed from 2.1.1) [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:09 CET 2020 pom.id=org.lorainelab.igb\:genometry\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io Embed-Dependency=*;scope\=compile|runtime felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/genometry/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 Bundle-ActivationPolicy=lazy pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.genometry java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/genometry/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/genometry/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=genometry env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Genometry (Data Models) file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:genometry\:bundle\:9.1.4 jide.version=3.5.15 Bundle-Activator=com.affymetrix.genometry.Activator env._=/usr/bin/mvn Export-Package=com.affymetrix.genometry,com.affymetrix.genometry.color,com.affymetrix.genometry.comparator,com.affymetrix.genometry.das,com.affymetrix.genometry.das2,com.affymetrix.genometry.event,com.affymetrix.genometry.filter,com.affymetrix.genometry.general,com.affymetrix.genometry.operator,com.affymetrix.genometry.operator.comparator,com.affymetrix.genometry.operator.service,com.affymetrix.genometry.parsers,com.affymetrix.genometry.parsers.das,com.affymetrix.genometry.parsers.gchp,com.affymetrix.genometry.parsers.graph,com.affymetrix.genometry.parsers.useq,com.affymetrix.genometry.quickload,com.affymetrix.genometry.regionfinder,com.affymetrix.genometry.span,com.affymetrix.genometry.style,com.affymetrix.genometry.symloader,com.affymetrix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affymetrix.genometry.thread,com.affymetrix.genometry.util,com.affymetrix.genometry.weblink,com.affymetrix.genometry.tooltip,com.affymetrix.genometry.search,com.affymetrix.genometry.data,com.affymetrix.genometry.data.* java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Embed-Transitive=true Include-Resource=annots.xsd\=src/main/resources/annots.xsd,genometry.properties\=src/main/resources/genometry.properties line.separator=\n project.build.directory=/media/Script/prog/IGB/core/genometry/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:genometry\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/genometry os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@760a0932 env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@760a0932 env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/genometry project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=genometry sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=com.affymetrix.genometry.util,com.affymetrix.genometry.parsers,com.affymetrix.genometry.parsers.gchp,com.affymetrix.genometry.parsers.useq.data,com.affymetrix.genometry.parsers.useq.apps,com.affymetrix.genometry.parsers.useq,com.affymetrix.genometry.parsers.graph,com.affymetrix.genometry.comparator,com.affymetrix.genometry.symmetry.impl,com.affymetrix.genometry.symmetry,com.affymetrix.genometry,com.affymetrix.genometry.style,com.affymetrix.genometry.general,com.affymetrix.genometry.data,com.affymetrix.genometry.data.sequence,com.affymetrix.genometry.data.assembly,com.affymetrix.genometry.span,com.affymetrix.genometry.color,com.affymetrix.genometry.filter,com.affymetrix.genometry.symloader,com.affymetrix.genometry.event,com.affymetrix.genometry.operator,com.affymetrix.genometry.operator.comparator,com.affymetrix.genometry.operator.service,com.affymetrix.genometry.tooltip,com.affymetrix.genometry.regionfinder,com.affymetrix.genometry.thread,com.affymetrix.genometry.search,com.affymetrix.genometry.quickload project.build.artifactId=genometry felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Genometry (Data Models) pom.developers=[] env.USER=root project.build=org.apache.maven.model.Build@760a0932 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/genometry project.build.name=Core - Genometry (Data Models) org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=com.apple.laf,*;resolution\:\=optional os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/genometry logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/genometry sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/genometry/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=genometry user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/genometry/src/main/java,/media/Script/prog/IGB/core/genometry/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Genometry (Data Models) maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/genometry/target/classes,\ /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar,\ /media/Script/prog/IGB/plugins/external-sort/target/external-sort-9.1.4.jar,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/org/apache/commons/commons-compress/1.5/commons-compress-1.5.jar,\ /root/.m2/repository/org/tukaani/xz/1.5/xz-1.5.jar,\ /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar,\ /root/.m2/repository/org/jdom/jdom/1.1.3/jdom-1.1.3.jar,\ /root/.m2/repository/com/affymetrix/fusion/1.0.1/fusion-1.0.1.jar,\ /root/.m2/repository/net/sf/image4j/0.7/image4j-0.7.jar,\ /root/.m2/repository/colt/colt/1.2.0/colt-1.2.0.jar,\ /root/.m2/repository/concurrent/concurrent/1.3.4/concurrent-1.3.4.jar,\ /root/.m2/repository/org/apache/commons/commons-csv/1.2/commons-csv-1.2.jar,\ /root/.m2/repository/commons-codec/commons-codec/1.6/commons-codec-1.6.jar,\ /root/.m2/repository/commons-net/commons-net/2.0/commons-net-2.0.jar,\ /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar,\ /root/.m2/repository/commons-pool/commons-pool/1.6/commons-pool-1.6.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/com/github/kevinsawicki/http-request/6.0/http-request-6.0.jar,\ /media/Script/prog/IGB/plugins/cache-api/target/cache-api-9.1.4.jar,\ /media/Script/prog/IGB/core/synonym-lookup/target/synonym-lookup-9.1.4.jar,\ /root/.m2/repository/htsjdk-igb/htsjdk-igb/2.16.3/htsjdk-igb-2.16.3.jar,\ /root/.m2/repository/commons-logging/commons-logging/1.2/commons-logging-1.2.jar,\ /root/.m2/repository/org/apache/commons/commons-jexl/2.1.1/commons-jexl-2.1.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514266174 Bundle-ActivationPolicy: lazy Bundle-Activator: com.affymetrix.genometry.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - Genometry (Data Models) Bundle-SymbolicName: genometry Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: com.affymetrix.genometry;uses:="com.affymetrix.genometry.data,com.affym etrix.genometry.event,com.affymetrix.genometry.general,com.affymetrix.g enometry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affymetrix .genometry.util,org.lorainelab.igb.synonymlookup.services,org.osgi.fram ework";version="9.1.4", com.affymetrix.genometry.color;uses:="com.affymetrix.genometry.general, com.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl ";version="9.1.4", com.affymetrix.genometry.comparator;uses:="affymetrix.calvin.data,com.a ffymetrix.genometry,com.affymetrix.genometry.symmetry.impl";version="9. 1.4", com.affymetrix.genometry.event;uses:="com.affymetrix.genometry,com.affy metrix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl,javax. swing";version="9.1.4", com.affymetrix.genometry.filter;uses:="com.affymetrix.genometry,com.aff ymetrix.genometry.general,com.affymetrix.genometry.parsers,com.affymetr ix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.general;uses:="com.affymetrix.genometry,com.af fymetrix.genometry.data,com.affymetrix.genometry.parsers,com.affymetrix .genometry.symloader,com.affymetrix.genometry.symmetry,com.affymetrix.g enometry.symmetry.impl,com.affymetrix.genometry.util";version="9.1.4", com.affymetrix.genometry.operator;uses:="com.affymetrix.genometry,com.a ffymetrix.genometry.filter,com.affymetrix.genometry.general,com.affymet rix.genometry.parsers,com.affymetrix.genometry.symmetry.impl";version=" 9.1.4", com.affymetrix.genometry.operator.comparator;uses:="com.affymetrix.geno metry.general";version="9.1.4", com.affymetrix.genometry.operator.service;uses:="com.affymetrix.genomet ry.operator,org.osgi.framework";version="9.1.4", com.affymetrix.genometry.parsers;uses:="com.affymetrix.genometry,com.af fymetrix.genometry.style,com.affymetrix.genometry.symloader,com.affymet rix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl";version= "9.1.4", com.affymetrix.genometry.parsers.gchp;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl" ;version="9.1.4", com.affymetrix.genometry.parsers.graph;uses:="com.affymetrix.genometry, com.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl ";version="9.1.4", com.affymetrix.genometry.parsers.useq;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.parsers.graph,com.affymetrix.genometry.symmetry .impl";version="9.1.4", com.affymetrix.genometry.quickload;uses:="com.affymetrix.genometry,com. affymetrix.genometry.general,com.affymetrix.genometry.symloader,com.aff ymetrix.genometry.symmetry.impl,com.affymetrix.genometry.util";version= "9.1.4", com.affymetrix.genometry.regionfinder;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.span;uses:="com.affymetrix.genometry";version= "9.1.4", com.affymetrix.genometry.style;uses:="com.affymetrix.genometry.color,co m.affymetrix.genometry.filter,com.affymetrix.genometry.general";version ="9.1.4", com.affymetrix.genometry.symloader;uses:="com.affymetrix.genometry,com. affymetrix.genometry.filter,com.affymetrix.genometry.general,com.affyme trix.genometry.operator,com.affymetrix.genometry.parsers,com.affymetrix .genometry.quickload,com.affymetrix.genometry.span,com.affymetrix.genom etry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affymetrix.gen ometry.util,htsjdk.samtools.seekablestream,htsjdk.tribble.readers,org.l orainelab.igb.cache.api,org.lorainelab.igb.externalsort.api,org.osgi.fr amework";version="9.1.4", com.affymetrix.genometry.symmetry;uses:="com.affymetrix.genometry,com.a ffymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl";ver sion="9.1.4", com.affymetrix.genometry.symmetry.impl;uses:="com.affymetrix.genometry, com.affymetrix.genometry.parsers,com.affymetrix.genometry.span,com.affy metrix.genometry.style,com.affymetrix.genometry.symmetry,com.affymetrix .genometry.util,htsjdk.samtools";version="9.1.4", com.affymetrix.genometry.thread;uses:="javax.swing";version="9.1.4", com.affymetrix.genometry.util;uses:="com.affymetrix.genometry,com.affym etrix.genometry.data,com.affymetrix.genometry.event,com.affymetrix.geno metry.general,com.affymetrix.genometry.parsers,com.affymetrix.genometry .style,com.affymetrix.genometry.symloader,com.affymetrix.genometry.symm etry,com.affymetrix.genometry.symmetry.impl,com.google.common.base,htsj dk.samtools.seekablestream,javax.swing,javax.swing.filechooser,javax.xm l.parsers,org.w3c.dom,org.xml.sax";version="9.1.4", com.affymetrix.genometry.tooltip;version="9.1.4", com.affymetrix.genometry.search;uses:="com.affymetrix.genometry,com.aff ymetrix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.data;uses:="com.affymetrix.genometry.general,c om.affymetrix.genometry.util,com.google.common.collect,org.lorainelab.i gb.synonymlookup.services";version="9.1.4", com.affymetrix.genometry.data.assembly;uses:="com.affymetrix.genometry, com.affymetrix.genometry.general,com.google.common.collect";version="9. 1.4", com.affymetrix.genometry.data.sequence;uses:="com.affymetrix.genometry, com.affymetrix.genometry.general";version="9.1.4", com.affymetrix.genometry.das;version="9.1.4", com.affymetrix.genometry.das2;version="9.1.4", com.affymetrix.genometry.parsers.das;version="9.1.4", com.affymetrix.genometry.weblink;version="9.1.4" Import-Package: affymetrix.calvin.data;resolution:=optional, cern.colt;resolution:=optional, cern.colt.function;resolution:=optional, cern.colt.list;resolution:=optional, com.affymetrix.common;resolution:=optional;version="[9.1,10)", com.affymetrix.genometry;resolution:=optional, com.affymetrix.genometry.color;resolution:=optional, com.affymetrix.genometry.comparator;resolution:=optional, com.affymetrix.genometry.data;resolution:=optional, com.affymetrix.genometry.event;resolution:=optional, com.affymetrix.genometry.filter;resolution:=optional, com.affymetrix.genometry.general;resolution:=optional, com.affymetrix.genometry.operator;resolution:=optional, com.affymetrix.genometry.operator.comparator;resolution:=optional, com.affymetrix.genometry.parsers;resolution:=optional, com.affymetrix.genometry.parsers.gchp;resolution:=optional, com.affymetrix.genometry.parsers.graph;resolution:=optional, com.affymetrix.genometry.quickload;resolution:=optional, com.affymetrix.genometry.span;resolution:=optional, com.affymetrix.genometry.style;resolution:=optional, com.affymetrix.genometry.symmetry;resolution:=optional, com.affymetrix.genometry.symmetry.impl;resolution:=optional, com.affymetrix.genometry.tooltip;resolution:=optional, com.affymetrix.genometry.util;resolution:=optional, com.github.kevinsawicki.http;resolution:=optional;version="[6.0,7)", com.google.common.base;resolution:=optional;version="[16.0,17)", com.google.common.collect;resolution:=optional;version="[16.0,17)", com.google.common.hash;resolution:=optional;version="[16.0,17)", com.google.common.io;resolution:=optional;version="[16.0,17)", htsjdk.samtools;resolution:=optional;version="[2.16,3)", htsjdk.samtools.reference;resolution:=optional;version="[2.16,3)", htsjdk.samtools.seekablestream;resolution:=optional;version="[2.16,3)", htsjdk.samtools.util;resolution:=optional;version="[2.16,3)", htsjdk.tribble.readers;resolution:=optional;version="[2.16,3)", javax.crypto;resolution:=optional, javax.crypto.spec;resolution:=optional, javax.swing;resolution:=optional, javax.swing.event;resolution:=optional, javax.swing.filechooser;resolution:=optional, javax.xml.parsers;resolution:=optional, net.sf.image4j.codec.ico;resolution:=optional, org.apache.commons.codec.binary;resolution:=optional;version="[1.6,2)", org.apache.commons.compress.archivers.tar;resolution:=optional;version= "[1.5,2)", org.apache.commons.compress.compressors.bzip2;resolution:=optional;vers ion="[1.5,2)", org.apache.commons.lang3;resolution:=optional;version="[3.4,4)", org.apache.commons.lang3.builder;resolution:=optional;version="[3.4,4)" , org.apache.commons.net.ftp;resolution:=optional;version="[2.0,3)", org.apache.commons.pool;resolution:=optional;version="[1.6,2)", org.apache.commons.pool.impl;resolution:=optional;version="[1.6,2)", org.lorainelab.igb.cache.api;resolution:=optional;version="[9.1,10)", org.lorainelab.igb.externalsort.api;resolution:=optional;version="[9.1, 10)", org.lorainelab.igb.synonymlookup.services;resolution:=optional;version= "[9.1,10)", org.osgi.framework;resolution:=optional;version="[1.8,2)", org.osgi.util.tracker;resolution:=optional;version="[1.5,2)", org.slf4j;resolution:=optional;version="[1.7,2)", org.w3c.dom;resolution:=optional, org.xml.sax;resolution:=optional, com.apple.laf Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/DataProviderFactoryManager.xml,OSGI-INF/Comp lementSequenceOperator.xml,OSGI-INF/CopyGraphOperator.xml,OSGI-INF/Copy SequenceOperator.xml,OSGI-INF/OperatorServiceFactory.xml,OSGI-INF/Opera torServiceRegistry.xml,OSGI-INF/com.affymetrix.genometry.parsers.FileTy pehandlerRegistry.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514266174 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ActivationPolicy: lazy Bundle-Activator: com.affymetrix.genometry.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - Genometry (Data Models) Bundle-SymbolicName: genometry Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: com.affymetrix.genometry;uses:="com.affymetrix.genometry.data,com.affym etrix.genometry.event,com.affymetrix.genometry.general,com.affymetrix.g enometry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affymetrix .genometry.util,org.lorainelab.igb.synonymlookup.services,org.osgi.fram ework";version="9.1.4", com.affymetrix.genometry.color;uses:="com.affymetrix.genometry.general, com.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl ";version="9.1.4", com.affymetrix.genometry.comparator;uses:="affymetrix.calvin.data,com.a ffymetrix.genometry,com.affymetrix.genometry.symmetry.impl";version="9. 1.4", com.affymetrix.genometry.event;uses:="com.affymetrix.genometry,com.affy metrix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl,javax. swing";version="9.1.4", com.affymetrix.genometry.filter;uses:="com.affymetrix.genometry,com.aff ymetrix.genometry.general,com.affymetrix.genometry.parsers,com.affymetr ix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.general;uses:="com.affymetrix.genometry,com.af fymetrix.genometry.data,com.affymetrix.genometry.parsers,com.affymetrix .genometry.symloader,com.affymetrix.genometry.symmetry,com.affymetrix.g enometry.symmetry.impl,com.affymetrix.genometry.util";version="9.1.4", com.affymetrix.genometry.operator;uses:="com.affymetrix.genometry,com.a ffymetrix.genometry.filter,com.affymetrix.genometry.general,com.affymet rix.genometry.parsers,com.affymetrix.genometry.symmetry.impl";version=" 9.1.4", com.affymetrix.genometry.operator.comparator;uses:="com.affymetrix.geno metry.general";version="9.1.4", com.affymetrix.genometry.operator.service;uses:="com.affymetrix.genomet ry.operator,org.osgi.framework";version="9.1.4", com.affymetrix.genometry.parsers;uses:="com.affymetrix.genometry,com.af fymetrix.genometry.style,com.affymetrix.genometry.symloader,com.affymet rix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl";version= "9.1.4", com.affymetrix.genometry.parsers.gchp;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl" ;version="9.1.4", com.affymetrix.genometry.parsers.graph;uses:="com.affymetrix.genometry, com.affymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl ";version="9.1.4", com.affymetrix.genometry.parsers.useq;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.parsers.graph,com.affymetrix.genometry.symmetry .impl";version="9.1.4", com.affymetrix.genometry.quickload;uses:="com.affymetrix.genometry,com. affymetrix.genometry.general,com.affymetrix.genometry.symloader,com.aff ymetrix.genometry.symmetry.impl,com.affymetrix.genometry.util";version= "9.1.4", com.affymetrix.genometry.regionfinder;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.span;uses:="com.affymetrix.genometry";version= "9.1.4", com.affymetrix.genometry.style;uses:="com.affymetrix.genometry.color,co m.affymetrix.genometry.filter,com.affymetrix.genometry.general";version ="9.1.4", com.affymetrix.genometry.symloader;uses:="com.affymetrix.genometry,com. affymetrix.genometry.filter,com.affymetrix.genometry.general,com.affyme trix.genometry.operator,com.affymetrix.genometry.parsers,com.affymetrix .genometry.quickload,com.affymetrix.genometry.span,com.affymetrix.genom etry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affymetrix.gen ometry.util,htsjdk.samtools.seekablestream,htsjdk.tribble.readers,org.l orainelab.igb.cache.api,org.lorainelab.igb.externalsort.api,org.osgi.fr amework";version="9.1.4", com.affymetrix.genometry.symmetry;uses:="com.affymetrix.genometry,com.a ffymetrix.genometry.parsers,com.affymetrix.genometry.symmetry.impl";ver sion="9.1.4", com.affymetrix.genometry.symmetry.impl;uses:="com.affymetrix.genometry, com.affymetrix.genometry.parsers,com.affymetrix.genometry.span,com.affy metrix.genometry.style,com.affymetrix.genometry.symmetry,com.affymetrix .genometry.util,htsjdk.samtools";version="9.1.4", com.affymetrix.genometry.thread;uses:="javax.swing";version="9.1.4", com.affymetrix.genometry.util;uses:="com.affymetrix.genometry,com.affym etrix.genometry.data,com.affymetrix.genometry.event,com.affymetrix.geno metry.general,com.affymetrix.genometry.parsers,com.affymetrix.genometry .style,com.affymetrix.genometry.symloader,com.affymetrix.genometry.symm etry,com.affymetrix.genometry.symmetry.impl,com.google.common.base,htsj dk.samtools.seekablestream,javax.swing,javax.swing.filechooser,javax.xm l.parsers,org.w3c.dom,org.xml.sax";version="9.1.4", com.affymetrix.genometry.tooltip;version="9.1.4", com.affymetrix.genometry.search;uses:="com.affymetrix.genometry,com.aff ymetrix.genometry.symmetry.impl";version="9.1.4", com.affymetrix.genometry.data;uses:="com.affymetrix.genometry.general,c om.affymetrix.genometry.util,com.google.common.collect,org.lorainelab.i gb.synonymlookup.services";version="9.1.4", com.affymetrix.genometry.data.assembly;uses:="com.affymetrix.genometry, com.affymetrix.genometry.general,com.google.common.collect";version="9. 1.4", com.affymetrix.genometry.data.sequence;uses:="com.affymetrix.genometry, com.affymetrix.genometry.general";version="9.1.4", com.affymetrix.genometry.das;version="9.1.4", com.affymetrix.genometry.das2;version="9.1.4", com.affymetrix.genometry.parsers.das;version="9.1.4", com.affymetrix.genometry.weblink;version="9.1.4" Import-Package: affymetrix.calvin.data;resolution:=optional, cern.colt;resolution:=optional, cern.colt.function;resolution:=optional, cern.colt.list;resolution:=optional, com.affymetrix.common;resolution:=optional;version="[9.1,10)", com.affymetrix.genometry;resolution:=optional, com.affymetrix.genometry.color;resolution:=optional, com.affymetrix.genometry.comparator;resolution:=optional, com.affymetrix.genometry.data;resolution:=optional, com.affymetrix.genometry.event;resolution:=optional, com.affymetrix.genometry.filter;resolution:=optional, com.affymetrix.genometry.general;resolution:=optional, com.affymetrix.genometry.operator;resolution:=optional, com.affymetrix.genometry.operator.comparator;resolution:=optional, com.affymetrix.genometry.parsers;resolution:=optional, com.affymetrix.genometry.parsers.gchp;resolution:=optional, com.affymetrix.genometry.parsers.graph;resolution:=optional, com.affymetrix.genometry.quickload;resolution:=optional, com.affymetrix.genometry.span;resolution:=optional, com.affymetrix.genometry.style;resolution:=optional, com.affymetrix.genometry.symmetry;resolution:=optional, com.affymetrix.genometry.symmetry.impl;resolution:=optional, com.affymetrix.genometry.tooltip;resolution:=optional, com.affymetrix.genometry.util;resolution:=optional, com.github.kevinsawicki.http;resolution:=optional;version="[6.0,7)", com.google.common.base;resolution:=optional;version="[16.0,17)", com.google.common.collect;resolution:=optional;version="[16.0,17)", com.google.common.hash;resolution:=optional;version="[16.0,17)", com.google.common.io;resolution:=optional;version="[16.0,17)", htsjdk.samtools;resolution:=optional;version="[2.16,3)", htsjdk.samtools.reference;resolution:=optional;version="[2.16,3)", htsjdk.samtools.seekablestream;resolution:=optional;version="[2.16,3)", htsjdk.samtools.util;resolution:=optional;version="[2.16,3)", htsjdk.tribble.readers;resolution:=optional;version="[2.16,3)", javax.crypto;resolution:=optional, javax.crypto.spec;resolution:=optional, javax.swing;resolution:=optional, javax.swing.event;resolution:=optional, javax.swing.filechooser;resolution:=optional, javax.xml.parsers;resolution:=optional, net.sf.image4j.codec.ico;resolution:=optional, org.apache.commons.codec.binary;resolution:=optional;version="[1.6,2)", org.apache.commons.compress.archivers.tar;resolution:=optional;version= "[1.5,2)", org.apache.commons.compress.compressors.bzip2;resolution:=optional;vers ion="[1.5,2)", org.apache.commons.lang3;resolution:=optional;version="[3.4,4)", org.apache.commons.lang3.builder;resolution:=optional;version="[3.4,4)" , org.apache.commons.net.ftp;resolution:=optional;version="[2.0,3)", org.apache.commons.pool;resolution:=optional;version="[1.6,2)", org.apache.commons.pool.impl;resolution:=optional;version="[1.6,2)", org.lorainelab.igb.cache.api;resolution:=optional;version="[9.1,10)", org.lorainelab.igb.externalsort.api;resolution:=optional;version="[9.1, 10)", org.lorainelab.igb.synonymlookup.services;resolution:=optional;version= "[9.1,10)", org.osgi.framework;resolution:=optional;version="[1.8,2)", org.osgi.util.tracker;resolution:=optional;version="[1.5,2)", org.slf4j;resolution:=optional;version="[1.7,2)", org.w3c.dom;resolution:=optional, org.xml.sax;resolution:=optional, com.apple.laf Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/DataProviderFactoryManager.xml,OSGI-INF/Comp lementSequenceOperator.xml,OSGI-INF/CopyGraphOperator.xml,OSGI-INF/Copy SequenceOperator.xml,OSGI-INF/OperatorServiceFactory.xml,OSGI-INF/Opera torServiceRegistry.xml,OSGI-INF/com.affymetrix.genometry.parsers.FileTy pehandlerRegistry.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [WARNING] Bundle org.lorainelab.igb:genometry:bundle:9.1.4 : Export com.affymetrix.genometry.parsers.useq, has 1, private references [com.affymetrix.genometry.parsers.useq.data], [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/genometry/9.1.4/genometry-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/genometry/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/genometry/pom.xml to /root/.m2/repository/org/lorainelab/igb/genometry/9.1.4/genometry-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/genometry/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:genometry/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/genometry/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ genometry --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/genometry/9.1.4/genometry-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/genometry/9.1.4/genometry-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ genometry --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = genometry [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:genometry:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:genometry:9.1.4:jar [INFO] Copying genometry-9.1.4.jar to /media/Script/prog/IGB/bundles/genometry-9.1.4.jar [INFO] [INFO] -----------------< org.lorainelab.igb:igb-preferences >----------------- [INFO] Building Core - Preferences 9.1.4 [8/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igb-preferences:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/igb-preferences/bundles igb-preferences-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} igb-preferences * org.lorainelab.igb.preferences.model, org.lorainelab.igb.preferences * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb igb-preferences 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=36853, ConflictMarker.markTime=24304, ConflictMarker.nodeCount=12, ConflictIdSorter.graphTime=12795, ConflictIdSorter.topsortTime=15745, ConflictIdSorter.conflictIdCount=9, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=228656, ConflictResolver.conflictItemCount=11, DefaultDependencyCollector.collectTime=4868478, DefaultDependencyCollector.transformTime=356678} [DEBUG] org.lorainelab.igb:igb-preferences:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.google.code.gson:gson:jar:2.3.1:provided [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] ch.qos.logback:logback-core:jar:1.1.2:test [DEBUG] ch.qos.logback:logback-classic:jar:1.1.2:test [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-preferences/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-preferences/bundles [DEBUG] (f) includes = [igb-preferences-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/igb-preferences/bundles (included: [igb-preferences-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/igb-preferences/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/igb-preferences/target [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/igb-preferences-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources/test-annotations [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/test-classes/com/lorainelab/igb/preferences/IgbPreferencesParseTest.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes/com/lorainelab/igb/preferences [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes/com/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes/com/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes/com [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/test-classes/igbDefaultPrefs.json [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/testCompile [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model/AnnotationUrl.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model/PluginRepository.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model/DataProviderConfig.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model/JsonWrapper.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model/IgbPreferences.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/model [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/IgbPreferencesService.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences/IgbPreferencesParser.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb/preferences [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes/org [INFO] Deleting file /media/Script/prog/IGB/core/igb-preferences/target/classes/igbDefaultPrefs.json [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/igb-preferences/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-preferences/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-preferences/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-preferences/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-preferences/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:28Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-preferences/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 1 resource [DEBUG] Copying file igbDefaultPrefs.json [DEBUG] file igbDefaultPrefs.json has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/igb-preferences/src/main/resources/igbDefaultPrefs.json to /media/Script/prog/IGB/core/igb-preferences/target/classes/igbDefaultPrefs.json [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-preferences [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-preferences/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-preferences/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-preferences/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:igb-preferences:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/igb-preferences/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/igb-preferences/target/classes /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/igb-preferences/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/igb-preferences/src/main/java /media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/IgbPreferencesParser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/model/PluginRepository.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/IgbPreferencesService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/model/DataProviderConfig.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/model/AnnotationUrl.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/model/JsonWrapper.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/main/java/org/lorainelab/igb/preferences/model/IgbPreferences.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/igb-preferences/src/main/java [DEBUG] /media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 7 source files to /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-preferences/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-preferences/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:28Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-preferences/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 1 resource [DEBUG] Copying file igbDefaultPrefs.json [DEBUG] file igbDefaultPrefs.json has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/igb-preferences/src/test/resources/igbDefaultPrefs.json to /media/Script/prog/IGB/core/igb-preferences/target/test-classes/igbDefaultPrefs.json [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-preferences [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-preferences/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-preferences/target/test-classes, /media/Script/prog/IGB/core/igb-preferences/target/classes, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar, /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar, /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar, /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar, /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-preferences/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/igb-preferences/src/test/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/igb-preferences/target/test-classes /media/Script/prog/IGB/core/igb-preferences/target/classes /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] Adding /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources/test-annotations to test-compile source roots: /media/Script/prog/IGB/core/igb-preferences/src/test/java [DEBUG] New test-compile source roots: /media/Script/prog/IGB/core/igb-preferences/src/test/java /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources/test-annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-preferences/src/test/java/com/lorainelab/igb/preferences/IgbPreferencesParseTest.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar [DEBUG] /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar [DEBUG] /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar [DEBUG] /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar [DEBUG] /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/igb-preferences/src/test/java [DEBUG] /media/Script/prog/IGB/core/igb-preferences/target/generated-test-sources/test-annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 1 source file to /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/igb-preferences [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, com.google.code.gson:gson=com.google.code.gson:gson:jar:2.3.1:provided, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.4:provided, junit:junit=junit:junit:jar:4.8.2:test, ch.qos.logback:logback-core=ch.qos.logback:logback-core:jar:1.1.2:test, ch.qos.logback:logback-classic=ch.qos.logback:logback-classic:jar:1.1.2:test, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/igb-preferences/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/igb-preferences/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/igb-preferences/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/igb-preferences [DEBUG] (s) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-preferences/target [DEBUG] (f) finalName = igb-preferences-9.1.4 [DEBUG] (f) instructions = {Bundle-SymbolicName=igb-preferences, Export-Package=org.lorainelab.igb.preferences.model, org.lorainelab.igb.preferences, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/igb-preferences/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-preferences/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:igb-preferences:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=40434, ConflictMarker.markTime=23150, ConflictMarker.nodeCount=12, ConflictIdSorter.graphTime=13428, ConflictIdSorter.topsortTime=18559, ConflictIdSorter.conflictIdCount=9, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=165715, ConflictResolver.conflictItemCount=11, DefaultDependencyCollector.collectTime=878113, DefaultDependencyCollector.transformTime=300785} [DEBUG] org.lorainelab.igb:igb-preferences:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.google.code.gson:gson:jar:2.3.1:provided [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] ch.qos.logback:logback-core:jar:1.1.2:test [DEBUG] ch.qos.logback:logback-classic:jar:1.1.2:test [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:28 CET 2020 pom.id=org.lorainelab.igb\:igb-preferences\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/igb-preferences/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.preferences java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/igb-preferences/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/igb-preferences/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=igb-preferences env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Preferences file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:igb-preferences\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.preferences.model,org.lorainelab.igb.preferences java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Include-Resource=igbDefaultPrefs.json\=src/main/resources/igbDefaultPrefs.json line.separator=\n project.build.directory=/media/Script/prog/IGB/core/igb-preferences/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:igb-preferences\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/igb-preferences os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@3abfa40 env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@3abfa40 env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/igb-preferences project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=igb-preferences sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.preferences,org.lorainelab.igb.preferences.model project.build.artifactId=igb-preferences felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Preferences env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@3abfa40 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/igb-preferences project.build.name=Core - Preferences org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/igb-preferences logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/igb-preferences sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/igb-preferences/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=igb-preferences user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/igb-preferences/src/main/java,/media/Script/prog/IGB/core/igb-preferences/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Preferences maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/igb-preferences/target/classes,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/com/google/code/gson/gson/2.3.1/gson-2.3.1.jar,\ /root/.m2/repository/org/apache/commons/commons-lang3/3.4/commons-lang3-3.4.jar,\ /root/.m2/repository/junit/junit/4.8.2/junit-4.8.2.jar,\ /root/.m2/repository/ch/qos/logback/logback-core/1.1.2/logback-core-1.1.2.jar,\ /root/.m2/repository/ch/qos/logback/logback-classic/1.1.2/logback-classic-1.1.2.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514268895 Bundle-ManifestVersion: 2 Bundle-Name: Core - Preferences Bundle-SymbolicName: igb-preferences Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.preferences.model;uses:="com.google.gson.annotations ,javax.xml.bind.annotation";version="9.1.4", org.lorainelab.igb.preferences;uses:="org.lorainelab.igb.preferences.mo del";version="9.1.4" Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.io;version="[16.0,17)", com.google.gson;version="[2.3,3)", com.google.gson.annotations;version="[2.3,3)", javax.xml.bind, javax.xml.bind.annotation, org.apache.commons.lang3.builder;version="[3.4,4)", org.lorainelab.igb.preferences.model, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/IgbPreferencesParser.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514268895 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Core - Preferences Bundle-SymbolicName: igb-preferences Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.preferences.model;uses:="com.google.gson.annotations ,javax.xml.bind.annotation";version="9.1.4", org.lorainelab.igb.preferences;uses:="org.lorainelab.igb.preferences.mo del";version="9.1.4" Import-Package: com.google.common.base;version="[16.0,17)", com.google.common.io;version="[16.0,17)", com.google.gson;version="[2.3,3)", com.google.gson.annotations;version="[2.3,3)", javax.xml.bind, javax.xml.bind.annotation, org.apache.commons.lang3.builder;version="[3.4,4)", org.lorainelab.igb.preferences.model, org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/IgbPreferencesParser.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/igb-preferences/target/igb-preferences-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/igb-preferences/9.1.4/igb-preferences-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-preferences/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/igb-preferences/pom.xml to /root/.m2/repository/org/lorainelab/igb/igb-preferences/9.1.4/igb-preferences-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-preferences/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:igb-preferences/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/igb-preferences/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/igb-preferences/9.1.4/igb-preferences-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/igb-preferences/9.1.4/igb-preferences-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ igb-preferences --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = igb-preferences [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:igb-preferences:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:igb-preferences:9.1.4:jar [INFO] Copying igb-preferences-9.1.4.jar to /media/Script/prog/IGB/bundles/igb-preferences-9.1.4.jar [INFO] [INFO] -------------------< org.lorainelab.igb:igbSwingExt >------------------- [INFO] Building Core - IGB Swing Extensions 9.1.4 [9/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igbSwingExt:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/igb-swing-ext/bundles igbSwingExt-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:manifest (bundle-manifest) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} igbSwingExt * com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.jide, com.affymetrix.igb.swing.util com.affymetrix.igb.swing.bundle.Activator * ${manifestLocation} ${niceManifest} ${rebuildBundle} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} igbSwingExt * com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.jide, com.affymetrix.igb.swing.util com.affymetrix.igb.swing.bundle.Activator * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb igbSwingExt 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=34822, ConflictMarker.markTime=27992, ConflictMarker.nodeCount=12, ConflictIdSorter.graphTime=13379, ConflictIdSorter.topsortTime=18871, ConflictIdSorter.conflictIdCount=11, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=173496, ConflictResolver.conflictItemCount=11, DefaultDependencyCollector.collectTime=2286540, DefaultDependencyCollector.transformTime=308105} [DEBUG] org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] com.jidesoft:jide-ultimate:jar:3.5.15:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-swing-ext/bundles [DEBUG] (f) includes = [igbSwingExt-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/igb-swing-ext/bundles (included: [igbSwingExt-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/igb-swing-ext/target [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPSeparator.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/bundle/Activator.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/bundle/Activator$1.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/bundle [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPScrollBar.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPCheckBoxMenuItem.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPRadioButtonMenuItem.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/MenuUtil.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JavascriptScriptProcessor.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTable.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPPopupMenu.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/RPAdjustableJSlider.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTree.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPToggleButton.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPMenu.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPWrapper.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/util/WeightUtil.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/util/Idable.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/util [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPMenuBar.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPComboBoxWithSingleListener.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPComboBox.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPComboBox$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPCheckBox.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/SubRegionFinder.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPHierarchicalWidget.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTabbedPane.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPJPanel.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPRadioButton.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTextField.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTextField$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPTextFieldTableCellRenderer.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/jide/JRPStyledTable.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/jide/StyledJTable.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/jide [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPMenuItem.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPStyledJComboBox.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPStyledJComboBox$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPFileChooser.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPButton.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/WeightedJRPWidget.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPSlider.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPWidgetDecorator.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/JRPWidget.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/Operation.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/script/ScriptProcessorHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/script/ScriptProcessor.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/script/ScriptManager.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/script/ScriptManager$InputHandler.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing/script [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb/swing [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix/igb [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com/affymetrix [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes/com [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target/maven-status [INFO] Deleting directory /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-swing-ext/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-swing-ext/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-swing-ext/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-swing-ext/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-swing-ext/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:29Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-swing-ext/src/main/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/core/igb-swing-ext/src/main/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-swing-ext [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-swing-ext/target/classes, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-swing-ext/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/igb-swing-ext/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/igb-swing-ext/target/classes /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPButton.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPFileChooser.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPStyledJComboBox.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPSlider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/WeightedJRPWidget.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/script/ScriptManager.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPMenuItem.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPTextFieldTableCellRenderer.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPWidgetDecorator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/jide/StyledJTable.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPRadioButton.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/jide/JRPStyledTable.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPTabbedPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPJPanel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPCheckBox.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPComboBox.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/Operation.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/script/ScriptProcessor.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPComboBoxWithSingleListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPHierarchicalWidget.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/script/ScriptProcessorHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/util/Idable.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPMenuBar.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPWrapper.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/util/WeightUtil.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPTextField.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/RPAdjustableJSlider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPMenu.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPToggleButton.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPTree.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JavascriptScriptProcessor.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPTable.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPPopupMenu.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPWidget.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/MenuUtil.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPRadioButtonMenuItem.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPCheckBoxMenuItem.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPScrollBar.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/JRPSeparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/SubRegionFinder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-swing-ext/src/main/java/com/affymetrix/igb/swing/bundle/Activator.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar [DEBUG] /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/igb-swing-ext/src/main/java [DEBUG] /media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 41 source files to /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-bundle-plugin:3.0.0:manifest (bundle-manifest) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:manifest from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:manifest' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] (f) finalName = igbSwingExt-9.1.4 [DEBUG] (f) instructions = {Bundle-Activator=com.affymetrix.igb.swing.bundle.Activator, Bundle-SymbolicName=igbSwingExt, Export-Package=com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.jide, com.affymetrix.igb.swing.util, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/igb-swing-ext/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=50323, ConflictMarker.markTime=40841, ConflictMarker.nodeCount=12, ConflictIdSorter.graphTime=18385, ConflictIdSorter.topsortTime=35006, ConflictIdSorter.conflictIdCount=11, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=415332, ConflictResolver.conflictItemCount=11, DefaultDependencyCollector.collectTime=1296477, DefaultDependencyCollector.transformTime=635725} [DEBUG] org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] com.jidesoft:jide-ultimate:jar:3.5.15:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:30 CET 2020 pom.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.SwingExt java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/igb-swing-ext/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=igbSwingExt env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - IGB Swing Extensions file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 jide.version=3.5.15 Bundle-Activator=com.affymetrix.igb.swing.bundle.Activator env._=/usr/bin/mvn Export-Package=com.affymetrix.igb.swing,com.affymetrix.igb.swing.script,com.affymetrix.igb.swing.jide,com.affymetrix.igb.swing.util java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr line.separator=\n project.build.directory=/media/Script/prog/IGB/core/igb-swing-ext/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@4204fd2b env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@4204fd2b env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=igbSwingExt sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=com.affymetrix.igb.swing.script,com.affymetrix.igb.swing,com.affymetrix.igb.swing.jide,com.affymetrix.igb.swing.util,com.affymetrix.igb.swing.bundle project.build.artifactId=igbSwingExt felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - IGB Swing Extensions env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@4204fd2b felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/igb-swing-ext project.build.name=Core - IGB Swing Extensions org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/igb-swing-ext logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=igbSwingExt user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/igb-swing-ext/src/main/java,/media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - IGB Swing Extensions maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/igb-swing-ext/target/classes,\ /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar,\ /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514271799 Bundle-Activator: com.affymetrix.igb.swing.bundle.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Swing Extensions Bundle-SymbolicName: igbSwingExt Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: com.affymetrix.igb.swing;uses:="com.affymetrix.genoviz.awt,com.affymetr ix.genoviz.swing,com.affymetrix.igb.swing.script,javax.script,javax.swi ng,javax.swing.border,javax.swing.filechooser,javax.swing.table,javax.s wing.text,javax.swing.tree";version="9.1.4", com.affymetrix.igb.swing.script;uses:="com.affymetrix.igb.swing,javax.s cript";version="9.1.4", com.affymetrix.igb.swing.jide;uses:="com.affymetrix.igb.swing,com.jides oft.grid,javax.swing,javax.swing.table";version="9.1.4", com.affymetrix.igb.swing.util;uses:="com.affymetrix.igb.swing";version= "9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.util, com.jidesoft.grid;version="[3.5,4)", javax.script, javax.swing, javax.swing.border, javax.swing.event, javax.swing.filechooser, javax.swing.table, javax.swing.text, javax.swing.tree, org.osgi.framework;version="[1.8,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514271799 Build-Jdk: 1.8.0_242 Built-By: root Bundle-Activator: com.affymetrix.igb.swing.bundle.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Swing Extensions Bundle-SymbolicName: igbSwingExt Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: com.affymetrix.igb.swing;uses:="com.affymetrix.genoviz.awt,com.affymetr ix.genoviz.swing,com.affymetrix.igb.swing.script,javax.script,javax.swi ng,javax.swing.border,javax.swing.filechooser,javax.swing.table,javax.s wing.text,javax.swing.tree";version="9.1.4", com.affymetrix.igb.swing.script;uses:="com.affymetrix.igb.swing,javax.s cript";version="9.1.4", com.affymetrix.igb.swing.jide;uses:="com.affymetrix.igb.swing,com.jides oft.grid,javax.swing,javax.swing.table";version="9.1.4", com.affymetrix.igb.swing.util;uses:="com.affymetrix.igb.swing";version= "9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.util, com.jidesoft.grid;version="[3.5,4)", javax.script, javax.swing, javax.swing.border, javax.swing.event, javax.swing.filechooser, javax.swing.table, javax.swing.text, javax.swing.tree, org.osgi.framework;version="[1.8,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-swing-ext/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-swing-ext/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:31Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-swing-ext/src/test/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/core/igb-swing-ext/src/test/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-swing-ext [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-swing-ext/target/test-classes, /media/Script/prog/IGB/core/igb-swing-ext/target/classes, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-swing-ext/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/igb-swing-ext [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.apache.felix:org.apache.felix.main=org.apache.felix:org.apache.felix.main:jar:5.2.0:provided, org.apache.felix:org.apache.felix.framework=org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided, org.lorainelab.igb:affymetrix-common=org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided, org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, com.affymetrix:genoviz=com.affymetrix:genoviz:jar:1.1.8:provided, com.jidesoft:jide-ultimate=com.jidesoft:jide-ultimate:jar:3.5.15:provided, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/igb-swing-ext/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/igb-swing-ext [DEBUG] (s) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target [DEBUG] (f) finalName = igbSwingExt-9.1.4 [DEBUG] (f) instructions = {Bundle-Activator=com.affymetrix.igb.swing.bundle.Activator, Bundle-SymbolicName=igbSwingExt, Export-Package=com.affymetrix.igb.swing, com.affymetrix.igb.swing.script, com.affymetrix.igb.swing.jide, com.affymetrix.igb.swing.util, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/igb-swing-ext/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-swing-ext/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=51816, ConflictMarker.markTime=39940, ConflictMarker.nodeCount=12, ConflictIdSorter.graphTime=20844, ConflictIdSorter.topsortTime=35397, ConflictIdSorter.conflictIdCount=11, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=450072, ConflictResolver.conflictItemCount=11, DefaultDependencyCollector.collectTime=1392942, DefaultDependencyCollector.transformTime=671352} [DEBUG] org.lorainelab.igb:igbSwingExt:bundle:9.1.4 [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] com.jidesoft:jide-ultimate:jar:3.5.15:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:32 CET 2020 pom.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.SwingExt java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/igb-swing-ext/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=igbSwingExt env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - IGB Swing Extensions file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 jide.version=3.5.15 Bundle-Activator=com.affymetrix.igb.swing.bundle.Activator env._=/usr/bin/mvn Export-Package=com.affymetrix.igb.swing,com.affymetrix.igb.swing.script,com.affymetrix.igb.swing.jide,com.affymetrix.igb.swing.util java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr line.separator=\n project.build.directory=/media/Script/prog/IGB/core/igb-swing-ext/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:igbSwingExt\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@4204fd2b env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@4204fd2b env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=igbSwingExt sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=com.affymetrix.igb.swing.script,com.affymetrix.igb.swing,com.affymetrix.igb.swing.jide,com.affymetrix.igb.swing.util,com.affymetrix.igb.swing.bundle project.build.artifactId=igbSwingExt felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - IGB Swing Extensions env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@4204fd2b felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/igb-swing-ext project.build.name=Core - IGB Swing Extensions org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/igb-swing-ext logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/igb-swing-ext sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/igb-swing-ext/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=igbSwingExt user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/igb-swing-ext/src/main/java,/media/Script/prog/IGB/core/igb-swing-ext/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - IGB Swing Extensions maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/igb-swing-ext/target/classes,\ /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar,\ /root/.m2/repository/com/jidesoft/jide-ultimate/3.5.15/jide-ultimate-3.5.15.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514273704 Bundle-Activator: com.affymetrix.igb.swing.bundle.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Swing Extensions Bundle-SymbolicName: igbSwingExt Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: com.affymetrix.igb.swing;version="9.1.4";uses:="com.affymetrix.genoviz. awt,com.affymetrix.genoviz.swing,com.affymetrix.igb.swing.script,javax. script,javax.swing,javax.swing.border,javax.swing.filechooser,javax.swi ng.table,javax.swing.text,javax.swing.tree", com.affymetrix.igb.swing.script;version="9.1.4";uses:="com.affymetrix.i gb.swing,javax.script", com.affymetrix.igb.swing.jide;version="9.1.4";uses:="com.affymetrix.igb .swing,com.jidesoft.grid,javax.swing,javax.swing.table", com.affymetrix.igb.swing.util;version="9.1.4";uses:="com.affymetrix.igb .swing" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.swing.script;version="[9.1,10)", com.affymetrix.igb.swing.util;version="[9.1,10)", com.jidesoft.grid;version="[3.5,4)", javax.script, javax.swing, javax.swing.border, javax.swing.event, javax.swing.filechooser, javax.swing.table, javax.swing.text, javax.swing.tree, org.osgi.framework;version="[1.8,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514273704 Build-Jdk: 1.8.0_242 Built-By: root Bundle-Activator: com.affymetrix.igb.swing.bundle.Activator Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Swing Extensions Bundle-SymbolicName: igbSwingExt Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: com.affymetrix.igb.swing;version="9.1.4";uses:="com.affymetrix.genoviz. awt,com.affymetrix.genoviz.swing,com.affymetrix.igb.swing.script,javax. script,javax.swing,javax.swing.border,javax.swing.filechooser,javax.swi ng.table,javax.swing.text,javax.swing.tree", com.affymetrix.igb.swing.script;version="9.1.4";uses:="com.affymetrix.i gb.swing,javax.script", com.affymetrix.igb.swing.jide;version="9.1.4";uses:="com.affymetrix.igb .swing,com.jidesoft.grid,javax.swing,javax.swing.table", com.affymetrix.igb.swing.util;version="9.1.4";uses:="com.affymetrix.igb .swing" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.swing.script;version="[9.1,10)", com.affymetrix.igb.swing.util;version="[9.1,10)", com.jidesoft.grid;version="[3.5,4)", javax.script, javax.swing, javax.swing.border, javax.swing.event, javax.swing.filechooser, javax.swing.table, javax.swing.text, javax.swing.tree, org.osgi.framework;version="[1.8,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/igbSwingExt/9.1.4/igbSwingExt-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igbSwingExt/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/igb-swing-ext/pom.xml to /root/.m2/repository/org/lorainelab/igb/igbSwingExt/9.1.4/igbSwingExt-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igbSwingExt/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:igbSwingExt/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/igbSwingExt/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/igbSwingExt/9.1.4/igbSwingExt-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/igbSwingExt/9.1.4/igbSwingExt-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ igbSwingExt --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = igbSwingExt [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:igbSwingExt:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:igbSwingExt:9.1.4:jar [INFO] Copying igbSwingExt-9.1.4.jar to /media/Script/prog/IGB/bundles/igbSwingExt-9.1.4.jar [INFO] [INFO] -------------< org.lorainelab.igb:igb-genoviz-extensions >-------------- [INFO] Building Core - Genoviz Extensions 9.1.4 [10/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/igb-genoviz-ext/bundles igb-genoviz-extensions-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} igb-genoviz-extensions *;scope=compile|runtime true org.lorainelab.igb.genoviz.extensions, org.lorainelab.igb.genoviz.extensions.glyph * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb igb-genoviz-extensions 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=37461, ConflictMarker.markTime=32909, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=22978, ConflictIdSorter.topsortTime=20468, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=118370, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=1112685, DefaultDependencyCollector.transformTime=310489} [DEBUG] org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4 [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-genoviz-ext/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-genoviz-ext/bundles [DEBUG] (f) includes = [igb-genoviz-extensions-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/igb-genoviz-ext/bundles (included: [igb-genoviz-extensions-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/igb-genoviz-ext/target [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/GraphGlyphUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/SmartRubberBand.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/SeqMapViewI.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/SeqMapViewExtendedI.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/GraphGlyphPosComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/AxisGlyphWithSelection.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/AxisGlyphWithSelection$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/AxisGlyphWithSelection$TransientFillRectGlyph.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/TierGlyph.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/TierGlyph$TierType.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/StyledGlyph.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/StyledGlyph$Direction.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/GraphGlyph.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph/GraphGlyph$GraphStyle.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/glyph [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/GraphVisibleBoundsSetter.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions/GraphVisibleBoundsSetter$1.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz/extensions [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb/genoviz [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/org [INFO] Deleting file /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/bundle.properties [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/igb-genoviz-ext/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-genoviz-ext/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-genoviz-ext/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-genoviz-ext/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:34Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 1 resource [DEBUG] Copying file bundle.properties [DEBUG] file bundle.properties has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/resources/bundle.properties to /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/bundle.properties [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-genoviz-ext [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-genoviz-ext/target/classes, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/igb-genoviz-ext/target/classes /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/glyph/StyledGlyph.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/GraphVisibleBoundsSetter.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/glyph/GraphGlyph.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/GraphGlyphPosComparator.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/glyph/TierGlyph.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/GraphGlyphUtils.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/glyph/AxisGlyphWithSelection.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/SeqMapViewI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/SmartRubberBand.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java/org/lorainelab/igb/genoviz/extensions/SeqMapViewExtendedI.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar [DEBUG] /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java [DEBUG] /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 10 source files to /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-genoviz-ext/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-genoviz-ext/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:35Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-genoviz-ext/src/test/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/core/igb-genoviz-ext/src/test/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-genoviz-ext [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes, /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-genoviz-ext/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/igb-genoviz-ext [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.lorainelab.igb:genometry=org.lorainelab.igb:genometry:jar:9.1.4:provided, com.affymetrix:genoviz=com.affymetrix:genoviz:jar:1.1.8:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext [DEBUG] (s) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target [DEBUG] (f) finalName = igb-genoviz-extensions-9.1.4 [DEBUG] (f) instructions = {Bundle-SymbolicName=igb-genoviz-extensions, Embed-Dependency=*;scope=compile|runtime, Embed-Transitive=true, Export-Package=org.lorainelab.igb.genoviz.extensions, org.lorainelab.igb.genoviz.extensions.glyph, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=39691, ConflictMarker.markTime=27442, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=19877, ConflictIdSorter.topsortTime=22554, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=128043, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=681277, DefaultDependencyCollector.transformTime=287308} [DEBUG] org.lorainelab.igb:igb-genoviz-extensions:bundle:9.1.4 [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:35 CET 2020 pom.id=org.lorainelab.igb\:igb-genoviz-extensions\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io Embed-Dependency=*;scope\=compile|runtime felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.genoviz-extensions java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/igb-genoviz-ext/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=igb-genoviz-extensions env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Genoviz Extensions file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:igb-genoviz-extensions\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.genoviz.extensions,org.lorainelab.igb.genoviz.extensions.glyph java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Embed-Transitive=true Include-Resource=bundle.properties\=src/main/resources/bundle.properties line.separator=\n project.build.directory=/media/Script/prog/IGB/core/igb-genoviz-ext/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:igb-genoviz-extensions\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/igb-genoviz-ext os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@b9be26b env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@b9be26b env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/igb-genoviz-ext project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=igb-genoviz-extensions sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.genoviz.extensions,org.lorainelab.igb.genoviz.extensions.glyph project.build.artifactId=igb-genoviz-extensions felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Genoviz Extensions env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@b9be26b felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/igb-genoviz-ext project.build.name=Core - Genoviz Extensions org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/igb-genoviz-ext logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/igb-genoviz-ext sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=igb-genoviz-extensions user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/igb-genoviz-ext/src/main/java,/media/Script/prog/IGB/core/igb-genoviz-ext/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Genoviz Extensions maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/igb-genoviz-ext/target/classes,\ /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar,\ /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514276733 Bundle-ManifestVersion: 2 Bundle-Name: Core - Genoviz Extensions Bundle-SymbolicName: igb-genoviz-extensions Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: org.lorainelab.igb.genoviz.extensions;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.event,com.affymetrix.genometry.style,com.affyme trix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affy metrix.genoviz.bioviews,com.affymetrix.genoviz.glyph,com.affymetrix.gen oviz.swing,com.affymetrix.genoviz.widget,javax.swing,javax.swing.event, org.lorainelab.igb.genoviz.extensions.glyph";version="9.1.4", org.lorainelab.igb.genoviz.extensions.glyph;uses:="com.affymetrix.genom etry,com.affymetrix.genometry.parsers,com.affymetrix.genometry.style,co m.affymetrix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl, com.affymetrix.genoviz.bioviews,com.affymetrix.genoviz.glyph";version=" 9.1.4" Import-Package: com.affymetrix.genometry;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.genometry.parsers;version="[9.1,10)", com.affymetrix.genometry.style;version="[9.1,10)", com.affymetrix.genometry.symmetry;version="[9.1,10)", com.affymetrix.genometry.symmetry.impl;version="[9.1,10)", com.affymetrix.genometry.util;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.bioviews;version="[1.1,2)", com.affymetrix.genoviz.comparator;version="[1.1,2)", com.affymetrix.genoviz.glyph;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.genoviz.util;version="[1.1,2)", com.affymetrix.genoviz.widget;version="[1.1,2)", javax.swing, javax.swing.event, javax.swing.text, org.lorainelab.igb.genoviz.extensions.glyph Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514276733 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Core - Genoviz Extensions Bundle-SymbolicName: igb-genoviz-extensions Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Embed-Dependency: *;scope=compile|runtime Embed-Transitive: true Export-Package: org.lorainelab.igb.genoviz.extensions;uses:="com.affymetrix.genometry,c om.affymetrix.genometry.event,com.affymetrix.genometry.style,com.affyme trix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl,com.affy metrix.genoviz.bioviews,com.affymetrix.genoviz.glyph,com.affymetrix.gen oviz.swing,com.affymetrix.genoviz.widget,javax.swing,javax.swing.event, org.lorainelab.igb.genoviz.extensions.glyph";version="9.1.4", org.lorainelab.igb.genoviz.extensions.glyph;uses:="com.affymetrix.genom etry,com.affymetrix.genometry.parsers,com.affymetrix.genometry.style,co m.affymetrix.genometry.symmetry,com.affymetrix.genometry.symmetry.impl, com.affymetrix.genoviz.bioviews,com.affymetrix.genoviz.glyph";version=" 9.1.4" Import-Package: com.affymetrix.genometry;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.genometry.parsers;version="[9.1,10)", com.affymetrix.genometry.style;version="[9.1,10)", com.affymetrix.genometry.symmetry;version="[9.1,10)", com.affymetrix.genometry.symmetry.impl;version="[9.1,10)", com.affymetrix.genometry.util;version="[9.1,10)", com.affymetrix.genoviz.awt;version="[1.1,2)", com.affymetrix.genoviz.bioviews;version="[1.1,2)", com.affymetrix.genoviz.comparator;version="[1.1,2)", com.affymetrix.genoviz.glyph;version="[1.1,2)", com.affymetrix.genoviz.swing;version="[1.1,2)", com.affymetrix.genoviz.util;version="[1.1,2)", com.affymetrix.genoviz.widget;version="[1.1,2)", javax.swing, javax.swing.event, javax.swing.text, org.lorainelab.igb.genoviz.extensions.glyph Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/9.1.4/igb-genoviz-extensions-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml to /root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/9.1.4/igb-genoviz-extensions-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:igb-genoviz-extensions/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/igb-genoviz-extensions/9.1.4/igb-genoviz-extensions-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/igb-genoviz-extensions/9.1.4/igb-genoviz-extensions-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ igb-genoviz-extensions --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = igb-genoviz-extensions [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:igb-genoviz-extensions:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:igb-genoviz-extensions:9.1.4:jar [INFO] Copying igb-genoviz-extensions-9.1.4.jar to /media/Script/prog/IGB/bundles/igb-genoviz-extensions-9.1.4.jar [INFO] [INFO] ------------------< org.lorainelab.igb:igb-services >------------------- [INFO] Building Core - IGB Services API 9.1.4 [11/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:igb-services:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/igb-services-api/bundles igb-services-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} igb-services org.lorainelab.igb.services.* * lazy * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb igb-services 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=64309, ConflictMarker.markTime=49332, ConflictMarker.nodeCount=15, ConflictIdSorter.graphTime=29985, ConflictIdSorter.topsortTime=39484, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=468392, ConflictResolver.conflictItemCount=14, DefaultDependencyCollector.collectTime=2885322, DefaultDependencyCollector.transformTime=789889} [DEBUG] org.lorainelab.igb:igb-services:bundle:9.1.4 [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.lorainelab.igb:igb-genoviz-extensions:jar:9.1.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-services-api/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/igb-services-api/bundles [DEBUG] (f) includes = [igb-services-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/igb-services-api/bundles (included: [igb-services-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/igb-services-api/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/igb-services-api/target [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/ServiceComponentNameReference.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/XServiceRegistrar.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/XServiceRegistrar$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/visualization/SeqSymmetryPreprocessorI.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/visualization [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/SimpleServiceRegistrar.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/IgbService.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/preferences/PreferencesPanelProvider.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/preferences [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/WindowServiceLifecycleHook.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/IgbTabPanelI.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/IgbTabPanel.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/IgbTabPanel$1.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/IgbTabPanel$SelectAction.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/IgbTabPanel$TabState.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs/TabHolder.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/tabs [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window/HtmlHelpProvider.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/window [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/ISearchModeExtended.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/SearchListener.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/IStatus.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/ISearchModeSym.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/SearchModeRegistry.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/ISearchHints.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/ISearchMode.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/SearchResults.class [INFO] Deleting file /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search/ITransformableTierGlyph.class [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services/search [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb/services [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes/org [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/igb-services-api/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-services-api/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-services-api/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/igb-services-api/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-services-api/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-services-api/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:37Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-services-api/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 0 resource [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-services-api [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-services-api/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-services-api/target/classes, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-services-api/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:igb-services:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/igb-services-api/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/igb-services-api/target/classes /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/igb-services-api/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/igb-services-api/src/main/java /media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/HtmlHelpProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/tabs/TabHolder.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/ITransformableTierGlyph.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/ISearchMode.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/tabs/IgbTabPanelI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/WindowServiceLifecycleHook.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/SearchResults.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/ISearchHints.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/SearchModeRegistry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/SimpleServiceRegistrar.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/tabs/IgbTabPanel.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/IgbService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/ISearchModeSym.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/window/preferences/PreferencesPanelProvider.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/SearchListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/XServiceRegistrar.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/ISearchModeExtended.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/visualization/SeqSymmetryPreprocessorI.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/search/IStatus.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/igb-services-api/src/main/java/org/lorainelab/igb/services/ServiceComponentNameReference.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar [DEBUG] /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar [DEBUG] /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/igb-services-api/src/main/java [DEBUG] /media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 20 source files to /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/igb-services-api/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/igb-services-api/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:38Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/igb-services-api/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 0 resource [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/igb-services-api [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-services-api/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/igb-services-api/target/test-classes, /media/Script/prog/IGB/core/igb-services-api/target/classes, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar, /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar, /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/igb-services-api/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/igb-services-api/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/igb-services-api [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.lorainelab.igb:affymetrix-common=org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided, org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:provided, org.lorainelab.igb:igbSwingExt=org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided, org.lorainelab.igb:genometry=org.lorainelab.igb:genometry:jar:9.1.4:provided, org.apache.felix:org.apache.felix.main=org.apache.felix:org.apache.felix.main:jar:5.2.0:provided, org.apache.felix:org.apache.felix.framework=org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided, com.affymetrix:genoviz=com.affymetrix:genoviz:jar:1.1.8:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, org.lorainelab.igb:igb-genoviz-extensions=org.lorainelab.igb:igb-genoviz-extensions:jar:9.1.4:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/igb-services-api/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/igb-services-api/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/igb-services-api/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/igb-services-api [DEBUG] (s) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ igb-services --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/igb-services-api/target [DEBUG] (f) finalName = igb-services-9.1.4 [DEBUG] (f) instructions = {Bundle-ActivationPolicy=lazy, Bundle-SymbolicName=igb-services, Export-Package=org.lorainelab.igb.services.*, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/igb-services-api/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/igb-services-api/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:igb-services:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=73848, ConflictMarker.markTime=42962, ConflictMarker.nodeCount=15, ConflictIdSorter.graphTime=24486, ConflictIdSorter.topsortTime=37082, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=555071, ConflictResolver.conflictItemCount=14, DefaultDependencyCollector.collectTime=1704128, DefaultDependencyCollector.transformTime=889201} [DEBUG] org.lorainelab.igb:igb-services:bundle:9.1.4 [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.lorainelab.igb:igb-genoviz-extensions:jar:9.1.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:38 CET 2020 pom.id=org.lorainelab.igb\:igb-services\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/igb-services-api/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 Bundle-ActivationPolicy=lazy pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.services java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/igb-services-api/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/igb-services-api/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=igb-services env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - IGB Services API file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:igb-services\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.services.* java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr line.separator=\n project.build.directory=/media/Script/prog/IGB/core/igb-services-api/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:igb-services\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/igb-services-api os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@37253586 env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@37253586 env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/igb-services-api project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=igb-services sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.services.search,org.lorainelab.igb.services.window,org.lorainelab.igb.services.window.tabs,org.lorainelab.igb.services.window.preferences,org.lorainelab.igb.services,org.lorainelab.igb.services.visualization project.build.artifactId=igb-services felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - IGB Services API env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@37253586 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/igb-services-api project.build.name=Core - IGB Services API org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/igb-services-api logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/igb-services-api sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/igb-services-api/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=igb-services user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/igb-services-api/src/main/java,/media/Script/prog/IGB/core/igb-services-api/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - IGB Services API maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/igb-services-api/target/classes,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar,\ /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.main/5.2.0/org.apache.felix.main-5.2.0.jar,\ /root/.m2/repository/org/apache/felix/org.apache.felix.framework/5.2.0/org.apache.felix.framework-5.2.0.jar,\ /root/.m2/repository/com/affymetrix/genoviz/1.1.8/genoviz-1.1.8.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /media/Script/prog/IGB/core/igb-genoviz-ext/target/igb-genoviz-extensions-9.1.4.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514279379 Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Services API Bundle-SymbolicName: igb-services Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.services;uses:="com.affymetrix.genometry,com.affymet rix.genometry.data,com.affymetrix.genometry.event,com.affymetrix.genome try.general,com.affymetrix.genometry.symloader,com.affymetrix.genometry .symmetry.impl,com.affymetrix.genoviz.bioviews,com.affymetrix.genoviz.w idget,javax.swing,javax.swing.event,org.lorainelab.igb.genoviz.extensio ns,org.lorainelab.igb.genoviz.extensions.glyph,org.lorainelab.igb.servi ces.window.preferences,org.lorainelab.igb.services.window.tabs,org.osgi .framework";version="9.1.4", org.lorainelab.igb.services.search;uses:="com.affymetrix.genometry,com. affymetrix.genometry.symmetry.impl,javax.swing";version="9.1.4", org.lorainelab.igb.services.visualization;uses:="com.affymetrix.genomet ry,com.affymetrix.genometry.parsers,com.affymetrix.genometry.style,com. affymetrix.genometry.symmetry,org.lorainelab.igb.genoviz.extensions";ve rsion="9.1.4", org.lorainelab.igb.services.window;version="9.1.4", org.lorainelab.igb.services.window.preferences;uses:="com.affymetrix.ig b.swing";version="9.1.4", org.lorainelab.igb.services.window.tabs;uses:="com.affymetrix.igb.swing ,com.affymetrix.igb.swing.util,javax.swing";version="9.1.4" Import-Package: com.affymetrix.genometry;version="[9.1,10)", com.affymetrix.genometry.data;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.genometry.general;version="[9.1,10)", com.affymetrix.genometry.parsers;version="[9.1,10)", com.affymetrix.genometry.style;version="[9.1,10)", com.affymetrix.genometry.symloader;version="[9.1,10)", com.affymetrix.genometry.symmetry;version="[9.1,10)", com.affymetrix.genometry.symmetry.impl;version="[9.1,10)", com.affymetrix.genoviz.bioviews;version="[1.1,2)", com.affymetrix.genoviz.widget;version="[1.1,2)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.swing.script;version="[9.1,10)", com.affymetrix.igb.swing.util;version="[9.1,10)", com.google.common.collect;version="[16.0,17)", javax.swing, javax.swing.event, org.lorainelab.igb.genoviz.extensions;version="[9.1,10)", org.lorainelab.igb.genoviz.extensions.glyph;version="[9.1,10)", org.lorainelab.igb.services.window.preferences, org.lorainelab.igb.services.window.tabs, org.osgi.framework;version="[1.8,2)", org.osgi.util.tracker;version="[1.5,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/SearchModeRegistry.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514279379 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ActivationPolicy: lazy Bundle-ManifestVersion: 2 Bundle-Name: Core - IGB Services API Bundle-SymbolicName: igb-services Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.services;uses:="com.affymetrix.genometry,com.affymet rix.genometry.data,com.affymetrix.genometry.event,com.affymetrix.genome try.general,com.affymetrix.genometry.symloader,com.affymetrix.genometry .symmetry.impl,com.affymetrix.genoviz.bioviews,com.affymetrix.genoviz.w idget,javax.swing,javax.swing.event,org.lorainelab.igb.genoviz.extensio ns,org.lorainelab.igb.genoviz.extensions.glyph,org.lorainelab.igb.servi ces.window.preferences,org.lorainelab.igb.services.window.tabs,org.osgi .framework";version="9.1.4", org.lorainelab.igb.services.search;uses:="com.affymetrix.genometry,com. affymetrix.genometry.symmetry.impl,javax.swing";version="9.1.4", org.lorainelab.igb.services.visualization;uses:="com.affymetrix.genomet ry,com.affymetrix.genometry.parsers,com.affymetrix.genometry.style,com. affymetrix.genometry.symmetry,org.lorainelab.igb.genoviz.extensions";ve rsion="9.1.4", org.lorainelab.igb.services.window;version="9.1.4", org.lorainelab.igb.services.window.preferences;uses:="com.affymetrix.ig b.swing";version="9.1.4", org.lorainelab.igb.services.window.tabs;uses:="com.affymetrix.igb.swing ,com.affymetrix.igb.swing.util,javax.swing";version="9.1.4" Import-Package: com.affymetrix.genometry;version="[9.1,10)", com.affymetrix.genometry.data;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.genometry.general;version="[9.1,10)", com.affymetrix.genometry.parsers;version="[9.1,10)", com.affymetrix.genometry.style;version="[9.1,10)", com.affymetrix.genometry.symloader;version="[9.1,10)", com.affymetrix.genometry.symmetry;version="[9.1,10)", com.affymetrix.genometry.symmetry.impl;version="[9.1,10)", com.affymetrix.genoviz.bioviews;version="[1.1,2)", com.affymetrix.genoviz.widget;version="[1.1,2)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.swing.script;version="[9.1,10)", com.affymetrix.igb.swing.util;version="[9.1,10)", com.google.common.collect;version="[16.0,17)", javax.swing, javax.swing.event, org.lorainelab.igb.genoviz.extensions;version="[9.1,10)", org.lorainelab.igb.genoviz.extensions.glyph;version="[9.1,10)", org.lorainelab.igb.services.window.preferences, org.lorainelab.igb.services.window.tabs, org.osgi.framework;version="[1.8,2)", org.osgi.util.tracker;version="[1.5,2)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/SearchModeRegistry.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/igb-services/9.1.4/igb-services-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-services/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/igb-services-api/pom.xml to /root/.m2/repository/org/lorainelab/igb/igb-services/9.1.4/igb-services-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/igb-services/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:igb-services/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/igb-services/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ igb-services --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/igb-services/9.1.4/igb-services-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/igb-services/9.1.4/igb-services-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ igb-services --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = igb-services [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:igb-services:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:igb-services:9.1.4:jar [INFO] Copying igb-services-9.1.4.jar to /media/Script/prog/IGB/bundles/igb-services-9.1.4.jar [INFO] [INFO] ------------------< org.lorainelab.igb:frameManager >------------------- [INFO] Building Core - Frame Manager 9.1.4 [12/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:frameManager:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/frameManager/bundles frameManager-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} frameManager * org.lorainelab.igb.frame.api * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb frameManager 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=49249, ConflictMarker.markTime=42777, ConflictMarker.nodeCount=11, ConflictIdSorter.graphTime=33412, ConflictIdSorter.topsortTime=29506, ConflictIdSorter.conflictIdCount=10, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=418001, ConflictResolver.conflictItemCount=10, DefaultDependencyCollector.collectTime=7688521, DefaultDependencyCollector.transformTime=765554} [DEBUG] org.lorainelab.igb:frameManager:bundle:9.1.4 [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] org.lorainelab.igb:igb-services:jar:9.1.4:provided [DEBUG] com.miglayout:miglayout-swing:jar:4.2:provided [DEBUG] com.miglayout:miglayout-core:jar:4.2:provided (version managed from 4.2) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/frameManager/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/frameManager/bundles [DEBUG] (f) includes = [frameManager-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/frameManager/bundles (included: [frameManager-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/frameManager/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/frameManager/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/frameManager/target [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb/frame/FrameManager.class [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb/frame/api/FrameManagerService.class [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb/frame/api [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb/frame/FrameVisibilityManager.class [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb/frame [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab/igb [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/org/lorainelab [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes/org [INFO] Deleting file /media/Script/prog/IGB/core/frameManager/target/classes/bundle.properties [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/frameManager/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/frameManager/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/frameManager/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/frameManager/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/frameManager/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/frameManager/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:40Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/frameManager/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 1 resource [DEBUG] Copying file bundle.properties [DEBUG] file bundle.properties has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/frameManager/src/main/resources/bundle.properties to /media/Script/prog/IGB/core/frameManager/target/classes/bundle.properties [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/frameManager [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/frameManager/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/frameManager/target/classes, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar, /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar, /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/frameManager/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:frameManager:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/frameManager/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/frameManager/target/classes /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/frameManager/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/frameManager/src/main/java /media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/frameManager/src/main/java/org/lorainelab/igb/frame/FrameVisibilityManager.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/frameManager/src/main/java/org/lorainelab/igb/frame/FrameManager.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/frameManager/src/main/java/org/lorainelab/igb/frame/api/FrameManagerService.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar [DEBUG] /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar [DEBUG] /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/frameManager/src/main/java [DEBUG] /media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 3 source files to /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/frameManager/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/frameManager/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:40Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/frameManager/src/test/resources excludes [] includes [] [INFO] skip non existing resourceDirectory /media/Script/prog/IGB/core/frameManager/src/test/resources [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/frameManager [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/frameManager/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/frameManager/target/test-classes, /media/Script/prog/IGB/core/frameManager/target/classes, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar, /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar, /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/frameManager/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/frameManager/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/frameManager [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.lorainelab.igb:affymetrix-common=org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided, org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, org.lorainelab.igb:igb-services=org.lorainelab.igb:igb-services:jar:9.1.4:provided, com.miglayout:miglayout-swing=com.miglayout:miglayout-swing:jar:4.2:provided, com.miglayout:miglayout-core=com.miglayout:miglayout-core:jar:4.2:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/frameManager/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/frameManager/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/frameManager/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/frameManager [DEBUG] (s) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ frameManager --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/frameManager/target [DEBUG] (f) finalName = frameManager-9.1.4 [DEBUG] (f) instructions = {Bundle-SymbolicName=frameManager, Export-Package=org.lorainelab.igb.frame.api, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/frameManager/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/frameManager/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:frameManager:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=46314, ConflictMarker.markTime=39301, ConflictMarker.nodeCount=11, ConflictIdSorter.graphTime=33043, ConflictIdSorter.topsortTime=41311, ConflictIdSorter.conflictIdCount=10, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=659118, ConflictResolver.conflictItemCount=10, DefaultDependencyCollector.collectTime=1109030, DefaultDependencyCollector.transformTime=874769} [DEBUG] org.lorainelab.igb:frameManager:bundle:9.1.4 [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] org.lorainelab.igb:igb-services:jar:9.1.4:provided [DEBUG] com.miglayout:miglayout-swing:jar:4.2:provided [DEBUG] com.miglayout:miglayout-core:jar:4.2:provided (version managed from 4.2) [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:40 CET 2020 pom.id=org.lorainelab.igb\:frameManager\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/frameManager/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.frameManager java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/frameManager/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/frameManager/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=frameManager env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Frame Manager file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:frameManager\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=org.lorainelab.igb.frame.api java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Include-Resource=bundle.properties\=src/main/resources/bundle.properties line.separator=\n project.build.directory=/media/Script/prog/IGB/core/frameManager/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:frameManager\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/frameManager os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@45dcfe4e env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@45dcfe4e env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/frameManager project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=frameManager sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=org.lorainelab.igb.frame,org.lorainelab.igb.frame.api project.build.artifactId=frameManager felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Frame Manager env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@45dcfe4e felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/frameManager project.build.name=Core - Frame Manager org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/frameManager logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/frameManager sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/frameManager/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=frameManager user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/frameManager/src/main/java,/media/Script/prog/IGB/core/frameManager/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Frame Manager maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/frameManager/target/classes,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar,\ /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar,\ /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514281346 Bundle-ManifestVersion: 2 Bundle-Name: Core - Frame Manager Bundle-SymbolicName: frameManager Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: org.lorainelab.igb.frame.api;uses:="javax.swing";version ="9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", javax.swing, net.miginfocom.swing, org.lorainelab.igb.frame.api, org.lorainelab.igb.services;version="[9.1,10)", org.lorainelab.igb.services.window.tabs;version="[9.1,10)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/org.lorainelab.igb.frame.FrameManager.xml,OS GI-INF/org.lorainelab.igb.frame.FrameVisibilityManager.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514281346 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Core - Frame Manager Bundle-SymbolicName: frameManager Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: org.lorainelab.igb.frame.api;uses:="javax.swing";version ="9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", javax.swing, net.miginfocom.swing, org.lorainelab.igb.frame.api, org.lorainelab.igb.services;version="[9.1,10)", org.lorainelab.igb.services.window.tabs;version="[9.1,10)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/org.lorainelab.igb.frame.FrameManager.xml,OS GI-INF/org.lorainelab.igb.frame.FrameVisibilityManager.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/frameManager/9.1.4/frameManager-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/frameManager/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/frameManager/pom.xml to /root/.m2/repository/org/lorainelab/igb/frameManager/9.1.4/frameManager-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/frameManager/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:frameManager/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/frameManager/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ frameManager --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/frameManager/9.1.4/frameManager-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/frameManager/9.1.4/frameManager-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ frameManager --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = frameManager [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:frameManager:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (s) remoteRepos = [ id: repo1 url: https://maven.bioviz.org/repo1 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo2 url: https://maven.bioviz.org/repo2 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: repo3 url: https://maven.bioviz.org/repo3 layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: maven-releases url: https://nexus.bioviz.org/repository/maven-releases layout: default snapshots: [enabled => true, update => daily] releases: [enabled => true, update => daily] , id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => daily] ] [DEBUG] (f) silent = false [DEBUG] (s) skip = false [DEBUG] (s) stripClassifier = false [DEBUG] (s) stripVersion = false [DEBUG] (s) useBaseVersion = false [DEBUG] -- end configuration -- [INFO] Configured Artifact: org.lorainelab.igb:frameManager:9.1.4:jar [INFO] Copying frameManager-9.1.4.jar to /media/Script/prog/IGB/bundles/frameManager-9.1.4.jar [INFO] [INFO] -----------------< org.lorainelab.igb:window-service >------------------ [INFO] Building Core - Window Service 9.1.4 [13/58] [INFO] -------------------------------[ bundle ]------------------------------- [DEBUG] Could not find metadata org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-resources-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-resources-plugin to 3.1.0 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-install-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-install-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Could not find metadata org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml in local (/root/.m2/repository) [DEBUG] Skipped remote request for org.apache.maven.plugins:maven-deploy-plugin/maven-metadata.xml, locally cached metadata up-to-date. [DEBUG] Resolved plugin version for org.apache.maven.plugins:maven-deploy-plugin to 3.0.0-M1 from repository central (https://repo.maven.apache.org/maven2, default, releases) [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] Lifecycle default -> [validate, initialize, generate-sources, process-sources, generate-resources, process-resources, compile, process-classes, generate-test-sources, process-test-sources, generate-test-resources, process-test-resources, test-compile, process-test-classes, test, prepare-package, package, pre-integration-test, integration-test, post-integration-test, verify, install, deploy] [DEBUG] Lifecycle clean -> [pre-clean, clean, post-clean] [DEBUG] Lifecycle site -> [pre-site, site, post-site, site-deploy] [DEBUG] === PROJECT BUILD PLAN ================================================ [DEBUG] Project: org.lorainelab.igb:window-service:9.1.4 [DEBUG] Dependencies (collect): [] [DEBUG] Dependencies (resolve): [compile, test] [DEBUG] Repositories (dependencies): [repo1 (https://maven.bioviz.org/repo1, default, releases+snapshots), repo2 (https://maven.bioviz.org/repo2, default, releases+snapshots), repo3 (https://maven.bioviz.org/repo3, default, releases+snapshots), maven-releases (https://nexus.bioviz.org/repository/maven-releases, default, releases+snapshots), central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] Repositories (plugins) : [central (https://repo.maven.apache.org/maven2, default, releases)] [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-clean-plugin:2.5:clean (default-clean) [DEBUG] Style: Regular [DEBUG] Configuration: ${clean.excludeDefaultDirectories} ${maven.clean.failOnError} /media/Script/prog/IGB/core/window-service/bundles window-service-9.1.4.jar false ${clean.followSymLinks} ${maven.clean.retryOnError} ${clean.skip} ${clean.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources (default-resources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.resources.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:compile (default-compile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.main.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources (default-testResources) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile (default-testCompile) [DEBUG] Style: Regular [DEBUG] Configuration: -Xep:StringEquality:ERROR -Xep:ElementsCountedInLoop:ERROR -Xep:Finally:ERROR -Xep:WaitNotInLoop:ERROR -Xep:SynchronizeOnNonFinalField:ERROR -Xep:StaticAccessedFromInstance:ERROR -Xep:NonAtomicVolatileUpdate:ERROR -Xep:ClassCanBeStatic:ERROR -Xep:DivZero:ERROR -Xep:EmptyIf:ERROR -Xep:CovariantEquals:ERROR -Xep:CollectionIncompatibleType:ERROR -Xep:ArraysAsListPrimitiveArray:ERROR -Xep:ModifyingCollectionWithItself:ERROR -Xep:NumericEquality:ERROR -Xep:SelfEquality:ERROR -Xep:SizeGreaterThanOrEqualsZero:ERROR -Xep:TypeParameterUnusedInFormals:ERROR javac-with-errorprone ${maven.compiler.compilerReuseStrategy} ${maven.compiler.compilerVersion} ${maven.compiler.debug} ${maven.compiler.debuglevel} ${encoding} ${maven.compiler.executable} ${maven.compiler.failOnError} true ${maven.compiler.fork} ${maven.compiler.maxmem} ${maven.compiler.meminitial} ${maven.compiler.optimize} ${maven.compiler.showDeprecation} ${maven.compiler.showWarnings} ${maven.test.skip} ${maven.compiler.skipMultiThreadWarning} ${maven.compiler.source} ${lastModGranularityMs} ${maven.compiler.target} ${maven.compiler.testSource} ${maven.compiler.testTarget} ${maven.compiler.useIncrementalCompilation} ${maven.compiler.verbose} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) [DEBUG] Style: Regular [DEBUG] Configuration: ${maven.test.additionalClasspath} ${argLine} ${childDelegation} ${maven.test.dependency.excludes} ${maven.surefire.debug} ${dependenciesToScan} ${disableXmlReport} ${enableAssertions} ${excludedGroups} ${surefire.excludesFile} ${surefire.failIfNoSpecifiedTests} ${failIfNoTests} ${forkCount} ${forkMode} ${surefire.timeout} ${groups} ${surefire.includesFile} ${junitArtifactName} ${jvm} ${objectFactory} ${parallel} ${parallelOptimized} ${surefire.parallel.forcedTimeout} ${surefire.parallel.timeout} ${perCoreThreadCount} ${plugin.artifactMap} ${surefire.printSummary} ${project.artifactMap} ${maven.test.redirectTestOutputToFile} ${surefire.reportFormat} ${surefire.reportNameSuffix} ${surefire.rerunFailingTestsCount} ${reuseForks} ${surefire.runOrder} ${surefire.shutdown} ${maven.test.skip} ${surefire.skipAfterFailureCount} ${maven.test.skip.exec} ${skipTests} ${surefire.suiteXmlFiles} ${test} ${maven.test.failure.ignore} ${testNGArtifactName} ${threadCount} ${threadCountClasses} ${threadCountMethods} ${threadCountSuites} ${trimStackTrace} ${surefire.useFile} ${surefire.useManifestOnlyJar} ${surefire.useSystemClassLoader} ${useUnlimitedThreads} ${basedir} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:bundle (default-bundle) [DEBUG] Style: Regular [DEBUG] Configuration: ${dumpClasspath} ${dumpInstructions} ${excludeDependencies} window-service * com.affymetrix.igb.window.service * ${manifestLocation} ${niceManifest} ${unpackBundle} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${installAtEnd} ${maven.install.skip} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.felix:maven-bundle-plugin:3.0.0:install (default-install) [DEBUG] Style: Regular [DEBUG] Configuration: ${obrRepository} [DEBUG] ----------------------------------------------------------------------- [DEBUG] Goal: org.apache.maven.plugins:maven-dependency-plugin:2.9:copy (copy) [DEBUG] Style: Regular [DEBUG] Configuration: ${artifact} org.lorainelab.igb window-service 9.1.4 ${outputAbsoluteArtifactFilename} ${project.parent.basedir}/bundles ${mdep.overIfNewer} true true ${mdep.prependGroupId} ${silent} ${mdep.skip} ${mdep.stripClassifier} ${mdep.stripVersion} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=69762, ConflictMarker.markTime=47363, ConflictMarker.nodeCount=15, ConflictIdSorter.graphTime=22765, ConflictIdSorter.topsortTime=39131, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=577020, ConflictResolver.conflictItemCount=14, DefaultDependencyCollector.collectTime=2157012, DefaultDependencyCollector.transformTime=817520} [DEBUG] org.lorainelab.igb:window-service:bundle:9.1.4 [DEBUG] org.lorainelab.igb:igb-services:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] org.lorainelab.igb:frameManager:jar:9.1.4:provided [DEBUG] com.miglayout:miglayout-core:jar:4.2:provided [DEBUG] com.miglayout:miglayout-swing:jar:4.2:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--340662385, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-clean-plugin:2.5:clean' with basic configurator --> [DEBUG] (f) directory = /media/Script/prog/IGB/core/window-service/target [DEBUG] (f) excludeDefaultDirectories = false [DEBUG] (f) failOnError = true [DEBUG] (f) directory = /media/Script/prog/IGB/core/window-service/bundles [DEBUG] (f) includes = [window-service-9.1.4.jar] [DEBUG] (f) followSymlinks = false [DEBUG] (f) filesets = [file set: /media/Script/prog/IGB/core/window-service/bundles (included: [window-service-9.1.4.jar], excluded: [])] [DEBUG] (f) followSymLinks = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] (f) reportDirectory = /media/Script/prog/IGB/core/window-service/target/site [DEBUG] (f) retryOnError = true [DEBUG] (f) skip = false [DEBUG] (f) testOutputDirectory = /media/Script/prog/IGB/core/window-service/target/test-classes [DEBUG] -- end configuration -- [INFO] Deleting /media/Script/prog/IGB/core/window-service/target [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/window-service-9.1.4.jar [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/META-INF/MANIFEST.MF [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/META-INF [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/IWindowService.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/VerticalTextIcon.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/HiddenTabs.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayBottomPane.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/IgbTabPanelRegistry.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl$ActionWrapper.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl$TabStateMenuItem.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl$TabStateMenuItem$1.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl$2.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl$1.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayRightPane.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayLeftPane.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/TrayStateChangeListener.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$5.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$TrayState.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$4.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$3.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$2.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayPane$1.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayHorizontalPane.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/JTabbedTrayHorizontalPane$1.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/TabStateHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowTabs.class [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def/WindowTabs$1.class [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service/def [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window/service [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb/window [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix/igb [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com/affymetrix [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes/com [INFO] Deleting file /media/Script/prog/IGB/core/window-service/target/classes/bundle.properties [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target/classes [INFO] Deleting directory /media/Script/prog/IGB/core/window-service/target [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/window-service/target/test-classes [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/window-service/target/site [DEBUG] Skipping non-existing directory /media/Script/prog/IGB/core/window-service/bundles [INFO] [INFO] --- maven-resources-plugin:3.1.0:resources (default-resources) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:resources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/window-service/src/main/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/window-service/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:42Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/window-service/src/main/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 1 resource [DEBUG] Copying file bundle.properties [DEBUG] file bundle.properties has a filtered file extension [DEBUG] copy /media/Script/prog/IGB/core/window-service/src/main/resources/bundle.properties to /media/Script/prog/IGB/core/window-service/target/classes/bundle.properties [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:compile (default-compile) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:compile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:compile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/window-service [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/window-service/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/window-service/target/classes, /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar, /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar, /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar, /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/window-service/src/main/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedSourcesDirectory = /media/Script/prog/IGB/core/window-service/target/generated-sources/annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:compile {execution: default-compile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (f) projectArtifact = org.lorainelab.igb:window-service:bundle:9.1.4 [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [DEBUG] Source directories: [/media/Script/prog/IGB/core/window-service/src/main/java] [DEBUG] Classpath: [/media/Script/prog/IGB/core/window-service/target/classes /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar] [DEBUG] Output directory: /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] Adding /media/Script/prog/IGB/core/window-service/target/generated-sources/annotations to compile source roots: /media/Script/prog/IGB/core/window-service/src/main/java [DEBUG] New compile source roots: /media/Script/prog/IGB/core/window-service/src/main/java /media/Script/prog/IGB/core/window-service/target/generated-sources/annotations [DEBUG] CompilerReuseStrategy: reuseCreated [DEBUG] useIncrementalCompilation enabled [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/WindowTabs.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/JTabbedTrayHorizontalPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/JTabbedTrayLeftPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/TrayStateChangeListener.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/IgbTabPanelRegistry.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/JTabbedTrayRightPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/WindowServiceDefaultImpl.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/TabStateHandler.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/IWindowService.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/JTabbedTrayBottomPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/HiddenTabs.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/JTabbedTrayPane.java [DEBUG] Stale source detected: /media/Script/prog/IGB/core/window-service/src/main/java/com/affymetrix/igb/window/service/def/VerticalTextIcon.java [INFO] Changes detected - recompiling the module! [DEBUG] Classpath: [DEBUG] /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar [DEBUG] /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar [DEBUG] /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar [DEBUG] /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar [DEBUG] /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar [DEBUG] /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar [DEBUG] /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar [DEBUG] /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar [DEBUG] /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar [DEBUG] /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar [DEBUG] /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar [DEBUG] /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar [DEBUG] Source roots: [DEBUG] /media/Script/prog/IGB/core/window-service/src/main/java [DEBUG] /media/Script/prog/IGB/core/window-service/target/generated-sources/annotations [DEBUG] incrementalBuildHelper#beforeRebuildExecution [INFO] Compiling 13 source files to /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] incrementalBuildHelper#afterRebuildExecution [INFO] [INFO] --- maven-resources-plugin:3.1.0:testResources (default-testResources) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-resources-plugin:3.1.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-resources-plugin:3.1.0:testResources' with basic configurator --> [DEBUG] (f) addDefaultExcludes = true [DEBUG] (f) buildFilters = [] [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) escapeWindowsPaths = true [DEBUG] (f) fileNameFiltering = false [DEBUG] (s) includeEmptyDirs = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/core/window-service/target/test-classes [DEBUG] (s) overwrite = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (s) resources = [Resource {targetPath: null, filtering: false, FileSet {directory: /media/Script/prog/IGB/core/window-service/src/test/resources, PatternSet [includes: {}, excludes: {}]}}] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) skip = false [DEBUG] (f) supportMultiLineFiltering = false [DEBUG] (f) useBuildFilters = true [DEBUG] (s) useDefaultDelimiters = true [DEBUG] -- end configuration -- [DEBUG] properties used {env.OLDPWD=/media/Script/prog/IGB, file.encoding.pkg=sun.io, felixRuntimeVersion=0.16.2, org.apache.felix.http.servlet-api.version=1.1.2, commonsIoVersion=2.4, java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre, genovizVersion=1.1.8, htsjdk-igb-Version=2.16.3, commonsCsvVersion=1.2, env.DISPLAY=localhost:10.0, env.LS_COLORS=rs=0:di=01;34:ln=01;36:mh=00:pi=40;33:so=01;35:do=01;35:bd=40;33;01:cd=40;33;01:or=40;31;01:mi=00:su=37;41:sg=30;43:ca=30;41:tw=30;42:ow=34;42:st=37;44:ex=01;32:*.tar=01;31:*.tgz=01;31:*.arc=01;31:*.arj=01;31:*.taz=01;31:*.lha=01;31:*.lz4=01;31:*.lzh=01;31:*.lzma=01;31:*.tlz=01;31:*.txz=01;31:*.tzo=01;31:*.t7z=01;31:*.zip=01;31:*.z=01;31:*.Z=01;31:*.dz=01;31:*.gz=01;31:*.lrz=01;31:*.lz=01;31:*.lzo=01;31:*.xz=01;31:*.zst=01;31:*.tzst=01;31:*.bz2=01;31:*.bz=01;31:*.tbz=01;31:*.tbz2=01;31:*.tz=01;31:*.deb=01;31:*.rpm=01;31:*.jar=01;31:*.war=01;31:*.ear=01;31:*.sar=01;31:*.rar=01;31:*.alz=01;31:*.ace=01;31:*.zoo=01;31:*.cpio=01;31:*.7z=01;31:*.rz=01;31:*.cab=01;31:*.jpg=01;35:*.jpeg=01;35:*.mjpg=01;35:*.mjpeg=01;35:*.gif=01;35:*.bmp=01;35:*.pbm=01;35:*.pgm=01;35:*.ppm=01;35:*.tga=01;35:*.xbm=01;35:*.xpm=01;35:*.tif=01;35:*.tiff=01;35:*.png=01;35:*.svg=01;35:*.svgz=01;35:*.mng=01;35:*.pcx=01;35:*.mov=01;35:*.mpg=01;35:*.mpeg=01;35:*.m2v=01;35:*.mkv=01;35:*.webm=01;35:*.ogm=01;35:*.mp4=01;35:*.m4v=01;35:*.mp4v=01;35:*.vob=01;35:*.qt=01;35:*.nuv=01;35:*.wmv=01;35:*.asf=01;35:*.rm=01;35:*.rmvb=01;35:*.flc=01;35:*.avi=01;35:*.fli=01;35:*.flv=01;35:*.gl=01;35:*.dl=01;35:*.xcf=01;35:*.xwd=01;35:*.yuv=01;35:*.cgm=01;35:*.emf=01;35:*.ogv=01;35:*.ogx=01;35:*.aac=00;36:*.au=00;36:*.flac=00;36:*.m4a=00;36:*.mid=00;36:*.midi=00;36:*.mka=00;36:*.mp3=00;36:*.mpc=00;36:*.ogg=00;36:*.ra=00;36:*.wav=00;36:*.oga=00;36:*.opus=00;36:*.spx=00;36:*.xspf=00;36:, env.SSH_TTY=/dev/pts/0, classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf, java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed, env.LOGNAME=root, sun.os.patch.level=unknown, java.vendor.url=http://java.oracle.com/, commonsConfigVersion=1.9, commonsPoolVersion=1.6, java.version=1.8.0_242, slf4j-api.version=1.7.7, felix-file-install-version=3.5.0, fusionVersion=1.0.1, commonsCodecVersion=1.6, felix-metatype-version=1.0.10, java.vendor.url.bug=http://bugreport.sun.com/bugreport/, skipTests=true, env.SSH_CLIENT=10.220.220.116 62227 22, org.osgi.service.remoteserviceadmin-version=1.1.0, user.name=root, env.LANG=fr_FR.UTF-8, jdomVersion=1.1.3, sun.io.unicode.encoding=UnicodeLittle, env.PERL5LIB=/media/Data/Ensembl/bioperl-live:/media/Data/Ensembl/ensembl/modules:/media/Data/Ensembl/ensembl-compara/modules:/media/Data/Ensembl/ensembl-variation/modules:/media/Data/Ensembl/ensembl-funcgen/modules:/media/Data/Ensembl/ensembl-io/modules, sun.jnu.encoding=UTF-8, java.runtime.name=OpenJDK Runtime Environment, swingLayoutVersion=1.0.3, jacksonCoreVersion=2.3.5, env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22, java.specification.name=Java Platform API Specification, user.timezone=, env.LESSOPEN=| /usr/bin/lesspipe %s, gitKevinsawickiHttpReq=6.0, path.separator=:, env.MAVEN_CMD_LINE_ARGS= clean install -DskipTests=true -e -X, junitVersion=4.8.2, file.encoding=UTF-8, logback-classic.version=1.1.2, env.HOME=/root, sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests=true -e -X, org.osgi.compendium-version=5.0.0, llRemoteServHttpVersion=1.0.0, felix-webconsole-version=4.3.12, jide.version=3.5.15, env._=/usr/bin/mvn, java.io.tmpdir=/tmp, user.language=fr, line.separator= , project.baseUri=file:/media/Script/prog/IGB/core/window-service/, guavaVersion=16.0.1, feluxMainVersion=5.2.0, java.vm.info=mixed mode, felix-eventadmin-version=1.5.0, java.vm.specification.name=Java Virtual Machine Specification, commonsLoggingVersion=1.2, jacksonMapperVersion=1.7.9, java.awt.printerjob=sun.print.PSPrinterJob, bigWigVersion=2.0.0, commonsCompressVersion=1.5, luceneCoreVersion=3.6.0, freehepGraphicSvgVersion=2.4, maven.build.timestamp=2020-03-06T17:04:43Z, os.name=Linux, java.specification.vendor=Oracle Corporation, jlfgrVersion=1.0, env.TERM=xterm, felix-bundlerepository-version=2.0.10, java.vm.name=OpenJDK 64-Bit Server VM, felix-scr-version=1.8.2, java.library.path=/usr/java/packages/lib/amd64:/usr/lib/x86_64-linux-gnu/jni:/lib/x86_64-linux-gnu:/usr/lib/x86_64-linux-gnu:/usr/lib/jni:/lib:/usr/lib, env.PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/local/games:/usr/games:/media/Nextflow/Nextflow-Anges/:/media/Script/prog/samtools-1.9/samtools:/usr/local/go/bin, nano-httpd-version=2.0.5, env.LESSCLOSE=/usr/bin/lesspipe %s %s, library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native, felixDependencyManagerVersion=3.2.0, java.class.version=52.0, env.SHLVL=1, maven.multiModuleProjectDirectory=/media/Script/prog/IGB, commonsLangVersion=3.4, felixBundleRepoVersion=2.0.10, sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64, project.build.sourceEncoding=UTF-8, commons-fileupload-version=1.3.1, felixLog=1.0.1, sun.management.compiler=HotSpot 64-Bit Tiered Compilers, java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment, commons-net.version=2.0, env.USER=root, felixMainVersion=5.2.0, java.vm.specification.version=1.8, org.lorainelab.igb.remote.services-version=1.0.0, swingAllVersion=1.6.4, awt.toolkit=sun.awt.X11.XToolkit, felixShellRemoteVersion=1.1.2, sun.cpu.isalist=, osgiObrServiceVersion=1.0.2, env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB, gsonVersion=2.3.1, felix-configadmin-version=1.8.8, java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext:/usr/java/packages/lib/ext, os.version=4.9.0-7-amd64, user.home=/root, felixGogoCommandVersion=0.16.0, jflowVersion=1.0, java.vm.vendor=Oracle Corporation, felix-http-version=2.3.2, commonsFileUpload=1.4, env.XDG_SESSION_ID=12785, commonsVfsVersion=2.0, user.dir=/media/Script/prog/IGB, maven.conf=/root/apache-maven-3.6.3/conf, osgiFelixObrVersion=1.0.2, env.MAIL=/var/mail/root, env.PWD=/media/Script/prog/IGB, sun.cpu.endian=little, furbelowVersion=1.0, googleAnalyticsVersion=0.4, felixDependencyManagerShellVersion=3.2.0, logback-core.version=1.1.2, image4jVersion=0.7, cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache, java.vm.version=25.242-b08, java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar, os.arch=amd64, maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f), jacksonDatabindVersion=2.3.5, tangoIconVersion=0.8.90, coltVersion=1.2.0, sun.java.launcher=SUN_STANDARD, felixGogoShellVersion=0.12.0, java.vm.specification.vendor=Oracle Corporation, file.separator=/, commonsNetVersion=2.0, java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08, sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes, bindlib-version=2.4.0, env.XDG_RUNTIME_DIR=/run/user/0, maven.version=3.6.3, user.country=FR, env.SHELL=/bin/bash, felixJettyVersion=4.0.10, maven.home=/root/apache-maven-3.6.3, maven.compiler.target=1.8, xzVersion=1.5, java.vendor=Oracle Corporation, commonsJexl=2.1.1, miglayout-version=4.2, maven.compiler.source=1.8, java.specification.version=1.8, jacksonAnnotationVersion=2.3.5, sun.arch.data.model=64} [INFO] Using 'UTF-8' encoding to copy filtered resources. [DEBUG] resource with targetPath null directory /media/Script/prog/IGB/core/window-service/src/test/resources excludes [] includes [] [DEBUG] ignoreDelta true [INFO] Copying 0 resource [DEBUG] no use filter components [INFO] [INFO] --- maven-compiler-plugin:3.3:testCompile (default-testCompile) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-compiler-plugin:3.3, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile' with basic configurator --> [DEBUG] (f) basedir = /media/Script/prog/IGB/core/window-service [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/window-service/target [DEBUG] (f) classpathElements = [/media/Script/prog/IGB/core/window-service/target/test-classes, /media/Script/prog/IGB/core/window-service/target/classes, /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar, /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar, /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar, /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar, /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar, /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar, /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar, /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar, /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar, /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar, /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar, /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar, /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar] [DEBUG] (f) compileSourceRoots = [/media/Script/prog/IGB/core/window-service/src/test/java] [DEBUG] (f) compilerArgs = [-Xep:StringEquality:ERROR, -Xep:ElementsCountedInLoop:ERROR, -Xep:Finally:ERROR, -Xep:WaitNotInLoop:ERROR, -Xep:SynchronizeOnNonFinalField:ERROR, -Xep:StaticAccessedFromInstance:ERROR, -Xep:NonAtomicVolatileUpdate:ERROR, -Xep:ClassCanBeStatic:ERROR, -Xep:DivZero:ERROR, -Xep:EmptyIf:ERROR, -Xep:CovariantEquals:ERROR, -Xep:CollectionIncompatibleType:ERROR, -Xep:ArraysAsListPrimitiveArray:ERROR, -Xep:ModifyingCollectionWithItself:ERROR, -Xep:NumericEquality:ERROR, -Xep:SelfEquality:ERROR, -Xep:SizeGreaterThanOrEqualsZero:ERROR, -Xep:TypeParameterUnusedInFormals:ERROR] [DEBUG] (f) compilerId = javac-with-errorprone [DEBUG] (f) debug = true [DEBUG] (f) encoding = UTF-8 [DEBUG] (f) failOnError = true [DEBUG] (f) forceJavacCompilerUse = true [DEBUG] (f) fork = false [DEBUG] (f) generatedTestSourcesDirectory = /media/Script/prog/IGB/core/window-service/target/generated-test-sources/test-annotations [DEBUG] (f) mojoExecution = org.apache.maven.plugins:maven-compiler-plugin:3.3:testCompile {execution: default-testCompile} [DEBUG] (f) optimize = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/window-service/target/test-classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) showDeprecation = false [DEBUG] (f) showWarnings = false [DEBUG] (f) skipMultiThreadWarning = false [DEBUG] (f) source = 1.8 [DEBUG] (f) staleMillis = 0 [DEBUG] (f) target = 1.8 [DEBUG] (f) useIncrementalCompilation = true [DEBUG] (f) verbose = false [DEBUG] -- end configuration -- [DEBUG] Using compiler 'javac-with-errorprone'. [INFO] No sources to compile [INFO] [INFO] --- maven-surefire-plugin:2.19:test (default-test) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-surefire-plugin:2.19:test from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-surefire-plugin:2.19, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' with basic configurator --> [DEBUG] (s) additionalClasspathElements = [] [DEBUG] (s) basedir = /media/Script/prog/IGB/core/window-service [DEBUG] (s) childDelegation = false [DEBUG] (s) classesDirectory = /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] (s) classpathDependencyExcludes = [] [DEBUG] (s) dependenciesToScan = [] [DEBUG] (s) disableXmlReport = false [DEBUG] (s) enableAssertions = true [DEBUG] (f) forkCount = 1 [DEBUG] (s) forkMode = once [DEBUG] (s) junitArtifactName = junit:junit [DEBUG] (s) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) parallelMavenExecution = false [DEBUG] (s) parallelOptimized = true [DEBUG] (s) perCoreThreadCount = true [DEBUG] (s) pluginArtifactMap = {org.apache.maven.plugins:maven-surefire-plugin=org.apache.maven.plugins:maven-surefire-plugin:maven-plugin:2.19:, org.apache.maven:maven-plugin-api=org.apache.maven:maven-plugin-api:jar:2.2.1:compile, org.apache.maven.surefire:maven-surefire-common=org.apache.maven.surefire:maven-surefire-common:jar:2.19:compile, org.apache.maven.surefire:surefire-booter=org.apache.maven.surefire:surefire-booter:jar:2.19:compile, org.apache.maven:maven-artifact=org.apache.maven:maven-artifact:jar:2.2.1:compile, org.codehaus.plexus:plexus-utils=org.codehaus.plexus:plexus-utils:jar:1.5.15:compile, org.apache.maven:maven-plugin-descriptor=org.apache.maven:maven-plugin-descriptor:jar:2.2.1:compile, org.codehaus.plexus:plexus-container-default=org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile, junit:junit=junit:junit:jar:4.12:compile, org.hamcrest:hamcrest-core=org.hamcrest:hamcrest-core:jar:1.3:compile, org.apache.maven:maven-project=org.apache.maven:maven-project:jar:2.2.1:compile, org.apache.maven:maven-settings=org.apache.maven:maven-settings:jar:2.2.1:compile, org.apache.maven:maven-profile=org.apache.maven:maven-profile:jar:2.2.1:compile, org.apache.maven:maven-artifact-manager=org.apache.maven:maven-artifact-manager:jar:2.2.1:compile, backport-util-concurrent:backport-util-concurrent=backport-util-concurrent:backport-util-concurrent:jar:3.1:compile, org.apache.maven:maven-plugin-registry=org.apache.maven:maven-plugin-registry:jar:2.2.1:compile, org.codehaus.plexus:plexus-interpolation=org.codehaus.plexus:plexus-interpolation:jar:1.11:compile, org.apache.maven:maven-model=org.apache.maven:maven-model:jar:2.2.1:compile, org.apache.maven:maven-core=org.apache.maven:maven-core:jar:2.2.1:compile, org.apache.maven:maven-plugin-parameter-documenter=org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.1:compile, org.slf4j:slf4j-jdk14=org.slf4j:slf4j-jdk14:jar:1.5.6:runtime, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.5.6:runtime, org.slf4j:jcl-over-slf4j=org.slf4j:jcl-over-slf4j:jar:1.5.6:runtime, org.apache.maven.reporting:maven-reporting-api=org.apache.maven.reporting:maven-reporting-api:jar:3.0:compile, org.apache.maven:maven-repository-metadata=org.apache.maven:maven-repository-metadata:jar:2.2.1:compile, org.apache.maven:maven-error-diagnostics=org.apache.maven:maven-error-diagnostics:jar:2.2.1:compile, org.apache.maven:maven-monitor=org.apache.maven:maven-monitor:jar:2.2.1:compile, classworlds:classworlds=classworlds:classworlds:jar:1.1:compile, org.sonatype.plexus:plexus-sec-dispatcher=org.sonatype.plexus:plexus-sec-dispatcher:jar:1.3:compile, org.sonatype.plexus:plexus-cipher=org.sonatype.plexus:plexus-cipher:jar:1.4:compile, org.apache.commons:commons-lang3=org.apache.commons:commons-lang3:jar:3.1:compile, org.apache.maven.surefire:surefire-api=org.apache.maven.surefire:surefire-api:jar:2.19:compile, org.apache.maven:maven-toolchain=org.apache.maven:maven-toolchain:jar:2.2.1:compile, org.apache.maven.plugin-tools:maven-plugin-annotations=org.apache.maven.plugin-tools:maven-plugin-annotations:jar:3.3:compile} [DEBUG] (f) pluginDescriptor = Component Descriptor: role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.HelpMojo', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:help' role: 'org.apache.maven.plugin.Mojo', implementation: 'org.apache.maven.plugin.surefire.SurefirePlugin', role hint: 'org.apache.maven.plugins:maven-surefire-plugin:2.19:test' --- [DEBUG] (s) printSummary = true [DEBUG] (s) projectArtifactMap = {org.lorainelab.igb:igb-services=org.lorainelab.igb:igb-services:jar:9.1.4:provided, org.lorainelab.igb:igbSwingExt=org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided, org.lorainelab.igb:genometry=org.lorainelab.igb:genometry:jar:9.1.4:provided, org.slf4j:slf4j-api=org.slf4j:slf4j-api:jar:1.7.7:provided, biz.aQute.bnd:bndlib=biz.aQute.bnd:bndlib:jar:2.4.0:provided, org.osgi:org.osgi.core=org.osgi:org.osgi.core:jar:4.3.1:provided, org.lorainelab.igb:affymetrix-common=org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided, org.freedesktop.tango:tango-icon-theme=org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided, javax.jlfgr:jlfgr=javax.jlfgr:jlfgr:jar:1.0:provided, com.google.guava:guava=com.google.guava:guava:jar:16.0.1:provided, org.lorainelab.igb:frameManager=org.lorainelab.igb:frameManager:jar:9.1.4:provided, com.miglayout:miglayout-core=com.miglayout:miglayout-core:jar:4.2:provided, com.miglayout:miglayout-swing=com.miglayout:miglayout-swing:jar:4.2:provided} [DEBUG] (s) redirectTestOutputToFile = false [DEBUG] (s) remoteRepositories = [ id: central url: https://repo.maven.apache.org/maven2 layout: default snapshots: [enabled => false, update => daily] releases: [enabled => true, update => never] ] [DEBUG] (s) reportFormat = brief [DEBUG] (s) reportsDirectory = /media/Script/prog/IGB/core/window-service/target/surefire-reports [DEBUG] (f) rerunFailingTestsCount = 0 [DEBUG] (f) reuseForks = true [DEBUG] (s) runOrder = filesystem [DEBUG] (f) shutdown = testset [DEBUG] (s) skip = false [DEBUG] (f) skipAfterFailureCount = 0 [DEBUG] (s) skipTests = true [DEBUG] (s) suiteXmlFiles = [] [DEBUG] (s) testClassesDirectory = /media/Script/prog/IGB/core/window-service/target/test-classes [DEBUG] (s) testFailureIgnore = false [DEBUG] (s) testNGArtifactName = org.testng:testng [DEBUG] (s) testSourceDirectory = /media/Script/prog/IGB/core/window-service/src/test/java [DEBUG] (s) threadCountClasses = 0 [DEBUG] (s) threadCountMethods = 0 [DEBUG] (s) threadCountSuites = 0 [DEBUG] (s) trimStackTrace = true [DEBUG] (s) useFile = true [DEBUG] (s) useManifestOnlyJar = true [DEBUG] (s) useSystemClassLoader = true [DEBUG] (s) useUnlimitedThreads = false [DEBUG] (s) workingDirectory = /media/Script/prog/IGB/core/window-service [DEBUG] (s) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (s) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] -- end configuration -- [INFO] Tests are skipped. [INFO] [INFO] --- maven-bundle-plugin:3.0.0:bundle (default-bundle) @ window-service --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:bundle from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:bundle' with basic configurator --> [DEBUG] (f) buildDirectory = /media/Script/prog/IGB/core/window-service/target [DEBUG] (f) finalName = window-service-9.1.4 [DEBUG] (f) instructions = {Bundle-SymbolicName=window-service, Export-Package=com.affymetrix.igb.window.service, Import-Package=*, Service-Component=*} [DEBUG] (f) m_mavenSession = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (f) manifestLocation = /media/Script/prog/IGB/core/window-service/target/classes/META-INF [DEBUG] (f) niceManifest = false [DEBUG] (f) outputDirectory = /media/Script/prog/IGB/core/window-service/target/classes [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] -- end configuration -- [DEBUG] building maven31 dependency graph for org.lorainelab.igb:window-service:bundle:9.1.4 [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=63524, ConflictMarker.markTime=113971, ConflictMarker.nodeCount=15, ConflictIdSorter.graphTime=23923, ConflictIdSorter.topsortTime=38571, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=297222, ConflictResolver.conflictItemCount=14, DefaultDependencyCollector.collectTime=1662218, DefaultDependencyCollector.transformTime=598217} [DEBUG] org.lorainelab.igb:window-service:bundle:9.1.4 [DEBUG] org.lorainelab.igb:igb-services:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:igbSwingExt:jar:9.1.4:provided [DEBUG] org.lorainelab.igb:genometry:jar:9.1.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.lorainelab.igb:affymetrix-common:jar:9.1.4:provided [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:provided (version managed from 0.8.90) [DEBUG] javax.jlfgr:jlfgr:jar:1.0:provided (version managed from 1.0) [DEBUG] com.google.guava:guava:jar:16.0.1:provided (scope managed from compile) (version managed from 16.0.1) [DEBUG] org.lorainelab.igb:frameManager:jar:9.1.4:provided [DEBUG] com.miglayout:miglayout-core:jar:4.2:provided [DEBUG] com.miglayout:miglayout-swing:jar:4.2:provided [DEBUG] BND Instructions: #----------------------------------------------------------------------- #Fri Mar 06 18:04:43 CET 2020 pom.id=org.lorainelab.igb\:window-service\:bundle\:9.1.4 env.OLDPWD=/media/Script/prog/IGB file.encoding.pkg=sun.io felixRuntimeVersion=0.16.2 org.apache.felix.http.servlet-api.version=1.1.2 commonsIoVersion=2.4 java.home=/usr/lib/jvm/java-8-openjdk-amd64/jre genovizVersion=1.1.8 htsjdk-igb-Version=2.16.3 commonsCsvVersion=1.2 env.DISPLAY=localhost\:10.0 env.LS_COLORS=rs\=0\:di\=01;34\:ln\=01;36\:mh\=00\:pi\=40;33\:so\=01;35\:do\=01;35\:bd\=40;33;01\:cd\=40;33;01\:or\=40;31;01\:mi\=00\:su\=37;41\:sg\=30;43\:ca\=30;41\:tw\=30;42\:ow\=34;42\:st\=37;44\:ex\=01;32\:*.tar\=01;31\:*.tgz\=01;31\:*.arc\=01;31\:*.arj\=01;31\:*.taz\=01;31\:*.lha\=01;31\:*.lz4\=01;31\:*.lzh\=01;31\:*.lzma\=01;31\:*.tlz\=01;31\:*.txz\=01;31\:*.tzo\=01;31\:*.t7z\=01;31\:*.zip\=01;31\:*.z\=01;31\:*.Z\=01;31\:*.dz\=01;31\:*.gz\=01;31\:*.lrz\=01;31\:*.lz\=01;31\:*.lzo\=01;31\:*.xz\=01;31\:*.zst\=01;31\:*.tzst\=01;31\:*.bz2\=01;31\:*.bz\=01;31\:*.tbz\=01;31\:*.tbz2\=01;31\:*.tz\=01;31\:*.deb\=01;31\:*.rpm\=01;31\:*.jar\=01;31\:*.war\=01;31\:*.ear\=01;31\:*.sar\=01;31\:*.rar\=01;31\:*.alz\=01;31\:*.ace\=01;31\:*.zoo\=01;31\:*.cpio\=01;31\:*.7z\=01;31\:*.rz\=01;31\:*.cab\=01;31\:*.jpg\=01;35\:*.jpeg\=01;35\:*.mjpg\=01;35\:*.mjpeg\=01;35\:*.gif\=01;35\:*.bmp\=01;35\:*.pbm\=01;35\:*.pgm\=01;35\:*.ppm\=01;35\:*.tga\=01;35\:*.xbm\=01;35\:*.xpm\=01;35\:*.tif\=01;35\:*.tiff\=01;35\:*.png\=01;35\:*.svg\=01;35\:*.svgz\=01;35\:*.mng\=01;35\:*.pcx\=01;35\:*.mov\=01;35\:*.mpg\=01;35\:*.mpeg\=01;35\:*.m2v\=01;35\:*.mkv\=01;35\:*.webm\=01;35\:*.ogm\=01;35\:*.mp4\=01;35\:*.m4v\=01;35\:*.mp4v\=01;35\:*.vob\=01;35\:*.qt\=01;35\:*.nuv\=01;35\:*.wmv\=01;35\:*.asf\=01;35\:*.rm\=01;35\:*.rmvb\=01;35\:*.flc\=01;35\:*.avi\=01;35\:*.fli\=01;35\:*.flv\=01;35\:*.gl\=01;35\:*.dl\=01;35\:*.xcf\=01;35\:*.xwd\=01;35\:*.yuv\=01;35\:*.cgm\=01;35\:*.emf\=01;35\:*.ogv\=01;35\:*.ogx\=01;35\:*.aac\=00;36\:*.au\=00;36\:*.flac\=00;36\:*.m4a\=00;36\:*.mid\=00;36\:*.midi\=00;36\:*.mka\=00;36\:*.mp3\=00;36\:*.mpc\=00;36\:*.ogg\=00;36\:*.ra\=00;36\:*.wav\=00;36\:*.oga\=00;36\:*.opus\=00;36\:*.spx\=00;36\:*.xspf\=00;36\: env.SSH_TTY=/dev/pts/0 pom.contributors=[] project.build.developers=[] classworlds.conf=/root/apache-maven-3.6.3/bin/m2.conf pom.pomFile=/media/Script/prog/IGB/core/window-service/pom.xml java.endorsed.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/endorsed project.build.groupId=org.lorainelab.igb env.LOGNAME=root Service-Component=* sun.os.patch.level=unknown java.vendor.url=http\://java.oracle.com/ commonsConfigVersion=1.9 pom.profiles=[] commonsPoolVersion=1.6 maven-symbolicname=org.lorainelab.igb.window-service java.version=1.8.0_242 slf4j-api.version=1.7.7 felix-file-install-version=3.5.0 fusionVersion=1.0.1 commonsCodecVersion=1.6 project.build.contributors=[] felix-metatype-version=1.0.10 java.vendor.url.bug=http\://bugreport.sun.com/bugreport/ skipTests=true env.SSH_CLIENT=10.220.220.116 62227 22 org.osgi.service.remoteserviceadmin-version=1.1.0 user.name=root env.LANG=fr_FR.UTF-8 jdomVersion=1.1.3 project.build.pomFile=/media/Script/prog/IGB/core/window-service/pom.xml sun.io.unicode.encoding=UnicodeLittle env.PERL5LIB=/media/Data/Ensembl/bioperl-live\:/media/Data/Ensembl/ensembl/modules\:/media/Data/Ensembl/ensembl-compara/modules\:/media/Data/Ensembl/ensembl-variation/modules\:/media/Data/Ensembl/ensembl-funcgen/modules\:/media/Data/Ensembl/ensembl-io/modules sun.jnu.encoding=UTF-8 java.runtime.name=OpenJDK Runtime Environment project.build.outputdirectory=/media/Script/prog/IGB/core/window-service/target/classes swingLayoutVersion=1.0.3 jacksonCoreVersion=2.3.5 env.SSH_CONNECTION=10.220.220.116 62227 10.220.223.72 22 project.version=9.1.4 java.specification.name=Java Platform API Specification user.timezone= env.LESSOPEN=| /usr/bin/lesspipe %s gitKevinsawickiHttpReq=6.0 pom.mailingLists=[] path.separator=\: project.contributors=[] pom.artifactId=window-service env.MAVEN_CMD_LINE_ARGS=\ clean install -DskipTests\=true -e -X junitVersion=4.8.2 project.name=Core - Window Service file.encoding=UTF-8 logback-classic.version=1.1.2 env.HOME=/root sun.java.command=org.codehaus.plexus.classworlds.launcher.Launcher clean install -DskipTests\=true -e -X org.osgi.compendium-version=5.0.0 llRemoteServHttpVersion=1.0.0 felix-webconsole-version=4.3.12 project.id=org.lorainelab.igb\:window-service\:bundle\:9.1.4 jide.version=3.5.15 env._=/usr/bin/mvn Export-Package=com.affymetrix.igb.window.service java.io.tmpdir=/tmp project.build.mailingLists=[] user.language=fr Include-Resource=bundle.properties\=src/main/resources/bundle.properties line.separator=\n project.build.directory=/media/Script/prog/IGB/core/window-service/target guavaVersion=16.0.1 feluxMainVersion=5.2.0 java.vm.info=mixed mode felix-eventadmin-version=1.5.0 java.vm.specification.name=Java Virtual Machine Specification commonsLoggingVersion=1.2 jacksonMapperVersion=1.7.9 project.build.id=org.lorainelab.igb\:window-service\:bundle\:9.1.4 project.build.licenses=[] pom.modelVersion=4.0.0 project.licenses=[] project.developers=[] java.awt.printerjob=sun.print.PSPrinterJob bigWigVersion=2.0.0 -removeheaders=Include-Resource,Private-Package pom.version=9.1.4 commonsCompressVersion=1.5 luceneCoreVersion=3.6.0 -plugin=org.apache.felix.bundleplugin.BlueprintPlugin,aQute.lib.spring.SpringXMLType project.mailingLists=[] pom.packaging=bundle freehepGraphicSvgVersion=2.4 project.build.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 project.projectDirectory=/media/Script/prog/IGB/core/window-service os.name=Linux project.build.modelVersion=4.0.0 java.specification.vendor=Oracle Corporation jlfgrVersion=1.0 env.TERM=xterm felix-bundlerepository-version=2.0.10 java.vm.name=OpenJDK 64-Bit Server VM felix-scr-version=1.8.2 java.library.path=/usr/java/packages/lib/amd64\:/usr/lib/x86_64-linux-gnu/jni\:/lib/x86_64-linux-gnu\:/usr/lib/x86_64-linux-gnu\:/usr/lib/jni\:/lib\:/usr/lib project.build.build=org.apache.maven.model.Build@20edbcc9 env.PATH=/usr/local/sbin\:/usr/local/bin\:/usr/sbin\:/usr/bin\:/sbin\:/bin\:/usr/local/games\:/usr/games\:/media/Nextflow/Nextflow-Anges/\:/media/Script/prog/samtools-1.9/samtools\:/usr/local/go/bin nano-httpd-version=2.0.5 pom.build=org.apache.maven.model.Build@20edbcc9 env.LESSCLOSE=/usr/bin/lesspipe %s %s library.jansi.path=/root/apache-maven-3.6.3/lib/jansi-native felixDependencyManagerVersion=3.2.0 java.class.version=52.0 env.SHLVL=1 maven.multiModuleProjectDirectory=/media/Script/prog/IGB project.build.version=9.1.4 pom.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 pom.projectDirectory=/media/Script/prog/IGB/core/window-service project.modelVersion=4.0.0 commonsLangVersion=3.4 felixBundleRepoVersion=2.0.10 Bundle-SymbolicName=window-service sun.boot.library.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/amd64 project.build.sourceEncoding=UTF-8 commons-fileupload-version=1.3.1 Private-Package=com.affymetrix.igb.window.service.def,com.affymetrix.igb.window.service project.build.artifactId=window-service felixLog=1.0.1 sun.management.compiler=HotSpot 64-Bit Tiered Compilers java.awt.graphicsenv=sun.awt.X11GraphicsEnvironment commons-net.version=2.0 pom.name=Core - Window Service env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@20edbcc9 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/window-service project.build.name=Core - Window Service org.lorainelab.igb.remote.services-version=1.0.0 java.vm.specification.version=1.8 swingAllVersion=1.6.4 project.groupId=org.lorainelab.igb Bundle-Version=9.1.4 awt.toolkit=sun.awt.X11.XToolkit project.build.profiles=[] felixShellRemoteVersion=1.1.2 sun.cpu.isalist= osgiObrServiceVersion=1.0.2 env.MAVEN_PROJECTBASEDIR=/media/Script/prog/IGB gsonVersion=2.3.1 project.profiles=[] felix-configadmin-version=1.8.8 java.ext.dirs=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/ext\:/usr/java/packages/lib/ext Import-Package=* os.version=4.9.0-7-amd64 user.home=/root felixGogoCommandVersion=0.16.0 jflowVersion=1.0 java.vm.vendor=Oracle Corporation felix-http-version=2.3.2 commonsFileUpload=1.4 env.XDG_SESSION_ID=12785 commonsVfsVersion=2.0 user.dir=/media/Script/prog/IGB maven.conf=/root/apache-maven-3.6.3/conf osgiFelixObrVersion=1.0.2 env.MAIL=/var/mail/root env.PWD=/media/Script/prog/IGB project.parent=org.lorainelab.igb\:igb-project\:pom\:9.1.4 sun.cpu.endian=little furbelowVersion=1.0 googleAnalyticsVersion=0.4 pom.licenses=[] felixDependencyManagerShellVersion=3.2.0 project.dir=/media/Script/prog/IGB/core/window-service logback-core.version=1.1.2 image4jVersion=0.7 classifier= cacheDirectory=/root/.igb/bundles/v9.1.4-bundle-cache java.vm.version=25.242-b08 java.class.path=/root/apache-maven-3.6.3/boot/plexus-classworlds-2.6.0.jar os.arch=amd64 maven.build.version=Apache Maven 3.6.3 (cecedd343002696d0abb50b32b541b8a6ba2883f) jacksonDatabindVersion=2.3.5 tangoIconVersion=0.8.90 coltVersion=1.2.0 project.build.projectDirectory=/media/Script/prog/IGB/core/window-service sun.java.launcher=SUN_STANDARD felixGogoShellVersion=0.12.0 project.packaging=bundle java.vm.specification.vendor=Oracle Corporation file.separator=/ commonsNetVersion=2.0 java.runtime.version=1.8.0_242-8u242-b08-1~deb9u1-b08 project.pomFile=/media/Script/prog/IGB/core/window-service/pom.xml sun.boot.class.path=/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/resources.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/rt.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/sunrsasign.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jsse.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jce.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/charsets.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/lib/jfr.jar\:/usr/lib/jvm/java-8-openjdk-amd64/jre/classes project.build.packaging=bundle env.XDG_RUNTIME_DIR=/run/user/0 bindlib-version=2.4.0 maven.version=3.6.3 project.artifactId=window-service user.country=FR maven.home=/root/apache-maven-3.6.3 felixJettyVersion=4.0.10 env.SHELL=/bin/bash maven.compiler.target=1.8 xzVersion=1.5 -sourcepath=/media/Script/prog/IGB/core/window-service/src/main/java,/media/Script/prog/IGB/core/window-service/target/generated-sources/annotations pom.groupId=org.lorainelab.igb commonsJexl=2.1.1 java.vendor=Oracle Corporation miglayout-version=4.2 Bundle-Name=Core - Window Service maven.compiler.source=1.8 java.specification.version=1.8 jacksonAnnotationVersion=2.3.5 sun.arch.data.model=64 #----------------------------------------------------------------------- [DEBUG] BND Classpath: #----------------------------------------------------------------------- -classpath:\ /media/Script/prog/IGB/core/window-service/target/classes,\ /media/Script/prog/IGB/core/igb-services-api/target/igb-services-9.1.4.jar,\ /media/Script/prog/IGB/core/igb-swing-ext/target/igbSwingExt-9.1.4.jar,\ /media/Script/prog/IGB/core/genometry/target/genometry-9.1.4.jar,\ /root/.m2/repository/org/slf4j/slf4j-api/1.7.7/slf4j-api-1.7.7.jar,\ /root/.m2/repository/biz/aQute/bnd/bndlib/2.4.0/bndlib-2.4.0.jar,\ /root/.m2/repository/org/osgi/org.osgi.core/4.3.1/org.osgi.core-4.3.1.jar,\ /media/Script/prog/IGB/core/common/target/affymetrix-common-9.1.4.jar,\ /root/.m2/repository/org/freedesktop/tango/tango-icon-theme/0.8.90/tango-icon-theme-0.8.90.jar,\ /root/.m2/repository/javax/jlfgr/jlfgr/1.0/jlfgr-1.0.jar,\ /root/.m2/repository/com/google/guava/guava/16.0.1/guava-16.0.1.jar,\ /media/Script/prog/IGB/core/frameManager/target/frameManager-9.1.4.jar,\ /root/.m2/repository/com/miglayout/miglayout-core/4.2/miglayout-core-4.2.jar,\ /root/.m2/repository/com/miglayout/miglayout-swing/4.2/miglayout-swing-4.2.jar #----------------------------------------------------------------------- [DEBUG] BND Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514284573 Bundle-ManifestVersion: 2 Bundle-Name: Core - Window Service Bundle-SymbolicName: window-service Bundle-Version: 9.1.4 Created-By: 1.8.0_242 (Oracle Corporation) Export-Package: com.affymetrix.igb.window.service;uses:="com.affymetrix. igb.swing,javax.swing,org.lorainelab.igb.services.window.tabs";version= "9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.window.service, com.google.common.collect;version="[16.0,17)", javax.swing, javax.swing.event, net.miginfocom.swing, org.lorainelab.igb.frame.api;version="[9.1,10)", org.lorainelab.igb.services;version="[9.1,10)", org.lorainelab.igb.services.window;version="[9.1,10)", org.lorainelab.igb.services.window.tabs;version="[9.1,10)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/com.affymetrix.igb.window.service.def.IgbTab PanelRegistry.xml,OSGI-INF/com.affymetrix.igb.window.service.def.Window ServiceDefaultImpl.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [DEBUG] Final Manifest: #----------------------------------------------------------------------- Manifest-Version: 1.0 Bnd-LastModified: 1583514284573 Build-Jdk: 1.8.0_242 Built-By: root Bundle-ManifestVersion: 2 Bundle-Name: Core - Window Service Bundle-SymbolicName: window-service Bundle-Version: 9.1.4 Created-By: Apache Maven Bundle Plugin Export-Package: com.affymetrix.igb.window.service;uses:="com.affymetrix. igb.swing,javax.swing,org.lorainelab.igb.services.window.tabs";version= "9.1.4" Import-Package: com.affymetrix.common;version="[9.1,10)", com.affymetrix.genometry.event;version="[9.1,10)", com.affymetrix.igb.swing;version="[9.1,10)", com.affymetrix.igb.window.service, com.google.common.collect;version="[16.0,17)", javax.swing, javax.swing.event, net.miginfocom.swing, org.lorainelab.igb.frame.api;version="[9.1,10)", org.lorainelab.igb.services;version="[9.1,10)", org.lorainelab.igb.services.window;version="[9.1,10)", org.lorainelab.igb.services.window.tabs;version="[9.1,10)", org.slf4j;version="[1.7,2)" Require-Capability: osgi.ee;filter:="(&(osgi.ee=JavaSE)(version=1.8))" Service-Component: OSGI-INF/com.affymetrix.igb.window.service.def.IgbTab PanelRegistry.xml,OSGI-INF/com.affymetrix.igb.window.service.def.Window ServiceDefaultImpl.xml Tool: Bnd-3.0.0.201509101326 #----------------------------------------------------------------------- [INFO] [INFO] --- maven-install-plugin:3.0.0-M1:install (default-install) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-install-plugin:3.0.0-M1, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-install-plugin:3.0.0-M1:install' with basic configurator --> [DEBUG] (f) installAtEnd = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-manager:9.1.4 @ /media/Script/prog/IGB/plugins/plugin-manager/pom.xml, MavenProject: org.lorainelab.igb:paired-data-preprocessor:9.1.4 @ /media/Script/prog/IGB/plugins/PairedEndDataPreprocessor/pom.xml, MavenProject: org.lorainelab.igb:session-manager:9.1.4 @ /media/Script/prog/IGB/plugins/session-manager/pom.xml, MavenProject: org.lorainelab.igb:keybinding-registry:9.1.4 @ /media/Script/prog/IGB/plugins/Keybinding-registry/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.error.reporter.manager:9.1.4 @ /media/Script/prog/IGB/plugins/org.lorainelab.igb.error.reporter.manager/pom.xml, MavenProject: org.lorainelab.igb:feedback:9.1.4 @ /media/Script/prog/IGB/plugins/feedback/pom.xml, MavenProject: org.lorainelab.igb:narrowpeak:9.1.4 @ /media/Script/prog/IGB/plugins/narrowpeak/pom.xml, MavenProject: org.lorainelab.igb:genotyping:9.1.4 @ /media/Script/prog/IGB/plugins/GenotypingResults/pom.xml, MavenProject: org.lorainelab.igb:bed:9.1.4 @ /media/Script/prog/IGB/plugins/bed/pom.xml, MavenProject: org.lorainelab.igb:bam:9.1.4 @ /media/Script/prog/IGB/plugins/bam/pom.xml, MavenProject: org.lorainelab.igb:bai:9.1.4 @ /media/Script/prog/IGB/plugins/bai/pom.xml, MavenProject: org.lorainelab.igb:appstore:9.1.4 @ /media/Script/prog/IGB/plugins/AppStore/pom.xml, MavenProject: org.lorainelab.igb:main:9.1.4 @ /media/Script/prog/IGB/main/pom.xml] [DEBUG] (f) session = org.apache.maven.execution.MavenSession@1c504e66 [DEBUG] (s) skip = false [DEBUG] -- end configuration -- [INFO] Installing /media/Script/prog/IGB/core/window-service/target/window-service-9.1.4.jar to /root/.m2/repository/org/lorainelab/igb/window-service/9.1.4/window-service-9.1.4.jar [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/window-service/9.1.4/_remote.repositories [INFO] Installing /media/Script/prog/IGB/core/window-service/pom.xml to /root/.m2/repository/org/lorainelab/igb/window-service/9.1.4/window-service-9.1.4.pom [DEBUG] Writing tracking file /root/.m2/repository/org/lorainelab/igb/window-service/9.1.4/_remote.repositories [DEBUG] Installing org.lorainelab.igb:window-service/maven-metadata.xml to /root/.m2/repository/org/lorainelab/igb/window-service/maven-metadata-local.xml [INFO] [INFO] --- maven-bundle-plugin:3.0.0:install (default-install) @ window-service --- [DEBUG] Configuring mojo org.apache.felix:maven-bundle-plugin:3.0.0:install from plugin realm ClassRealm[extension>org.apache.felix:maven-bundle-plugin:3.0.0, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.felix:maven-bundle-plugin:3.0.0:install' with basic configurator --> [DEBUG] (f) attachedArtifacts = [] [DEBUG] (f) localRepository = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] -- end configuration -- [DEBUG] (f) repositoryXml = file:/root/.m2/repository/repository.xml [DEBUG] (f) bundleJar = file:/root/.m2/repository/org/lorainelab/igb/window-service/9.1.4/window-service-9.1.4.jar [DEBUG] (f) sourceJar = null [DEBUG] (f) docJar = null [DEBUG] (f) obrXml = null [INFO] Installing org/lorainelab/igb/window-service/9.1.4/window-service-9.1.4.jar [INFO] Writing OBR metadata [INFO] [INFO] --- maven-dependency-plugin:2.9:copy (copy) @ window-service --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-dependency-plugin:2.9:copy from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-dependency-plugin:2.9, parent: sun.misc.Launcher$AppClassLoader@1b6d3586] [DEBUG] Configuring mojo 'org.apache.maven.plugins:maven-dependency-plugin:2.9:copy' with basic configurator --> [DEBUG] (s) groupId = org.lorainelab.igb [DEBUG] (s) artifactId = window-service [DEBUG] (s) version = 9.1.4 [DEBUG] (s) artifactItems = [org.lorainelab.igb:window-service:9.1.4:jar] [DEBUG] (s) local = id: local url: file:///root/.m2/repository/ layout: default snapshots: [enabled => true, update => always] releases: [enabled => true, update => always] [DEBUG] (f) outputAbsoluteArtifactFilename = false [DEBUG] (s) outputDirectory = /media/Script/prog/IGB/bundles [DEBUG] (s) overWriteIfNewer = true [DEBUG] (s) overWriteReleases = true [DEBUG] (s) overWriteSnapshots = true [DEBUG] (f) prependGroupId = false [DEBUG] (f) project = MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml [DEBUG] (f) reactorProjects = [MavenProject: org.lorainelab.igb:igb-project:9.1.4 @ /media/Script/prog/IGB/pom.xml, MavenProject: org.lorainelab.igb:heatmap-editor:9.1.4 @ /media/Script/prog/IGB/core/heatmap-editor/pom.xml, MavenProject: org.lorainelab.igb:affymetrix-common:9.1.4 @ /media/Script/prog/IGB/core/common/pom.xml, MavenProject: org.lorainelab.igb:external-sort:9.1.4 @ /media/Script/prog/IGB/plugins/external-sort/pom.xml, MavenProject: org.lorainelab.igb:cache-api:9.1.4 @ /media/Script/prog/IGB/plugins/cache-api/pom.xml, MavenProject: org.lorainelab.igb:synonym-lookup:9.1.4 @ /media/Script/prog/IGB/core/synonym-lookup/pom.xml, MavenProject: org.lorainelab.igb:genometry:9.1.4 @ /media/Script/prog/IGB/core/genometry/pom.xml, MavenProject: org.lorainelab.igb:igb-preferences:9.1.4 @ /media/Script/prog/IGB/core/igb-preferences/pom.xml, MavenProject: org.lorainelab.igb:igbSwingExt:9.1.4 @ /media/Script/prog/IGB/core/igb-swing-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-genoviz-extensions:9.1.4 @ /media/Script/prog/IGB/core/igb-genoviz-ext/pom.xml, MavenProject: org.lorainelab.igb:igb-services:9.1.4 @ /media/Script/prog/IGB/core/igb-services-api/pom.xml, MavenProject: org.lorainelab.igb:frameManager:9.1.4 @ /media/Script/prog/IGB/core/frameManager/pom.xml, MavenProject: org.lorainelab.igb:window-service:9.1.4 @ /media/Script/prog/IGB/core/window-service/pom.xml, MavenProject: org.lorainelab.igb:igb-javafx-util:9.1.4 @ /media/Script/prog/IGB/core/igb-javafx-util/pom.xml, MavenProject: org.lorainelab.igb:org.lorainelab.igb.menu.api:9.1.4 @ /media/Script/prog/IGB/core/menu-api/pom.xml, MavenProject: org.lorainelab.igb:context-menu-service:9.1.4 @ /media/Script/prog/IGB/core/context-menu-service/pom.xml, MavenProject: org.lorainelab.igb:igb:9.1.4 @ /media/Script/prog/IGB/core/igb/pom.xml, MavenProject: org.lorainelab.igb:shared-lib-wrapper:9.1.4 @ /media/Script/prog/IGB/core/shared-lib-wrapper/pom.xml, MavenProject: org.lorainelab.igb:logging-config:9.1.4 @ /media/Script/prog/IGB/core/logging-config/pom.xml, MavenProject: org.lorainelab.igb:weblinks:9.1.4 @ /media/Script/prog/IGB/core/weblinks/pom.xml, MavenProject: org.lorainelab.igb:cache:9.1.4 @ /media/Script/prog/IGB/plugins/cache/pom.xml, MavenProject: org.lorainelab.igb:quickload:9.1.4 @ /media/Script/prog/IGB/core/quickload/pom.xml, MavenProject: org.lorainelab.igb:das:9.1.4 @ /media/Script/prog/IGB/core/das/pom.xml, MavenProject: org.lorainelab.igb:das2:9.1.4 @ /media/Script/prog/IGB/core/das2/pom.xml, MavenProject: org.lorainelab.igb:apollo-library:9.1.4 @ /media/Script/prog/IGB/plugins/ApolloLibrary/pom.xml, MavenProject: org.lorainelab.igb:track-operations-panel:9.1.4 @ /media/Script/prog/IGB/plugins/track-operations-panel/pom.xml, MavenProject: org.lorainelab.igb:annotation-tab:9.1.4 @ /media/Script/prog/IGB/plugins/AnnotationTab/pom.xml, MavenProject: org.lorainelab.igb:console-tab:9.1.4 @ /media/Script/prog/IGB/plugins/ConsoleTab/pom.xml, MavenProject: org.lorainelab.igb:bigBedHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigBedHandler/pom.xml, MavenProject: org.lorainelab.igb:bigWigHandler:9.1.4 @ /media/Script/prog/IGB/plugins/BigWigHandler/pom.xml, MavenProject: org.lorainelab.igb:bookmark:9.1.4 @ /media/Script/prog/IGB/plugins/Bookmark/pom.xml, MavenProject: org.lorainelab.igb:externalView:9.1.4 @ /media/Script/prog/IGB/plugins/ExternalView/pom.xml, MavenProject: org.lorainelab.igb:graphTab:9.1.4 @ /media/Script/prog/IGB/plugins/GraphTab/pom.xml, MavenProject: org.lorainelab.igb:image-exporter:9.1.4 @ /media/Script/prog/IGB/plugins/image-exporter/pom.xml, MavenProject: org.lorainelab.igb:igbScript:9.1.4 @ /media/Script/prog/IGB/plugins/IGBScript/pom.xml, MavenProject: org.lorainelab.igb:keyWordSearch:9.1.4 @ /media/Script/prog/IGB/plugins/KeyWordSearch/pom.xml, MavenProject: org.lorainelab.igb:ncbiBlast:9.1.4 @ /media/Script/prog/IGB/plugins/NCBIBlast/pom.xml, MavenProject: org.lorainelab.igb:propertyView:9.1.4 @ /media/Script/prog/IGB/plugins/PropertyView/pom.xml, MavenProject: org.lorainelab.igb:restrictionSites:9.1.4 @ /media/Script/prog/IGB/plugins/RestrictionSites/pom.xml, MavenProject: org.lorainelab.igb:searchModelIdOrProps:9.1.4 @ /media/Script/prog/IGB/plugins/SearchModeIdOrProps/pom.xml, MavenProject: org.lorainelab.igb:searchView:9.1.4 @ /media/Script/prog/IGB/plugins/SearchView/pom.xml, MavenProject: org.lorainelab.igb:sequenceViewer:9.1.4 @ /media/Script/prog/IGB/plugins/SequenceViewer/pom.xml, MavenProject: org.lorainelab.igb:survey:9.1.4 @ /media/Script/prog/IGB/plugins/Survey/pom.xml, MavenProject: org.lorainelab.igb:thresholding:9.1.4 @ /media/Script/prog/IGB/plugins/Thresholding/pom.xml, MavenProject: org.lorainelab.igb:update:9.1.4 @ /media/Script/prog/IGB/plugins/Update/pom.xml, MavenProject: org.lorainelab.igb:plugins-man