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. SLF4J: Failed to load class "org.slf4j.impl.StaticLoggerBinder". SLF4J: Defaulting to no-operation (NOP) logger implementation SLF4J: See http://www.slf4j.org/codes.html#StaticLoggerBinder for further 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. SLF4J: Failed to load class "org.slf4j.impl.StaticLoggerBinder". SLF4J: Defaulting to no-operation (NOP) logger implementation SLF4J: See http://www.slf4j.org/codes.html#StaticLoggerBinder for further details. mars 06, 2020 6:01:01 PM com.affymetrix.genometry.parsers.graph.BarParser getSeqGroup AVERTISSEMENT: Did not find genomeVersion Test Group:Test Group. Adding it as new genomeVersion mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 14 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 1 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 3 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 4 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 3 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 26 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 20 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 1 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 1 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 10 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 9 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 36 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 2 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 1 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 1 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 2 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 15 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 27 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 0 mars 06, 2020 6:01:34 PM com.affymetrix.genometry.parsers.NibbleResiduesParser parse INFOS: Chromosome: chrQ : residues: 37 EBUG] Looking up lifecycle mappings for packaging pom from ClassRealm[plexus.core, parent: null] [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=4624375, ConflictMarker.markTime=2515411, ConflictMarker.nodeCount=194, ConflictIdSorter.graphTime=2334577, ConflictIdSorter.topsortTime=1226783, ConflictIdSorter.conflictIdCount=59, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=22184763, ConflictResolver.conflictItemCount=129, DefaultDependencyCollector.collectTime=910867030, DefaultDependencyCollector.transformTime=39146489} [DEBUG] org.apache.felix:maven-bundle-plugin:jar:3.0.0 [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:compile [DEBUG] biz.aQute.bnd:biz.aQute.bndlib:jar:3.0.0:compile [DEBUG] org.apache.felix:org.apache.felix.bundlerepository:jar:1.6.6:compile [DEBUG] org.easymock:easymock:jar:2.5.2:compile (version managed from default) [DEBUG] org.apache.felix:org.apache.felix.utils:jar:1.6.0:compile [DEBUG] org.osgi:org.osgi.compendium:jar:4.2.0:compile [DEBUG] org.apache.maven:maven-core:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-settings:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-plugin-parameter-documenter:jar:2.2.0: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:2.2.0:compile [DEBUG] org.apache.maven.doxia:doxia-logging-api:jar:1.1:compile [DEBUG] org.apache.maven:maven-profile:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-model:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-artifact:jar:2.2.0:compile [DEBUG] org.codehaus.plexus:plexus-container-default:jar:1.0-alpha-9-stable-1:compile [DEBUG] junit:junit:jar:4.11:compile (version managed from default) [DEBUG] org.hamcrest:hamcrest-core:jar:1.3:compile [DEBUG] org.apache.maven:maven-repository-metadata:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-error-diagnostics:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-project:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-plugin-registry:jar:2.2.0:compile [DEBUG] commons-cli:commons-cli:jar:1.2:compile [DEBUG] org.apache.maven:maven-plugin-api:jar:2.2.0:compile [DEBUG] org.apache.maven:maven-plugin-descriptor:jar:2.2.0:compile [DEBUG] org.codehaus.plexus:plexus-interactivity-api:jar:1.0-alpha-4:compile [DEBUG] org.apache.maven:maven-artifact-manager:jar:2.2.0:compile [DEBUG] backport-util-concurrent:backport-util-concurrent:jar:3.1:compile [DEBUG] org.apache.maven:maven-monitor:jar:2.2.0: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.maven:maven-archiver:jar:2.5:compile [DEBUG] org.codehaus.plexus:plexus-archiver:jar:2.1:compile [DEBUG] org.codehaus.plexus:plexus-io:jar:2.0.2:compile [DEBUG] org.codehaus.plexus:plexus-interpolation:jar:1.15:compile [DEBUG] org.apache.maven.shared:maven-dependency-tree:jar:2.1:compile [DEBUG] org.codehaus.plexus:plexus-component-annotations:jar:1.5.5:compile [DEBUG] org.eclipse.aether:aether-util:jar:0.9.0.M2:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0.10:compile [DEBUG] org.sonatype.plexus:plexus-build-api:jar:0.0.7:compile [DEBUG] org.apache.maven.doxia:doxia-sink-api:jar:1.0:compile [DEBUG] org.apache.maven.doxia:doxia-site-renderer:jar:1.0:compile [DEBUG] org.apache.maven.doxia:doxia-core:jar:1.0: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] commons-lang:commons-lang:jar:2.1:compile [DEBUG] oro:oro:jar:2.0.8:compile [DEBUG] org.apache.maven.doxia:doxia-decoration-model:jar:1.0:compile [DEBUG] commons-collections:commons-collections:jar:3.2:compile [DEBUG] org.apache.maven.doxia:doxia-module-apt:jar:1.0:compile [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} ${updateReleaseInfo} [DEBUG] ======================================================================= [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ igb-project --- [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=75501, ConflictMarker.markTime=129285, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=75753, ConflictIdSorter.topsortTime=16270, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=156299, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=3234783, DefaultDependencyCollector.transformTime=486112} [DEBUG] org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] org.apache.maven:maven-plugin-api:jar:2.0.6:compile [DEBUG] org.codehaus.plexus:plexus-utils:jar:3.0:compile [DEBUG] Created new class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Imported: < maven.api [DEBUG] Populating class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5 [DEBUG] Included: org.apache.maven.plugins:maven-clean-plugin:jar:2.5 [DEBUG] Included: org.codehaus.plexus:plexus-utils:jar:3.0 [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5, parent: sun.misc.Launcher$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/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=373939, ConflictMarker.markTime=132305, ConflictMarker.nodeCount=38, ConflictIdSorter.graphTime=145325, ConflictIdSorter.topsortTime=58539, ConflictIdSorter.conflictIdCount=15, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1248540, ConflictResolver.conflictItemCount=35, DefaultDependencyCollector.collectTime=27193341, DefaultDependencyCollector.transformTime=2080986} [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=80331, ConflictMarker.markTime=38731, ConflictMarker.nodeCount=4, ConflictIdSorter.graphTime=8448, ConflictIdSorter.topsortTime=14037, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=416884, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=10849289, DefaultDependencyCollector.transformTime=642204} [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=108997, ConflictMarker.markTime=42798, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=9979, ConflictIdSorter.topsortTime=11236, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=108381, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=3365069, DefaultDependencyCollector.transformTime=302148} [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--65999837 [DEBUG] Importing foreign packages into class realm plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--65999837 [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--65999837 [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--65999837, 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=447388, ConflictMarker.markTime=99804, ConflictMarker.nodeCount=68, ConflictIdSorter.graphTime=112062, ConflictIdSorter.topsortTime=42521, ConflictIdSorter.conflictIdCount=28, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1424061, ConflictResolver.conflictItemCount=67, DefaultDependencyCollector.collectTime=91555116, DefaultDependencyCollector.transformTime=2191638} [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/, 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 -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 -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=2020-03-06T17:00:14Z, 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=385223, ConflictMarker.markTime=181969, ConflictMarker.nodeCount=162, ConflictIdSorter.graphTime=159404, ConflictIdSorter.topsortTime=75441, ConflictIdSorter.conflictIdCount=55, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=2521996, ConflictResolver.conflictItemCount=89, DefaultDependencyCollector.collectTime=82549580, DefaultDependencyCollector.transformTime=3378191} [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/, 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 -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 -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=2020-03-06T17:00:17Z, 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=220815, ConflictMarker.markTime=152167, ConflictMarker.nodeCount=114, ConflictIdSorter.graphTime=169792, ConflictIdSorter.topsortTime=49359, ConflictIdSorter.conflictIdCount=34, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1429626, ConflictResolver.conflictItemCount=80, DefaultDependencyCollector.collectTime=31123534, DefaultDependencyCollector.transformTime=2068953} [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 = false [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] [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=46552, ConflictMarker.markTime=28825, ConflictMarker.nodeCount=4, ConflictIdSorter.graphTime=6602, ConflictIdSorter.topsortTime=14212, ConflictIdSorter.conflictIdCount=3, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=208733, ConflictResolver.conflictItemCount=3, DefaultDependencyCollector.collectTime=1411104, DefaultDependencyCollector.transformTime=337255} [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 18:00:17 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/ 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 -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 -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@752494dd 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@752494dd 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@752494dd 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: 1583514018725 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: 1583514018725 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=306319, ConflictMarker.markTime=209208, ConflictMarker.nodeCount=70, ConflictIdSorter.graphTime=144324, ConflictIdSorter.topsortTime=98707, ConflictIdSorter.conflictIdCount=29, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=2910830, ConflictResolver.conflictItemCount=69, DefaultDependencyCollector.collectTime=61586912, DefaultDependencyCollector.transformTime=3779505} [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=838242, ConflictMarker.markTime=567754, ConflictMarker.nodeCount=340, ConflictIdSorter.graphTime=418610, ConflictIdSorter.topsortTime=293336, ConflictIdSorter.conflictIdCount=83, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=8823181, ConflictResolver.conflictItemCount=200, DefaultDependencyCollector.collectTime=297452939, DefaultDependencyCollector.transformTime=11139328} [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} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=30785, ConflictMarker.markTime=34256, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=10791, ConflictIdSorter.topsortTime=27017, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=328778, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=10955055, DefaultDependencyCollector.transformTime=538913} [DEBUG] org.lorainelab.igb:affymetrix-common:bundle:9.1.4 [DEBUG] org.freedesktop.tango:tango-icon-theme:jar:0.8.90:runtime [DEBUG] org.apache.felix:org.apache.felix.main:jar:5.2.0:provided [DEBUG] org.apache.felix:org.apache.felix.framework:jar:5.2.0:provided [DEBUG] javax.jlfgr:jlfgr:jar:1.0:runtime [DEBUG] com.affymetrix:genoviz:jar:1.1.8:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:compile [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ affymetrix-common --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--65999837, parent: sun.misc.Launcher$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 /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$PrefAndPropChangeListener.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$6.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$5.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$4.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$3.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$2.class [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common/PreferenceUtils$1.class [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/com/affymetrix/common [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/com/affymetrix [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/com [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/welcome.html [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/wright.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/wleft.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/right_selected.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/right_more_selected.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/picture_credits.txt [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/left_selected.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/left_more_selected.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/igb_splash.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/igb_small.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/igb_small.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/igb.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/igb.gif [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/hourglass.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/default.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/Z_mays_B73.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/X_tropicalis.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/V_vinifera.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/V_corymbosum.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/V_carteri.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/T_rubripes.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/S_tuberosum_DM.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/S_pombe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/S_lycopersicum.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/S_cerevisiae.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/S_bicolor.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/R_norvegicus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/R_communis.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/P_troglodytes.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/P_trichocarpa.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/P_persica.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/P_patens.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/O_sativa_japonica.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/O_aries.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/M_truncatula.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/M_musculus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/M_domestica.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/L_africana.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/H_sapiens.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/G_max.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/G_gallus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/F_catus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/E_coli_K12-MG1655.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/E_caballus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/D_rerio.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/D_melanogaster.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/D_discoideum_Ax4.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/C_reinhardtii.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/C_porcellus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/C_papaya.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/C_elegans.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/C_albicans_SC5314.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/B_taurus.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/B_distachyon.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/A_thaliana.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/A_mellifera.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/A_melanoleuca.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/A_lyrata.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/images/A_gambiae.png [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/images [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/display_species.txt [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/common.properties [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/NOTICES.txt [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/32x32/actions/colorschemechooser.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/32x32/actions/camera_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/32x32/actions/appmanager.png [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/32x32/actions [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/32x32 [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/unlock_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/uncolor_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/un-Float.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/summary.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandstogether.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandseparate.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandscoloredsame.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/strandscoloreddifferently.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/speech-bubble.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_visual_tools.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/show.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/set_summary_threshhold.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save_session.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/save.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/run_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/resize_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/report_bug.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/remove_data.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/refresh.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/print_whole_frame.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/print.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_updated.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_styles.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences_configure(tracks tab).png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/preferences.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pref_import.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pref_export.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/pointed.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/optimize_stack_depth.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/optimize_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/no_color_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/no_arrows.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/new_genome.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/max_stack_depth.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/lock_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/load_session.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/label_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home_updated.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/home.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide_visual_tools.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/hide.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/help.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/gear_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/font_size.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/fit_to_window.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/fa-circle.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/export_image.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/expand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/equalizer.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/documentation.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/detail.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/delete_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/delete_bookmark.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/copy_sequence.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/console.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/configure_autoscroll.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/colorschemechooser.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/color_by_strand.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/collapse.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/clear_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/center_on_zoom_stripe.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/cancel_script.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/camera_toolbar.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/blunt.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoscroll_stop.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoscroll.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/autoload.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/arrows.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/applications-graphics-5.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/anchor.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/about_igb.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Shrinkwrap.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Set_Autoload_threshhold.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Sequence_Viewer_export.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Sequence_Viewer.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Select_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Repack_all.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Repack.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_shortcuts.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_plug-ins.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_other_options.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Preferences_data_sources(configure).png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Load_sequence_in_view.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Genome_Viewer_reads.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Float.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/FG_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Customize.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/Clamp_to_view.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/BG_color.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/2_track.png [INFO] Deleting file /media/Script/prog/IGB/core/common/target/classes/22x22/actions/1_track.png [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/22x22/actions [INFO] Deleting directory /media/Script/prog/IGB/core/common/target/classes/22x22 [INFO] Deleting file /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/, 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 -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 -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=2020-03-06T17:00:21Z, 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/, 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 -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 -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=2020-03-06T17:00:25Z, 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 = false [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] No tests to run. [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=29478, ConflictMarker.markTime=28842, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=11569, ConflictIdSorter.topsortTime=17059, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=144959, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=1721920, DefaultDependencyCollector.transformTime=267549} [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 18:00:25 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/ 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 -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 -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 plug-ins.png\=src/main/resources/16x16/actions/Preferences plug-ins.png},{16x16/actions/Preferences shortcuts.png\=src/main/resources/16x16/actions/Preferences shortcuts.png},{16x16/actions/Preferences_data_sources(configure).png\=src/main/resources/16x16/actions/Preferences_data_sources(configure).png},{16x16/actions/Preferences_other_options.png\=src/main/resources/16x16/actions/Preferences_other_options.png},{16x16/actions/Repack.png\=src/main/resources/16x16/actions/Repack.png},{16x16/actions/Repack_all.png\=src/main/resources/16x16/actions/Repack_all.png},{16x16/actions/Select_all.png\=src/main/resources/16x16/actions/Select_all.png},{16x16/actions/Sequence_Viewer.png\=src/main/resources/16x16/actions/Sequence_Viewer.png},{16x16/actions/Sequence_Viewer_export.png\=src/main/resources/16x16/actions/Sequence_Viewer_export.png},{16x16/actions/Set_Autoload_threshhold.png\=src/main/resources/16x16/actions/Set_Autoload_threshhold.png},{16x16/actions/Shrinkwrap.png\=src/main/resources/16x16/actions/Shrinkwrap.png},{16x16/actions/about_igb.png\=src/main/resources/16x16/actions/about_igb.png},{16x16/actions/anchor.png\=src/main/resources/16x16/actions/anchor.png},{16x16/actions/applications-graphics-5.png\=src/main/resources/16x16/actions/applications-graphics-5.png},{16x16/actions/arrow.png\=src/main/resources/16x16/actions/arrow.png},{16x16/actions/arrows.png\=src/main/resources/16x16/actions/arrows.png},{16x16/actions/autoload.png\=src/main/resources/16x16/actions/autoload.png},{16x16/actions/autoscroll.png\=src/main/resources/16x16/actions/autoscroll.png},{16x16/actions/autoscroll_stop.png\=src/main/resources/16x16/actions/autoscroll_stop.png},{16x16/actions/black_pin.png\=src/main/resources/16x16/actions/black_pin.png},{16x16/actions/blank_placeholder.png\=src/main/resources/16x16/actions/blank_placeholder.png},{16x16/actions/blunt.png\=src/main/resources/16x16/actions/blunt.png},{16x16/actions/camera.png\=src/main/resources/16x16/actions/camera.png},{16x16/actions/camera_toolbar.png\=src/main/resources/16x16/actions/camera_toolbar.png},{16x16/actions/cancel_script.png\=src/main/resources/16x16/actions/cancel_script.png},{16x16/actions/center_on_zoom_stripe.png\=src/main/resources/16x16/actions/center_on_zoom_stripe.png},{16x16/actions/clear_script.png\=src/main/resources/16x16/actions/clear_script.png},{16x16/actions/collapse.png\=src/main/resources/16x16/actions/collapse.png},{16x16/actions/color_by_strand.png\=src/main/resources/16x16/actions/color_by_strand.png},{16x16/actions/colorschemechooser.png\=src/main/resources/16x16/actions/colorschemechooser.png},{16x16/actions/configure_autoscroll.png\=src/main/resources/16x16/actions/configure_autoscroll.png},{16x16/actions/console.png\=src/main/resources/16x16/actions/console.png},{16x16/actions/copy.png\=src/main/resources/16x16/actions/copy.png},{16x16/actions/copy_sequence.png\=src/main/resources/16x16/actions/copy_sequence.png},{16x16/actions/cross.png\=src/main/resources/16x16/actions/cross.png},{16x16/actions/delete.gif\=src/main/resources/16x16/actions/delete.gif},{16x16/actions/delete.png\=src/main/resources/16x16/actions/delete.png},{16x16/actions/delete_bookmark.png\=src/main/resources/16x16/actions/delete_bookmark.png},{16x16/actions/delete_track.png\=src/main/resources/16x16/actions/delete_track.png},{16x16/actions/dna.gif\=src/main/resources/16x16/actions/dna.gif},{16x16/actions/documentation.png\=src/main/resources/16x16/actions/documentation.png},{16x16/actions/down.png\=src/main/resources/16x16/actions/down.png},{16x16/actions/equalizer.png\=src/main/resources/16x16/actions/equalizer.png},{16x16/actions/expand.png\=src/main/resources/16x16/actions/expand.png},{16x16/actions/export_image.png\=src/main/resources/16x16/actions/export_image.png},{16x16/actions/fa-circle.png\=src/main/resources/16x16/actions/fa-circle.png},{16x16/actions/fit_to_window.png\=src/main/resources/16x16/actions/fit_to_window.png},{16x16/actions/font_size.png\=src/main/resources/16x16/actions/font_size.png},{16x16/actions/gear_toolbar.png\=src/main/resources/16x16/actions/gear_toolbar.png},{16x16/actions/google.png\=src/main/resources/16x16/actions/google.png},{16x16/actions/help.png\=src/main/resources/16x16/actions/help.png},{16x16/actions/hide.png\=src/main/resources/16x16/actions/hide.png},{16x16/actions/hide_visual_tools.png\=src/main/resources/16x16/actions/hide_visual_tools.png},{16x16/actions/hide_zoom_stripe.png\=src/main/resources/16x16/actions/hide_zoom_stripe.png},{16x16/actions/home.png\=src/main/resources/16x16/actions/home.png},{16x16/actions/home_toolbar.png\=src/main/resources/16x16/actions/home_toolbar.png},{16x16/actions/home_updated.png\=src/main/resources/16x16/actions/home_updated.png},{16x16/actions/info.png\=src/main/resources/16x16/actions/info.png},{16x16/actions/label_color.png\=src/main/resources/16x16/actions/label_color.png},{16x16/actions/left.png\=src/main/resources/16x16/actions/left.png},{16x16/actions/load_session.png\=src/main/resources/16x16/actions/load_session.png},{16x16/actions/lock.png\=src/main/resources/16x16/actions/lock.png},{16x16/actions/lock_track.png\=src/main/resources/16x16/actions/lock_track.png},{16x16/actions/max_stack_depth.png\=src/main/resources/16x16/actions/max_stack_depth.png},{16x16/actions/ncbi.png\=src/main/resources/16x16/actions/ncbi.png},{16x16/actions/new_genome.png\=src/main/resources/16x16/actions/new_genome.png},{16x16/actions/no_arrows.png\=src/main/resources/16x16/actions/no_arrows.png},{16x16/actions/no_color_by_strand.png\=src/main/resources/16x16/actions/no_color_by_strand.png},{16x16/actions/open_hand.png\=src/main/resources/16x16/actions/open_hand.png},{16x16/actions/optimize_all.png\=src/main/resources/16x16/actions/optimize_all.png},{16x16/actions/optimize_stack_depth.png\=src/main/resources/16x16/actions/optimize_stack_depth.png},{16x16/actions/pointed.png\=src/main/resources/16x16/actions/pointed.png},{16x16/actions/pref_export.png\=src/main/resources/16x16/actions/pref_export.png},{16x16/actions/pref_import.png\=src/main/resources/16x16/actions/pref_import.png},{16x16/actions/preferences.png\=src/main/resources/16x16/actions/preferences.png},{16x16/actions/preferences_styles.png\=src/main/resources/16x16/actions/preferences_styles.png},{16x16/actions/preferences_updated.png\=src/main/resources/16x16/actions/preferences_updated.png},{16x16/actions/print.png\=src/main/resources/16x16/actions/print.png},{16x16/actions/print_whole_frame.png\=src/main/resources/16x16/actions/print_whole_frame.png},{16x16/actions/red_close.png\=src/main/resources/16x16/actions/red_close.png},{16x16/actions/red_pin.png\=src/main/resources/16x16/actions/red_pin.png},{16x16/actions/refresh.png\=src/main/resources/16x16/actions/refresh.png},{16x16/actions/remove_data.png\=src/main/resources/16x16/actions/remove_data.png},{16x16/actions/report_bug.png\=src/main/resources/16x16/actions/report_bug.png},{16x16/actions/resize_track.png\=src/main/resources/16x16/actions/resize_track.png},{16x16/actions/right.png\=src/main/resources/16x16/actions/right.png},{16x16/actions/run_script.png\=src/main/resources/16x16/actions/run_script.png},{16x16/actions/save.png\=src/main/resources/16x16/actions/save.png},{16x16/actions/save_script.png\=src/main/resources/16x16/actions/save_script.png},{16x16/actions/save_session.png\=src/main/resources/16x16/actions/save_session.png},{16x16/actions/search.png\=src/main/resources/16x16/actions/search.png},{16x16/actions/searchweb.png\=src/main/resources/16x16/actions/searchweb.png},{16x16/actions/set_summary_threshhold.png\=src/main/resources/16x16/actions/set_summary_threshhold.png},{16x16/actions/show.png\=src/main/resources/16x16/actions/show.png},{16x16/actions/show_all.png\=src/main/resources/16x16/actions/show_all.png},{16x16/actions/show_visual_tools.png\=src/main/resources/16x16/actions/show_visual_tools.png},{16x16/actions/show_zoom_stripe.png\=src/main/resources/16x16/actions/show_zoom_stripe.png},{16x16/actions/speech-bubble.png\=src/main/resources/16x16/actions/speech-bubble.png},{16x16/actions/stock_pin.png\=src/main/resources/16x16/actions/stock_pin.png},{16x16/actions/stop.png\=src/main/resources/16x16/actions/stop.png},{16x16/actions/stop_hex.gif\=src/main/resources/16x16/actions/stop_hex.gif},{16x16/actions/strandscoloreddifferently.png\=src/main/resources/16x16/actions/strandscoloreddifferently.png},{16x16/actions/strandscoloredsame.png\=src/main/resources/16x16/actions/strandscoloredsame.png},{16x16/actions/strandseparate.png\=src/main/resources/16x16/actions/strandseparate.png},{16x16/actions/strandstogether.png\=src/main/resources/16x16/actions/strandstogether.png},{16x16/actions/summary.png\=src/main/resources/16x16/actions/summary.png},{16x16/actions/tair.png\=src/main/resources/16x16/actions/tair.png},{16x16/actions/un-Float.png\=src/main/resources/16x16/actions/un-Float.png},{16x16/actions/un_lock.png\=src/main/resources/16x16/actions/un_lock.png},{16x16/actions/uncolor_by_strand.png\=src/main/resources/16x16/actions/uncolor_by_strand.png},{16x16/actions/unlock_track.png\=src/main/resources/16x16/actions/unlock_track.png},{16x16/actions/up.png\=src/main/resources/16x16/actions/up.png},{16x16/actions/warning.png\=src/main/resources/16x16/actions/warning.png},{16x16/actions/yellow_pin.png\=src/main/resources/16x16/actions/yellow_pin.png},{16x16/igb/info_icon.gif\=src/main/resources/16x16/igb/info_icon.gif},{22x22/actions/1_track.png\=src/main/resources/22x22/actions/1_track.png},{22x22/actions/2_track.png\=src/main/resources/22x22/actions/2_track.png},{22x22/actions/BG_color.png\=src/main/resources/22x22/actions/BG_color.png},{22x22/actions/Clamp_to_view.png\=src/main/resources/22x22/actions/Clamp_to_view.png},{22x22/actions/Customize.png\=src/main/resources/22x22/actions/Customize.png},{22x22/actions/FG_color.png\=src/main/resources/22x22/actions/FG_color.png},{22x22/actions/Float.png\=src/main/resources/22x22/actions/Float.png},{22x22/actions/Genome_Viewer_reads.png\=src/main/resources/22x22/actions/Genome_Viewer_reads.png},{22x22/actions/Load_sequence_in_view.png\=src/main/resources/22x22/actions/Load_sequence_in_view.png},{22x22/actions/Preferences_data_sources(configure).png\=src/main/resources/22x22/actions/Preferences_data_sources(configure).png},{22x22/actions/Preferences_other_options.png\=src/main/resources/22x22/actions/Preferences_other_options.png},{22x22/actions/Preferences_plug-ins.png\=src/main/resources/22x22/actions/Preferences_plug-ins.png},{22x22/actions/Preferences_shortcuts.png\=src/main/resources/22x22/actions/Preferences_shortcuts.png},{22x22/actions/Repack.png\=src/main/resources/22x22/actions/Repack.png},{22x22/actions/Repack_all.png\=src/main/resources/22x22/actions/Repack_all.png},{22x22/actions/Select_all.png\=src/main/resources/22x22/actions/Select_all.png},{22x22/actions/Sequence_Viewer.png\=src/main/resources/22x22/actions/Sequence_Viewer.png},{22x22/actions/Sequence_Viewer_export.png\=src/main/resources/22x22/actions/Sequence_Viewer_export.png},{22x22/actions/Set_Autoload_threshhold.png\=src/main/resources/22x22/actions/Set_Autoload_threshhold.png},{22x22/actions/Shrinkwrap.png\=src/main/resources/22x22/actions/Shrinkwrap.png},{22x22/actions/about_igb.png\=src/main/resources/22x22/actions/about_igb.png},{22x22/actions/anchor.png\=src/main/resources/22x22/actions/anchor.png},{22x22/actions/applications-graphics-5.png\=src/main/resources/22x22/actions/applications-graphics-5.png},{22x22/actions/arrows.png\=src/main/resources/22x22/actions/arrows.png},{22x22/actions/autoload.png\=src/main/resources/22x22/actions/autoload.png},{22x22/actions/autoscroll.png\=src/main/resources/22x22/actions/autoscroll.png},{22x22/actions/autoscroll_stop.png\=src/main/resources/22x22/actions/autoscroll_stop.png},{22x22/actions/blunt.png\=src/main/resources/22x22/actions/blunt.png},{22x22/actions/camera_toolbar.png\=src/main/resources/22x22/actions/camera_toolbar.png},{22x22/actions/cancel_script.png\=src/main/resources/22x22/actions/cancel_script.png},{22x22/actions/center_on_zoom_stripe.png\=src/main/resources/22x22/actions/center_on_zoom_stripe.png},{22x22/actions/clear_script.png\=src/main/resources/22x22/actions/clear_script.png},{22x22/actions/collapse.png\=src/main/resources/22x22/actions/collapse.png},{22x22/actions/color_by_strand.png\=src/main/resources/22x22/actions/color_by_strand.png},{22x22/actions/colorschemechooser.png\=src/main/resources/22x22/actions/colorschemechooser.png},{22x22/actions/configure_autoscroll.png\=src/main/resources/22x22/actions/configure_autoscroll.png},{22x22/actions/console.png\=src/main/resources/22x22/actions/console.png},{22x22/actions/copy_sequence.png\=src/main/resources/22x22/actions/copy_sequence.png},{22x22/actions/delete_bookmark.png\=src/main/resources/22x22/actions/delete_bookmark.png},{22x22/actions/delete_track.png\=src/main/resources/22x22/actions/delete_track.png},{22x22/actions/detail.png\=src/main/resources/22x22/actions/detail.png},{22x22/actions/documentation.png\=src/main/resources/22x22/actions/documentation.png},{22x22/actions/equalizer.png\=src/main/resources/22x22/actions/equalizer.png},{22x22/actions/expand.png\=src/main/resources/22x22/actions/expand.png},{22x22/actions/export_image.png\=src/main/resources/22x22/actions/export_image.png},{22x22/actions/fa-circle.png\=src/main/resources/22x22/actions/fa-circle.png},{22x22/actions/fit_to_window.png\=src/main/resources/22x22/actions/fit_to_window.png},{22x22/actions/font_size.png\=src/main/resources/22x22/actions/font_size.png},{22x22/actions/gear_toolbar.png\=src/main/resources/22x22/actions/gear_toolbar.png},{22x22/actions/help.png\=src/main/resources/22x22/actions/help.png},{22x22/actions/hide.png\=src/main/resources/22x22/actions/hide.png},{22x22/actions/hide_visual_tools.png\=src/main/resources/22x22/actions/hide_visual_tools.png},{22x22/actions/hide_zoom_stripe.png\=src/main/resources/22x22/actions/hide_zoom_stripe.png},{22x22/actions/home.png\=src/main/resources/22x22/actions/home.png},{22x22/actions/home_toolbar.png\=src/main/resources/22x22/actions/home_toolbar.png},{22x22/actions/home_updated.png\=src/main/resources/22x22/actions/home_updated.png},{22x22/actions/label_color.png\=src/main/resources/22x22/actions/label_color.png},{22x22/actions/load_session.png\=src/main/resources/22x22/actions/load_session.png},{22x22/actions/lock_track.png\=src/main/resources/22x22/actions/lock_track.png},{22x22/actions/max_stack_depth.png\=src/main/resources/22x22/actions/max_stack_depth.png},{22x22/actions/new_genome.png\=src/main/resources/22x22/actions/new_genome.png},{22x22/actions/no_arrows.png\=src/main/resources/22x22/actions/no_arrows.png},{22x22/actions/no_color_by_strand.png\=src/main/resources/22x22/actions/no_color_by_strand.png},{22x22/actions/optimize_all.png\=src/main/resources/22x22/actions/optimize_all.png},{22x22/actions/optimize_stack_depth.png\=src/main/resources/22x22/actions/optimize_stack_depth.png},{22x22/actions/pointed.png\=src/main/resources/22x22/actions/pointed.png},{22x22/actions/pref_export.png\=src/main/resources/22x22/actions/pref_export.png},{22x22/actions/pref_import.png\=src/main/resources/22x22/actions/pref_import.png},{22x22/actions/preferences.png\=src/main/resources/22x22/actions/preferences.png},{22x22/actions/preferences_configure(tracks tab).png\=src/main/resources/22x22/actions/preferences_configure(tracks tab).png},{22x22/actions/preferences_styles.png\=src/main/resources/22x22/actions/preferences_styles.png},{22x22/actions/preferences_updated.png\=src/main/resources/22x22/actions/preferences_updated.png},{22x22/actions/print.png\=src/main/resources/22x22/actions/print.png},{22x22/actions/print_whole_frame.png\=src/main/resources/22x22/actions/print_whole_frame.png},{22x22/actions/refresh.png\=src/main/resources/22x22/actions/refresh.png},{22x22/actions/remove_data.png\=src/main/resources/22x22/actions/remove_data.png},{22x22/actions/report_bug.png\=src/main/resources/22x22/actions/report_bug.png},{22x22/actions/resize_track.png\=src/main/resources/22x22/actions/resize_track.png},{22x22/actions/run_script.png\=src/main/resources/22x22/actions/run_script.png},{22x22/actions/save.png\=src/main/resources/22x22/actions/save.png},{22x22/actions/save_script.png\=src/main/resources/22x22/actions/save_script.png},{22x22/actions/save_session.png\=src/main/resources/22x22/actions/save_session.png},{22x22/actions/set_summary_threshhold.png\=src/main/resources/22x22/actions/set_summary_threshhold.png},{22x22/actions/show.png\=src/main/resources/22x22/actions/show.png},{22x22/actions/show_all.png\=src/main/resources/22x22/actions/show_all.png},{22x22/actions/show_visual_tools.png\=src/main/resources/22x22/actions/show_visual_tools.png},{22x22/actions/show_zoom_stripe.png\=src/main/resources/22x22/actions/show_zoom_stripe.png},{22x22/actions/speech-bubble.png\=src/main/resources/22x22/actions/speech-bubble.png},{22x22/actions/strandscoloreddifferently.png\=src/main/resources/22x22/actions/strandscoloreddifferently.png},{22x22/actions/strandscoloredsame.png\=src/main/resources/22x22/actions/strandscoloredsame.png},{22x22/actions/strandseparate.png\=src/main/resources/22x22/actions/strandseparate.png},{22x22/actions/strandstogether.png\=src/main/resources/22x22/actions/strandstogether.png},{22x22/actions/summary.png\=src/main/resources/22x22/actions/summary.png},{22x22/actions/un-Float.png\=src/main/resources/22x22/actions/un-Float.png},{22x22/actions/uncolor_by_strand.png\=src/main/resources/22x22/actions/uncolor_by_strand.png},{22x22/actions/unlock_track.png\=src/main/resources/22x22/actions/unlock_track.png},{32x32/actions/appmanager.png\=src/main/resources/32x32/actions/appmanager.png},{32x32/actions/camera_toolbar.png\=src/main/resources/32x32/actions/camera_toolbar.png},{32x32/actions/colorschemechooser.png\=src/main/resources/32x32/actions/colorschemechooser.png},{NOTICES.txt\=src/main/resources/NOTICES.txt},{common.properties\=src/main/resources/common.properties},{display_species.txt\=src/main/resources/display_species.txt},{images/A_gambiae.png\=src/main/resources/images/A_gambiae.png},{images/A_lyrata.png\=src/main/resources/images/A_lyrata.png},{images/A_melanoleuca.png\=src/main/resources/images/A_melanoleuca.png},{images/A_mellifera.png\=src/main/resources/images/A_mellifera.png},{images/A_thaliana.png\=src/main/resources/images/A_thaliana.png},{images/B_distachyon.png\=src/main/resources/images/B_distachyon.png},{images/B_taurus.png\=src/main/resources/images/B_taurus.png},{images/C_albicans_SC5314.png\=src/main/resources/images/C_albicans_SC5314.png},{images/C_elegans.png\=src/main/resources/images/C_elegans.png},{images/C_papaya.png\=src/main/resources/images/C_papaya.png},{images/C_porcellus.png\=src/main/resources/images/C_porcellus.png},{images/C_reinhardtii.png\=src/main/resources/images/C_reinhardtii.png},{images/D_discoideum_Ax4.png\=src/main/resources/images/D_discoideum_Ax4.png},{images/D_melanogaster.png\=src/main/resources/images/D_melanogaster.png},{images/D_rerio.png\=src/main/resources/images/D_rerio.png},{images/E_caballus.png\=src/main/resources/images/E_caballus.png},{images/E_coli_K12-MG1655.png\=src/main/resources/images/E_coli_K12-MG1655.png},{images/F_catus.png\=src/main/resources/images/F_catus.png},{images/G_gallus.png\=src/main/resources/images/G_gallus.png},{images/G_max.png\=src/main/resources/images/G_max.png},{images/H_sapiens.png\=src/main/resources/images/H_sapiens.png},{images/L_africana.png\=src/main/resources/images/L_africana.png},{images/M_domestica.png\=src/main/resources/images/M_domestica.png},{images/M_musculus.png\=src/main/resources/images/M_musculus.png},{images/M_truncatula.png\=src/main/resources/images/M_truncatula.png},{images/O_aries.png\=src/main/resources/images/O_aries.png},{images/O_sativa_japonica.png\=src/main/resources/images/O_sativa_japonica.png},{images/P_patens.png\=src/main/resources/images/P_patens.png},{images/P_persica.png\=src/main/resources/images/P_persica.png},{images/P_trichocarpa.png\=src/main/resources/images/P_trichocarpa.png},{images/P_troglodytes.png\=src/main/resources/images/P_troglodytes.png},{images/R_communis.png\=src/main/resources/images/R_communis.png},{images/R_norvegicus.png\=src/main/resources/images/R_norvegicus.png},{images/S_bicolor.png\=src/main/resources/images/S_bicolor.png},{images/S_cerevisiae.png\=src/main/resources/images/S_cerevisiae.png},{images/S_lycopersicum.png\=src/main/resources/images/S_lycopersicum.png},{images/S_pombe.png\=src/main/resources/images/S_pombe.png},{images/S_tuberosum_DM.png\=src/main/resources/images/S_tuberosum_DM.png},{images/T_rubripes.png\=src/main/resources/images/T_rubripes.png},{images/V_carteri.png\=src/main/resources/images/V_carteri.png},{images/V_corymbosum.png\=src/main/resources/images/V_corymbosum.png},{images/V_vinifera.png\=src/main/resources/images/V_vinifera.png},{images/X_tropicalis.png\=src/main/resources/images/X_tropicalis.png},{images/Z_mays_B73.png\=src/main/resources/images/Z_mays_B73.png},{images/default.png\=src/main/resources/images/default.png},{images/hourglass.png\=src/main/resources/images/hourglass.png},{images/igb.gif\=src/main/resources/images/igb.gif},{images/igb.png\=src/main/resources/images/igb.png},{images/igb_small.gif\=src/main/resources/images/igb_small.gif},{images/igb_small.png\=src/main/resources/images/igb_small.png},{images/igb_splash.gif\=src/main/resources/images/igb_splash.gif},{images/left_more_selected.png\=src/main/resources/images/left_more_selected.png},{images/left_selected.png\=src/main/resources/images/left_selected.png},{images/picture_credits.txt\=src/main/resources/images/picture_credits.txt},{images/right_more_selected.png\=src/main/resources/images/right_more_selected.png},{images/right_selected.png\=src/main/resources/images/right_selected.png},{images/wleft.png\=src/main/resources/images/wleft.png},{images/wright.png\=src/main/resources/images/wright.png},{welcome.html\=src/main/resources/welcome.html} 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@45689582 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@45689582 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 env.USER=root pom.developers=[] project.build=org.apache.maven.model.Build@45689582 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/core/common project.build.name=Core - Affymetrix Common 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 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: 1583514030764 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: 1583514030764 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} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=75863, ConflictMarker.markTime=93282, ConflictMarker.nodeCount=19, ConflictIdSorter.graphTime=29807, ConflictIdSorter.topsortTime=37784, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=522403, ConflictResolver.conflictItemCount=18, DefaultDependencyCollector.collectTime=32956282, DefaultDependencyCollector.transformTime=834487} [DEBUG] org.lorainelab.igb:external-sort:bundle:9.1.4 [DEBUG] ch.qos.logback:logback-core:jar:1.1.2:test [DEBUG] ch.qos.logback:logback-classic:jar:1.1.2:test [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] junit:junit:jar:4.8.2:test [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] org.osgi:org.osgi.compendium:jar:5.0.0:provided [DEBUG] org.apache.commons:commons-compress:jar:1.5:provided [DEBUG] org.tukaani:xz:jar:1.5:provided (scope managed from compile) (version managed from 1.2) [DEBUG] htsjdk-igb:htsjdk-igb:jar:2.16.3:provided [DEBUG] commons-logging:commons-logging:jar:1.2:provided (scope managed from compile) (version managed from 1.2) [DEBUG] org.apache.commons:commons-jexl:jar:2.1.1:provided (scope managed from compile) (version managed from 2.1.1) [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ external-sort --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--65999837, parent: sun.misc.Launcher$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 file /media/Script/prog/IGB/plugins/external-sort/target/surefire-reports/TEST-org.lorainelab.igb.externalsort.ExternalSortTest.xml [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/surefire-reports/org.lorainelab.igb.externalsort.ExternalSortTest.txt [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/surefire-reports [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefirebooter6853982736432531053.jar [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefire_02258670559715601734tmp [INFO] Deleting file /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefire1829663584289581510tmp [INFO] Deleting directory /media/Script/prog/IGB/plugins/external-sort/target/surefire [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/, 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 -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 -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=2020-03-06T17:00:34Z, 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/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/, 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 -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 -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=2020-03-06T17:00:35Z, 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/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 = false [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 -- [DEBUG] Surefire report directory: /media/Script/prog/IGB/plugins/external-sort/target/surefire-reports [DEBUG] Setting system property [user.dir]=[/media/Script/prog/IGB/plugins/external-sort] [DEBUG] Setting system property [localRepository]=[/root/.m2/repository] [DEBUG] Setting system property [basedir]=[/media/Script/prog/IGB/plugins/external-sort] [DEBUG] dummy:dummy:jar:1.0 (selected for null) [DEBUG] org.apache.maven.surefire:surefire-booter:jar:2.19:compile (selected for compile) [DEBUG] org.apache.maven.surefire:surefire-api:jar:2.19:compile (selected for compile) [DEBUG] Adding to surefire booter test classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-booter/2.19/surefire-booter-2.19.jar Scope: compile [DEBUG] Adding to surefire booter test classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar Scope: compile [DEBUG] Using JVM: /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java [DEBUG] dummy:dummy:jar:1.0 (selected for null) [DEBUG] org.apache.maven.surefire:surefire-junit4:jar:2.19:test (selected for test) [DEBUG] org.apache.maven.surefire:surefire-api:jar:2.19:test (selected for test) [DEBUG] Adding to surefire test classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar Scope: test [DEBUG] Adding to surefire test classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar Scope: test [DEBUG] test 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] provider classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar [DEBUG] test(compact) classpath: test-classes classes logback-core-1.1.2.jar logback-classic-1.1.2.jar slf4j-api-1.7.7.jar guava-16.0.1.jar junit-4.8.2.jar bndlib-2.4.0.jar org.osgi.core-4.3.1.jar org.osgi.compendium-5.0.0.jar commons-compress-1.5.jar xz-1.5.jar htsjdk-igb-2.16.3.jar commons-logging-1.2.jar commons-jexl-2.1.1.jar [DEBUG] provider(compact) classpath: surefire-junit4-2.19.jar surefire-api-2.19.jar ------------------------------------------------------- T E S T S ------------------------------------------------------- [DEBUG] boot classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-booter/2.19/surefire-booter-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar /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 /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar [DEBUG] boot(compact) classpath: surefire-booter-2.19.jar surefire-api-2.19.jar test-classes classes logback-core-1.1.2.jar logback-classic-1.1.2.jar slf4j-api-1.7.7.jar guava-16.0.1.jar junit-4.8.2.jar bndlib-2.4.0.jar org.osgi.core-4.3.1.jar org.osgi.compendium-5.0.0.jar commons-compress-1.5.jar xz-1.5.jar htsjdk-igb-2.16.3.jar commons-logging-1.2.jar commons-jexl-2.1.1.jar surefire-junit4-2.19.jar Forking command line: /bin/sh -c cd /media/Script/prog/IGB/plugins/external-sort && /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java -jar /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefirebooter8364007075848764103.jar /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefire7224072329093202399tmp /media/Script/prog/IGB/plugins/external-sort/target/surefire/surefire_05639363086491189735tmp Running org.lorainelab.igb.externalsort.ExternalSortTest 18:00:37.204 [main] DEBUG c.g.c.e.ExternalMergeSort - Temp file count: 1 18:00:37.237 [main] INFO o.l.i.externalsort.ExternalSortTest - 90,05 ms Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.623 sec - in org.lorainelab.igb.externalsort.ExternalSortTest Results : Tests run: 1, Failures: 0, Errors: 0, Skipped: 0 [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=131938, ConflictMarker.markTime=159690, ConflictMarker.nodeCount=19, ConflictIdSorter.graphTime=46730, ConflictIdSorter.topsortTime=44245, ConflictIdSorter.conflictIdCount=13, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=707447, ConflictResolver.conflictItemCount=18, DefaultDependencyCollector.collectTime=2443540, DefaultDependencyCollector.transformTime=1162303} [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 18:00:37 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/ 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 -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 -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@18afb626 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@18afb626 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@18afb626 felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/plugins/external-sort project.build.name=Plugin - Sorting API and Impl 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 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: 1583514038502 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: 1583514038502 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} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=79645, ConflictMarker.markTime=33958, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=37777, ConflictIdSorter.topsortTime=23167, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=166199, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=672116, DefaultDependencyCollector.transformTime=393117} [DEBUG] org.lorainelab.igb:cache-api:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ cache-api --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--65999837, parent: sun.misc.Launcher$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/, 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 -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 -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=2020-03-06T17:00:39Z, 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/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/, 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 -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 -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=2020-03-06T17:00:39Z, 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/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 = false [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] No tests to run. [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=86372, ConflictMarker.markTime=32123, ConflictMarker.nodeCount=3, ConflictIdSorter.graphTime=24367, ConflictIdSorter.topsortTime=23622, ConflictIdSorter.conflictIdCount=2, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=215565, ConflictResolver.conflictItemCount=2, DefaultDependencyCollector.collectTime=652574, DefaultDependencyCollector.transformTime=437587} [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 18:00:39 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/ 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 -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 -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@1d03aacd 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@1d03aacd 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@1d03aacd felixMainVersion=5.2.0 project.baseDir=/media/Script/prog/IGB/plugins/cache-api project.build.name=Plugin - Data caching 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 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: 1583514040282 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: 1583514040282 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} ${mdep.useBaseVersion} [DEBUG] ======================================================================= [DEBUG] Dependency collection stats: {ConflictMarker.analyzeTime=43398, ConflictMarker.markTime=38518, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=16448, ConflictIdSorter.topsortTime=30235, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=249936, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=22366219, DefaultDependencyCollector.transformTime=434309} [DEBUG] org.lorainelab.igb:synonym-lookup:bundle:9.1.4 [DEBUG] biz.aQute.bnd:bndlib:jar:2.4.0:provided [DEBUG] org.osgi:org.osgi.core:jar:4.3.1:provided [DEBUG] com.google.guava:guava:jar:16.0.1:provided [DEBUG] org.apache.commons:commons-csv:jar:1.2:provided [DEBUG] org.apache.commons:commons-lang3:jar:3.4:provided [DEBUG] org.slf4j:slf4j-api:jar:1.7.7:provided [DEBUG] junit:junit:jar:4.8.2:test [INFO] [INFO] --- maven-clean-plugin:2.5:clean (default-clean) @ synonym-lookup --- [DEBUG] Configuring mojo org.apache.maven.plugins:maven-clean-plugin:2.5:clean from plugin realm ClassRealm[plugin>org.apache.maven.plugins:maven-clean-plugin:2.5--65999837, parent: sun.misc.Launcher$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 file /media/Script/prog/IGB/core/synonym-lookup/target/surefire-reports/TEST-org.lorainelab.igb.synonymlookup.test.SynonymLookupTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/surefire-reports/org.lorainelab.igb.synonymlookup.test.SynonymLookupTest.txt [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/surefire-reports [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefirebooter9106069362552600350.jar [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefire_12669850257476475433tmp [INFO] Deleting file /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefire6058139013228539471tmp [INFO] Deleting directory /media/Script/prog/IGB/core/synonym-lookup/target/surefire [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/, 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 -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 -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=2020-03-06T17:00:41Z, 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/, 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 -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 -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=2020-03-06T17:00:41Z, 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 = false [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 -- [DEBUG] Surefire report directory: /media/Script/prog/IGB/core/synonym-lookup/target/surefire-reports [DEBUG] Setting system property [user.dir]=[/media/Script/prog/IGB/core/synonym-lookup] [DEBUG] Setting system property [localRepository]=[/root/.m2/repository] [DEBUG] Setting system property [basedir]=[/media/Script/prog/IGB/core/synonym-lookup] [DEBUG] Using JVM: /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java [DEBUG] test 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] provider classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar [DEBUG] test(compact) classpath: test-classes classes bndlib-2.4.0.jar org.osgi.core-4.3.1.jar guava-16.0.1.jar commons-csv-1.2.jar commons-lang3-3.4.jar slf4j-api-1.7.7.jar junit-4.8.2.jar [DEBUG] provider(compact) classpath: surefire-junit4-2.19.jar surefire-api-2.19.jar ------------------------------------------------------- T E S T S ------------------------------------------------------- [DEBUG] boot classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-booter/2.19/surefire-booter-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar /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 /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar [DEBUG] boot(compact) classpath: surefire-booter-2.19.jar surefire-api-2.19.jar test-classes classes bndlib-2.4.0.jar org.osgi.core-4.3.1.jar guava-16.0.1.jar commons-csv-1.2.jar commons-lang3-3.4.jar slf4j-api-1.7.7.jar junit-4.8.2.jar surefire-junit4-2.19.jar Forking command line: /bin/sh -c cd /media/Script/prog/IGB/core/synonym-lookup && /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java -jar /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefirebooter3881270416917436758.jar /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefire6166129158887424756tmp /media/Script/prog/IGB/core/synonym-lookup/target/surefire/surefire_18241246965514207440tmp Running org.lorainelab.igb.synonymlookup.test.SynonymLookupTest Tests run: 5, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.295 sec - in org.lorainelab.igb.synonymlookup.test.SynonymLookupTest Results : Tests run: 5, Failures: 0, Errors: 0, Skipped: 0 [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=30601, ConflictMarker.markTime=20593, ConflictMarker.nodeCount=8, ConflictIdSorter.graphTime=11218, ConflictIdSorter.topsortTime=18002, ConflictIdSorter.conflictIdCount=7, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=150738, ConflictResolver.conflictItemCount=7, DefaultDependencyCollector.collectTime=598454, DefaultDependencyCollector.transformTime=266372} [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 18:00:43 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/ 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 -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 -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@46a6dfd4 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@46a6dfd4 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@46a6dfd4 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: 1583514043583 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: 1583514043583 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=96583, ConflictMarker.markTime=109273, ConflictMarker.nodeCount=34, ConflictIdSorter.graphTime=37262, ConflictIdSorter.topsortTime=128150, ConflictIdSorter.conflictIdCount=29, ConflictIdSorter.conflictIdCycleCount=0, ConflictResolver.totalTime=1245023, ConflictResolver.conflictItemCount=33, DefaultDependencyCollector.collectTime=25382651, DefaultDependencyCollector.transformTime=1698225} [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--65999837, 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/surefire-reports/TEST-com.affymetrix.genometry.GFF3SymTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.GFF3SymTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.util.IgbStringUtilsTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.util.IgbStringUtilsTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.util.SeqUtilsTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.util.SeqUtilsTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.comparator.SeqSymIdComparatorTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.comparator.SeqSymIdComparatorTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.NibbleBioSeqTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.NibbleBioSeqTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.BpsParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.BpsParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.Bprobe1ParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.Bprobe1ParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.NibbleResiduesParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.NibbleResiduesParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.NibbleFileParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.NibbleFileParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.CytobandParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.CytobandParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.PSLParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.PSLParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.TwoBitNewTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.TwoBitNewTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.TwoBitParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.TwoBitParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.SamRecordFlagTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.SamRecordFlagTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.GFF3ParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.GFF3ParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.FastaParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.FastaParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.GFFParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.GFFParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.CntParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.CntParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.BarParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.BarParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.BgrParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.BgrParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.SgrParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.SgrParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.GrParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.GrParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.ScoredIntervalParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.ScoredIntervalParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.UseqParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.UseqParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.graph.WiggleParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.graph.WiggleParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.BrsParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.BrsParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.parsers.TrackLineParserTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.parsers.TrackLineParserTest.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/TEST-com.affymetrix.genometry.BioSeqTest.xml [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire-reports/com.affymetrix.genometry.BioSeqTest.txt [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/surefire-reports [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire/surefirebooter5471190044317221258.jar [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire/surefire_23185144822804373935tmp [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/surefire/surefire7998115030392553438tmp [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/surefire [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 /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file4.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file3.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file2.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/wig_test_file1.wig [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle/testFile.wig [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/wiggle [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/vcf/test.vcf [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/vcf [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_StrandedReadCoverage_Graph.useq [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_Region.useq [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq/chr17_H_sapiens_Mar_2006_Graph.useq [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/useq [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/speciesLookup/species.txt [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/speciesLookup [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test4.sgr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test2.sgr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr/test1.sgr [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/sgr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana/A_thaliana_TAIR8/mod_chromInfo.txt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana/A_thaliana_TAIR8/mRNA1.mm.psl [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana/A_thaliana_TAIR8 [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/server/A_thaliana [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/server [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/pslx/test.pslx [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/pslx [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/test1.psl [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/search.psl [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl/RT_U34.link.psl.gz [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/psl [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/gr/test1.gr [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/gr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff3/GFF3_with_errors.gff3 [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff3/GFF3_canonical_example.gff3 [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff3 [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff1/GFF1_example.gff [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/gff1 [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/NC_00343.S_pombe.gb.gz [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/AE014134.5.gb.gz [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank/AE003650.gb.gz [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/genbank [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/chrC.fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_small_genome.fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_obey_70.fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_not_obey_70.fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_chrQ2.fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta/FASTA_chrQ.fasta [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/fasta [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/egr/test1.egr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/egr/test.egr [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/egr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/das2/test2.das2xml [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/das2 [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/cyt/test1.cyt [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/cyt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/cnt/test1.cnt [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/cnt [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/chp/TisMap_Brain_01_v1_WTGene1.rma-gene-default.chp.gz [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/chp/ArabidopsisATH1-121502.CHP.gz [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/chp [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/brs/refseq.brs [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/brs [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bps/test1.bps [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bps/mRNA1.mm.bps [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bps [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bp1/test.bp2 [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bp1 [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bnib/BNIB_chrQ2.bnib [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bnib/BNIB_chrQ.bnib [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bnib [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgr/test1.bgr [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgr [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgn/mgcGenes.bgn [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bgn [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_03.bed [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_02.bed [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bed_01.bed [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed/bedDetailExample.bed [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bed [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bar/small.bar [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/bar/1.sgr [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/bar [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/noblocks.2bit [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/nblocks.2bit [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/mnblocks.2bit [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/maskblocks.2bit [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit/at.2bit [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data/2bit [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes/data [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/test-classes [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/generated-sources/annotations [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/generated-sources [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/testCompile/default-testCompile [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/testCompile [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/compile/default-compile/inputFiles.lst [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/compile/default-compile/createdFiles.lst [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/compile/default-compile [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin/compile [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status/maven-compiler-plugin [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/maven-status [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/AminoAcid.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/Residues.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenometryServiceDependencyManager.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/Activator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/Activator$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/Activator$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/SharedProbesetInfo.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/IntId.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenometryConstants.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/quickload/QuickLoadSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/quickload/QuickLoadSymLoaderHook.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/quickload [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/search/SearchUtils.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/search [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/CThreadHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/CThreadHolder$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/CThreadWorker.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/CThreadEvent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/CThreadListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread/WaitHelperI.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/thread [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/regionfinder/RegionFinder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/regionfinder/DefaultRegionFinder.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/regionfinder [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/ResiduesChars.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenometryModel.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenometryModel$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenometryModel$GenometryModelHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/Scored.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/tooltip/ToolTipCategory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/tooltip/ToolTipOperations.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/tooltip/ToolTipConstants.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/tooltip [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/GraphMultiplexer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/FindMateOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/SubtractMathTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/UnionOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/NotOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/DiffOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/CopyMismatchOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AddMathTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ExclusiveBOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/MultiplyMathTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/PowerTransformer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/CopyGraphOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/CopySequenceOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/CopyXOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/MaxOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/InverseTransformer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/DivideMathTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ComboChainOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/SumOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ComplementSequenceOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ICopy.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/RatioOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/DepthOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/FilterOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/LogTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/SummaryOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/IntersectionOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/MedianOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/MinOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractMathTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractLogTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/InverseLogTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractFloatTransformer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/IdentityTransform.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/service/OperatorServiceFactory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/service/OperatorServiceRegistry.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/service [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/NotEqualMathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/GreaterThanEqualMathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/LessThanMathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/LessThanEqualMathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/EqualMathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/MathComparisonOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator/GreaterThanMathComparisonOperator.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/comparator [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ProductOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ExclusiveAOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractGraphOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/MeanOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractAnnotationTransformer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/StartDepthOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/Operator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/Operator$Style.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/AbstractAnnotationOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/XorOperator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator/ExclusiveOperator.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/operator [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/EventUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/ReportBugAction.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/PropertyListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GenericActionHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/AxisPopupListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/ThreadProgressMonitor.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/ThreadProgressMonitor$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GenericActionListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/PropertyHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/ParameteredAction.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/OKAction.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/NewSymLoadedListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/SeqMapRefreshed.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/RepositoryChangeListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/PropertyHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/SymSelectionEvent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GenomeVersionSelectionEvent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/SeqSelectionEvent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/SymSelectionListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GroupSelectionListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/SeqSelectionListener.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GenericAction.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/GenericActionDoneCallback.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/NewSymLoadedEvent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event/ContinuousAction.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/event [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/SupportsCdsSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/USeq.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderInstNC.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Bar.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/PSL.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/PSL$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/PSL$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$GraphData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$FORMAT.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$FILTER.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$INFO.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/VCF$Type.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Delegate.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Delegate$DelegateParent.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/BNIB.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Wiggle.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Wiggle$3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Wiggle$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Wiggle$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Wiggle$WigFormat.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/BedGraph.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TwoBitNew.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/UnindexedSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/UnindexedSymLoader$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/GFF.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/GFF$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/BaiZoomSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Fasta.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Fasta$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/GenbankFeature.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Genbank.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Sgr.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TwoBit.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SamRecordFlag.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderTabix.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderTabix$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderTabix$TabixReaderPoolableObjectFactory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderTabix$TabixReaderCached.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Gr.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/BedUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/ResidueTrackSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/Das2SliceSupport.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/IndexZoomSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/IndexZoomSymLoader$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TbiZoomSymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TbiZoomSymLoader$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TbiZoomSymLoader$2$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/TbiZoomSymLoader$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoaderInst.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/FastaCommon.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/FastaIdx.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/ProtocolConstants.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/LineProcessor.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/GFF3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/GFF3$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoader$3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoader$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader/SymLoader$1.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symloader [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/DuplicateFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/DuplicateFilter$SHOW.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/PairedByRunNoFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/PairedByRunNoFilter$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/PairedByRunNoFilter$RUN_NO.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ReadAlignmentsStrandFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ReadAlignmentsStrandFilter$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ReadAlignmentsStrandFilter$READ_ALIGNMENT.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/NoIntronFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/MappingQualityFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/UniqueLocationFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/MismatchFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ChildThresholdFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/WithIntronFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ChainFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterId.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterId$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/ScoreFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/MatchFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/NotUniqueLocationFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/QualityScoreFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/PairedFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/PairedFilter$SHOW.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterProps.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterProps$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterIntersecting.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter/SymmetryFilterI.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/filter [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/Duplicate.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/RGB.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/Paired.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/Strand.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/ColorProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/PariedByRunNo.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color/ColorProviderI.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/color [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/span/SeqSpanComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/span/MutableDoubleSeqSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/span/SimpleSeqSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/span/SimpleMutableSeqSpan.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/span [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/DataProviderComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/assembly/AssemblyProvider.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/assembly [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/DataProviderUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/BaseDataProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/DataProviderFactoryManager.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/sequence/ReferenceSequenceProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/sequence/ReferenceSequenceDataSetProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/sequence/ReferenceSequenceResource.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/sequence [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/DataProviderFactory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data/DataProvider.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/data [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/LocalDataProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/DataSetUtils.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/DataProviderPrefKeys.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/BoundedParameter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/Parameters.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/Parameter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/IParameters.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/NewInstance.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/SupportsFileTypeCategory.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/ID.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/ID$Order.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/DataSet.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general/DataContainer.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/general [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/SimpleTrackStyle.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/DynamicStyleHeatMap.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/StateProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/DefaultStateProvider.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/PropertyConstants.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMapExtended.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/DefaultTrackStyle.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap$StandardHeatMap.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap$StandardHeatMap$3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap$StandardHeatMap$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/HeatMap$StandardHeatMap$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/GraphType.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/GraphState.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/ITrackStyle.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style/ITrackStyleExtended.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/style [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/MutableSeqSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/SeqSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/BioSeq.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/GenomeVersion.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/DummyRootSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SymWithBaseQuality.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/BasicSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/IndexedSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/DerivedSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SupportsGeneName.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SymWithResidues.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SymSpanWithCds.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/RootSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/MutableSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SimpleSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/SymWithProps.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/TypedSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/PairedConnectorSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleSymWithResidues.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleScoredSymWithProps.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SeqSymmetryConverter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/CdsSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/MisMatchPileupGraphSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscBedDetailSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/EfficientProbesetSymA.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SeqSymSummarizer.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/BAMSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/BAMSym$BamSoftChildSingletonSeqSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/BAMSym$BamInsChildSingletonSeqSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/BAMSym$BamChildSingletonSeqSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/MultiTierSymWrapper.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/PairedBamSymWrapper.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/PairedBamSymWrapper$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleDerivedSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/EfficientPairSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscBedSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscBedSym$BedChildSingletonSeqSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/NarrowPeakSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/IndexedSingletonSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/ScoredSingletonSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/GenbankSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/GenbankSym$GenbankChildSingletonSeqSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/Psl3Sym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/MisMatchGraphSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/CompositeMismatchGraphSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SingletonSymWithIntId.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleSymWithPropsWithCdsSpan.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/ScoredContainerSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/EfficientSnpSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/GraphIntervalSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/CompositeGraphSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/GraphSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscGeneSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/LeafTrioSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/TypeContainerAnnot.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscGffSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/GFF3Sym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimplePairSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/LeafSingletonSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SingletonSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/MutableSingletonSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SingletonSymWithProps.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleMutableSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SimpleSymWithProps.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/SearchableSeqSymmetry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl/UcscPslSym.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry/impl [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/symmetry [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/SeqSpanComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/SeqSymReverseIdComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/QuantDetectByIntIdComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/QuantByIntIdComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/SeqSymMinComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/SeqSymStartComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/GenomeVersionDateComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/StringVersionDateComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/SeqSymIdComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/AlphanumComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/BioSeqComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator/UcscPslComparator.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/comparator [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BedDetailWriter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/ChromInfoParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/ExonArrayDesignParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/LinkPSLParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BsnpParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BrptParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/TwoBitParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/VarParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/SegmenterRptParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FastaParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/SimpleBedParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/CytobandParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/CytobandParser$CytobandSym.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/CytobandParser$Arm.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BedParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypehandlerRegistry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/Bprobe1Parser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/LiftParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BgnParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/GraphParserUtil.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/WiggleParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/WiggleParser$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/WiggleParser$WigFormat.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/BarParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/BarParser$BarFileHeader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/BarParser$BarSeqHeader.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/SgrParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/ScoredIntervalParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/ScoredIntervalParser$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/ScoredIntervalParser$SinEntryComparator.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/ScoredIntervalParser$SinEntry.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/ScoredMapParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/WiggleData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/BgrParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/CntParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/GraphParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph/GrParser.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/graph [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/TabDelimitedParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FishClonesParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/SAMWriter.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BrsParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/BpsParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHandler.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$8.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$7.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$6.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$5.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$4.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$3.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$2.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/FileTypeHolder$1.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/USeqUtilities.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/USeqRegionParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/USeqArchive.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/USeqArchive$DataRange.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/USeqGraphParser.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/SliceInfo.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/ArchiveInfo.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/apps/Wig2USeq.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/apps/USeq2UCSCBig.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/apps/Text2USeq.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/apps/USeq2Text.class [INFO] Deleting directory /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/apps [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionScoreTextData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionTextData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionScoreData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionTextData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionData.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionScoreText.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/PositionText.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionText.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/Region.class [INFO] Deleting file /media/Script/prog/IGB/core/genometry/target/classes/com/affymetrix/genometry/parsers/useq/data/RegionScore.class [INFO] Deleting file /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/, 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 -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 -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=2020-03-06T17:00:46Z, 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/, 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 -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 -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=2020-03-06T17:00:56Z, 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 = false [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 -- [DEBUG] Surefire report directory: /media/Script/prog/IGB/core/genometry/target/surefire-reports [DEBUG] Setting system property [user.dir]=[/media/Script/prog/IGB/core/genometry] [DEBUG] Setting system property [localRepository]=[/root/.m2/repository] [DEBUG] Setting system property [basedir]=[/media/Script/prog/IGB/core/genometry] [DEBUG] Using JVM: /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java [DEBUG] test 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] provider classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar [DEBUG] test(compact) classpath: test-classes classes org.apache.felix.main-5.2.0.jar org.apache.felix.framework-5.2.0.jar external-sort-9.1.4.jar affymetrix-common-9.1.4.jar tango-icon-theme-0.8.90.jar jlfgr-1.0.jar guava-16.0.1.jar commons-compress-1.5.jar xz-1.5.jar commons-lang3-3.4.jar jdom-1.1.3.jar fusion-1.0.1.jar image4j-0.7.jar colt-1.2.0.jar concurrent-1.3.4.jar commons-csv-1.2.jar commons-codec-1.6.jar commons-net-2.0.jar junit-4.8.2.jar commons-pool-1.6.jar slf4j-api-1.7.7.jar bndlib-2.4.0.jar org.osgi.core-4.3.1.jar http-request-6.0.jar cache-api-9.1.4.jar synonym-lookup-9.1.4.jar htsjdk-igb-2.16.3.jar commons-logging-1.2.jar commons-jexl-2.1.1.jar [DEBUG] provider(compact) classpath: surefire-junit4-2.19.jar surefire-api-2.19.jar ------------------------------------------------------- T E S T S ------------------------------------------------------- [DEBUG] boot classpath: /root/.m2/repository/org/apache/maven/surefire/surefire-booter/2.19/surefire-booter-2.19.jar /root/.m2/repository/org/apache/maven/surefire/surefire-api/2.19/surefire-api-2.19.jar /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 /root/.m2/repository/org/apache/maven/surefire/surefire-junit4/2.19/surefire-junit4-2.19.jar [DEBUG] boot(compact) classpath: surefire-booter-2.19.jar surefire-api-2.19.jar test-classes classes org.apache.felix.main-5.2.0.jar org.apache.felix.framework-5.2.0.jar external-sort-9.1.4.jar affymetrix-common-9.1.4.jar tango-icon-theme-0.8.90.jar jlfgr-1.0.jar guava-16.0.1.jar commons-compress-1.5.jar xz-1.5.jar commons-lang3-3.4.jar jdom-1.1.3.jar fusion-1.0.1.jar image4j-0.7.jar colt-1.2.0.jar concurrent-1.3.4.jar commons-csv-1.2.jar commons-codec-1.6.jar commons-net-2.0.jar junit-4.8.2.jar commons-pool-1.6.jar slf4j-api-1.7.7.jar bndlib-2.4.0.jar org.osgi.core-4.3.1.jar http-request-6.0.jar cache-api-9.1.4.jar synonym-lookup-9.1.4.jar htsjdk-igb-2.16.3.jar commons-logging-1.2.jar commons-jexl-2.1.1.jar surefire-junit4-2.19.jar Forking command line: /bin/sh -c cd /media/Script/prog/IGB/core/genometry && /usr/lib/jvm/java-8-openjdk-amd64/jre/bin/java -jar /media/Script/prog/IGB/core/genometry/target/surefire/surefirebooter3771193713679473221.jar /media/Script/prog/IGB/core/genometry/target/surefire/surefire5986364609610733983tmp /media/Script/prog/IGB/core/genometry/target/surefire/surefire_28641707463933809837tmp Running com.affymetrix.genometry.BioSeqTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.032 sec - in com.affymetrix.genometry.BioSeqTest Running com.affymetrix.genometry.parsers.TrackLineParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.017 sec - in com.affymetrix.genometry.parsers.TrackLineParserTest Running com.affymetrix.genometry.parsers.BrsParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.549 sec - in com.affymetrix.genometry.parsers.BrsParserTest Running com.affymetrix.genometry.parsers.graph.WiggleParserTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.598 sec - in com.affymetrix.genometry.parsers.graph.WiggleParserTest Running com.affymetrix.genometry.parsers.graph.UseqParserTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.5 sec - in com.affymetrix.genometry.parsers.graph.UseqParserTest Running com.affymetrix.genometry.parsers.graph.ScoredIntervalParserTest number of scores per line: 2 data lines in .sin file: 4 Tests run: 3, Failures: 0, Errors: 0, Skipped: 2, Time elapsed: 0.047 sec - in com.affymetrix.genometry.parsers.graph.ScoredIntervalParserTest Running com.affymetrix.genometry.parsers.graph.GrParserTest loaded graph data, total points = 2 loaded graph data, total points = 2 loaded graph data, total points = 10 loaded graph data, total points = 10 loaded graph data, total points = 10 Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.063 sec - in com.affymetrix.genometry.parsers.graph.GrParserTest Running com.affymetrix.genometry.parsers.graph.SgrParserTest Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.244 sec - in com.affymetrix.genometry.parsers.graph.SgrParserTest Running com.affymetrix.genometry.parsers.graph.BgrParserTest 16, null, null Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.021 sec - in com.affymetrix.genometry.parsers.graph.BgrParserTest Running com.affymetrix.genometry.parsers.graph.BarParserTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.064 sec - in com.affymetrix.genometry.parsers.graph.BarParserTest Running com.affymetrix.genometry.parsers.graph.CntParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.016 sec - in com.affymetrix.genometry.parsers.graph.CntParserTest Running com.affymetrix.genometry.parsers.GFFParserTest lines: 33 syms:33 groups:22 results:22 Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.035 sec - in com.affymetrix.genometry.parsers.GFFParserTest Running com.affymetrix.genometry.parsers.FastaParserTest using buffer directly: false using fixed length buffer: false done constructing residues via array id: chrQ Tests run: 8, Failures: 1, Errors: 0, Skipped: 0, Time elapsed: 0.075 sec <<< FAILURE! - in com.affymetrix.genometry.parsers.FastaParserTest testGenerateNewHeader(com.affymetrix.genometry.parsers.FastaParserTest) Time elapsed: 0.014 sec <<< FAILURE! java.lang.AssertionError: expected:<44> but was:<65440> at com.affymetrix.genometry.parsers.FastaParserTest.testGenerateNewHeader(FastaParserTest.java:43) Running com.affymetrix.genometry.parsers.GFF3ParserTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 3, Time elapsed: 0.001 sec - in com.affymetrix.genometry.parsers.GFF3ParserTest Running com.affymetrix.genometry.parsers.SamRecordFlagTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.005 sec - in com.affymetrix.genometry.parsers.SamRecordFlagTest Running com.affymetrix.genometry.parsers.TwoBitParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 30.071 sec - in com.affymetrix.genometry.parsers.TwoBitParserTest Running com.affymetrix.genometry.parsers.TwoBitNewTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 1.806 sec - in com.affymetrix.genometry.parsers.TwoBitNewTest Running com.affymetrix.genometry.parsers.PSLParserTest Tests run: 3, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.343 sec - in com.affymetrix.genometry.parsers.PSLParserTest Running com.affymetrix.genometry.parsers.CytobandParserTest in CytobandParser.writeAnnotations() Tests run: 4, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.033 sec - in com.affymetrix.genometry.parsers.CytobandParserTest Running com.affymetrix.genometry.parsers.NibbleFileParserTest in NibbleIterator.stringToNibbles(), start >= end NOT YET IMPLEMENTED in NibbleIterator.stringToNibbles(), start >= end NOT YET IMPLEMENTED Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.167 sec - in com.affymetrix.genometry.parsers.NibbleFileParserTest Running com.affymetrix.genometry.parsers.NibbleResiduesParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec - in com.affymetrix.genometry.parsers.NibbleResiduesParserTest Running com.affymetrix.genometry.parsers.Bprobe1ParserTest in Bprobe1Parser, populating id hash: true finished parsing probeset file Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.007 sec - in com.affymetrix.genometry.parsers.Bprobe1ParserTest Running com.affymetrix.genometry.parsers.BpsParserTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec - in com.affymetrix.genometry.parsers.BpsParserTest Running com.affymetrix.genometry.NibbleBioSeqTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec - in com.affymetrix.genometry.NibbleBioSeqTest Running com.affymetrix.genometry.comparator.SeqSymIdComparatorTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.011 sec - in com.affymetrix.genometry.comparator.SeqSymIdComparatorTest Running com.affymetrix.genometry.util.SeqUtilsTest Tests run: 8, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0 sec - in com.affymetrix.genometry.util.SeqUtilsTest Running com.affymetrix.genometry.util.IgbStringUtilsTest Tests run: 2, Failures: 0, Errors: 0, Skipped: 1, Time elapsed: 1.168 sec - in com.affymetrix.genometry.util.IgbStringUtilsTest Running com.affymetrix.genometry.GFF3SymTest Tests run: 1, Failures: 0, Errors: 0, Skipped: 0, Time elapsed: 0.018 sec - in com.affymetrix.genometry.GFF3SymTest Results : Failed tests: FastaParserTest.testGenerateNewHeader:43 expected:<44> but was:<65440> Tests run: 80, Failures: 1, Errors: 0, Skipped: 6 [INFO] ------------------------------------------------------------------------ [INFO] Reactor Summary for IGB Project 9.1.4: [INFO] [INFO] IGB Project ........................................ SUCCESS [ 0.365 s] [INFO] Core - Heatmap Editor .............................. SUCCESS [ 6.516 s] [INFO] Core - Affymetrix Common ........................... SUCCESS [ 13.392 s] [INFO] Plugin - Sorting API and Impl ...................... SUCCESS [ 5.090 s] [INFO] Plugin - Data caching API .......................... SUCCESS [ 1.779 s] [INFO] Core - Synonym Lookup .............................. SUCCESS [ 3.228 s] [INFO] Core - Genometry (Data Models) ..................... FAILURE [ 52.243 s] [INFO] Core - Preferences ................................. SKIPPED [INFO] Core - IGB Swing Extensions ........................ SKIPPED [INFO] Core - Genoviz Extensions .......................... SKIPPED [INFO] Core - IGB Services API ............................ SKIPPED [INFO] Core - Frame Manager ............................... SKIPPED [INFO] Core - Window Service .............................. SKIPPED [INFO] Core - JavaFX Utilities ............................ SKIPPED [INFO] Core - Menu API .................................... SKIPPED [INFO] Core - Context Menu Service ........................ SKIPPED [INFO] Core - IGB ......................................... SKIPPED [INFO] Core - Bundle wrapper, deployer .................... SKIPPED [INFO] Core - Logging Config .............................. SKIPPED [INFO] Core - Web Links ................................... SKIPPED [INFO] Plugin - Data caching GUI .......................... SKIPPED [INFO] Core - Quickload (data source) ..................... SKIPPED [INFO] Core - DAS (data source) ........................... SKIPPED [INFO] Core - Das 2 (data source) ......................... SKIPPED [INFO] Plugin - Apollo Library ............................ SKIPPED [INFO] Plugin - Track Operations API, GUI ................. SKIPPED [INFO] Plugin - Annotation Tab ............................ SKIPPED [INFO] Plugin - Console Tab ............................... SKIPPED [INFO] Plugin - Bigbed data format handler ................ SKIPPED [INFO] Plugin - Bigwig data format handler ................ SKIPPED [INFO] Plugin - Bookmarks and REST API .................... SKIPPED [INFO] Plugin - External View ............................. SKIPPED [INFO] Plugin - Graph Tab ................................. SKIPPED [INFO] Plugin - Save Image GUI ............................ SKIPPED [INFO] Plugin - Script handler ............................ SKIPPED [INFO] Plugin - Keyword Search ............................ SKIPPED [INFO] Plugin - NCBI Blast ................................ SKIPPED [INFO] Plugin - Selection Info tab ........................ SKIPPED [INFO] Plugin - Restriction Sites tab ..................... SKIPPED [INFO] Plugin - Search Id or Props ........................ SKIPPED [INFO] Plugin - Advanced Search Tab ....................... SKIPPED [INFO] Plugin - Sequence Viewer GUI ....................... SKIPPED [INFO] Plugin - Survey GUI ................................ SKIPPED [INFO] Plugin - Graph thresholding visual analytics ....... SKIPPED [INFO] Plugin - Update .................................... SKIPPED [INFO] Plugin - App Manager GUI ........................... SKIPPED [INFO] Plugin - Paired-end Read Preprocessor .............. SKIPPED [INFO] Plugin - Save Session Manager ...................... SKIPPED [INFO] Plugin - Toolbar Preferences GUI ................... SKIPPED [INFO] Plugin - Error reporting ........................... SKIPPED [INFO] Plugin - Feedback .................................. SKIPPED [INFO] Plugin - Narrowpeak data format handler ............ SKIPPED [INFO] Plugin - File Handler - Genotyping Results ........ SKIPPED [INFO] Plugin - BED file format handler ................... SKIPPED [INFO] Plugin - BAM data format handler ................... SKIPPED [INFO] Plugin - BAI index visualization handler ........... SKIPPED [INFO] Plugin - App Store REST API ........................ SKIPPED [INFO] IGB Main (run me) .................................. SKIPPED [INFO] ------------------------------------------------------------------------ [INFO] BUILD FAILURE [INFO] ------------------------------------------------------------------------ [INFO] Total time: 01:25 min [INFO] Finished at: 2020-03-06T18:01:36+01:00 [INFO] ------------------------------------------------------------------------ [ERROR] Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) on project genometry: There are test failures. [ERROR] [ERROR] Please refer to /media/Script/prog/IGB/core/genometry/target/surefire-reports for the individual test results. [ERROR] -> [Help 1] org.apache.maven.lifecycle.LifecycleExecutionException: Failed to execute goal org.apache.maven.plugins:maven-surefire-plugin:2.19:test (default-test) on project genometry: There are test failures. Please refer to /media/Script/prog/IGB/core/genometry/target/surefire-reports for the individual test results. at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:215) at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:156) at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:148) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:117) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:81) at org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build (SingleThreadedBuilder.java:56) at org.apache.maven.lifecycle.internal.LifecycleStarter.execute (LifecycleStarter.java:128) at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:305) at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:192) at org.apache.maven.DefaultMaven.execute (DefaultMaven.java:105) at org.apache.maven.cli.MavenCli.execute (MavenCli.java:957) at org.apache.maven.cli.MavenCli.doMain (MavenCli.java:289) at org.apache.maven.cli.MavenCli.main (MavenCli.java:193) at sun.reflect.NativeMethodAccessorImpl.invoke0 (Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke (NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke (DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke (Method.java:498) at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced (Launcher.java:282) at org.codehaus.plexus.classworlds.launcher.Launcher.launch (Launcher.java:225) at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode (Launcher.java:406) at org.codehaus.plexus.classworlds.launcher.Launcher.main (Launcher.java:347) Caused by: org.apache.maven.plugin.MojoFailureException: There are test failures. Please refer to /media/Script/prog/IGB/core/genometry/target/surefire-reports for the individual test results. at org.apache.maven.plugin.surefire.SurefireHelper.reportExecution (SurefireHelper.java:91) at org.apache.maven.plugin.surefire.SurefirePlugin.handleSummary (SurefirePlugin.java:318) at org.apache.maven.plugin.surefire.AbstractSurefireMojo.executeAfterPreconditionsChecked (AbstractSurefireMojo.java:880) at org.apache.maven.plugin.surefire.AbstractSurefireMojo.execute (AbstractSurefireMojo.java:739) at org.apache.maven.plugin.DefaultBuildPluginManager.executeMojo (DefaultBuildPluginManager.java:137) at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:210) at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:156) at org.apache.maven.lifecycle.internal.MojoExecutor.execute (MojoExecutor.java:148) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:117) at org.apache.maven.lifecycle.internal.LifecycleModuleBuilder.buildProject (LifecycleModuleBuilder.java:81) at org.apache.maven.lifecycle.internal.builder.singlethreaded.SingleThreadedBuilder.build (SingleThreadedBuilder.java:56) at org.apache.maven.lifecycle.internal.LifecycleStarter.execute (LifecycleStarter.java:128) at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:305) at org.apache.maven.DefaultMaven.doExecute (DefaultMaven.java:192) at org.apache.maven.DefaultMaven.execute (DefaultMaven.java:105) at org.apache.maven.cli.MavenCli.execute (MavenCli.java:957) at org.apache.maven.cli.MavenCli.doMain (MavenCli.java:289) at org.apache.maven.cli.MavenCli.main (MavenCli.java:193) at sun.reflect.NativeMethodAccessorImpl.invoke0 (Native Method) at sun.reflect.NativeMethodAccessorImpl.invoke (NativeMethodAccessorImpl.java:62) at sun.reflect.DelegatingMethodAccessorImpl.invoke (DelegatingMethodAccessorImpl.java:43) at java.lang.reflect.Method.invoke (Method.java:498) at org.codehaus.plexus.classworlds.launcher.Launcher.launchEnhanced (Launcher.java:282) at org.codehaus.plexus.classworlds.launcher.Launcher.launch (Launcher.java:225) at org.codehaus.plexus.classworlds.launcher.Launcher.mainWithExitCode (Launcher.java:406) at org.codehaus.plexus.classworlds.launcher.Launcher.main (Launcher.java:347) [ERROR] [ERROR] [ERROR] For more information about the errors and possible solutions, please read the following articles: [ERROR] [Help 1] http://cwiki.apache.org/confluence/display/MAVEN/MojoFailureException [ERROR] [ERROR] After correcting the problems, you can resume the build with the command [ERROR] mvn -rf :genometry