20:09:54.018 ERROR com.affymetrix.igb.IGB - Trying to add set keystroke for action com.lorainelab.logging.console.ShowConsoleAction. But action class com.lorainelab.logging.console.ShowConsoleAction exists with same keystroke "shift ctrl pressed C". Using keystroke with latest action. 20:09:54.601 INFO c.l.i.p.PairedReadPreprocessor - Initializaing PairedReadPreprocessor 20:09:54.681 INFO c.l.quickload.QuickloadDataProvider - Initializing Quickload Server http://igbquickload.org/quickload/ 20:09:55.489 INFO c.a.i.p.IgbPreferencesLoadingOrchestrator - Loading old data providers from preferences 20:09:55.499 INFO c.a.i.p.IgbPreferencesLoadingOrchestrator - Loading server preferences from the Java preferences subsystem 20:09:55.516 INFO c.a.i.p.IgbPreferencesLoadingOrchestrator - Completed loading server preferences from the Java preferences subsystem 20:09:55.606 INFO c.a.igb.IgbServiceDependencyManager - Console Service now available. 20:09:55.607 INFO c.a.igb.IgbServiceDependencyManager - Das2 Factory now available. 20:09:55.608 INFO c.a.igb.IgbServiceDependencyManager - Das Factory now available. 20:09:55.608 INFO c.a.igb.IgbServiceDependencyManager - QuickloadFactory now available. 20:09:55.608 INFO c.a.igb.IgbServiceDependencyManager - Window Service now available. 20:09:55.609 INFO c.a.igb.IgbServiceDependencyManager - Igb Module Service Dependencies are now available. 20:09:55.609 INFO com.affymetrix.igb.Activator - Starting IGB 20:09:55.612 INFO com.affymetrix.igb.IGB - Starting: Integrated Genome Browser 8.4.4 20:09:55.612 INFO com.affymetrix.igb.IGB - Java version: 1.8.0_45 from Oracle Corporation 20:09:55.614 INFO com.affymetrix.igb.IGB - System memory: 1.9 GB 20:09:57.489 INFO c.l.quickload.QuickloadDataProvider - Initializing Quickload Server http://www.igbquickload.org/pollen/ 20:09:57.803 INFO c.a.i.b.action.BookmarkActionManager - Loading bookmarks from file C:\Users\Andrea\AppData\Roaming\IGB\bookmarks.html 20:09:57.806 INFO c.a.i.b.action.BookmarkActionManager - Saving bookmarks to file C:\Users\Andrea\AppData\Roaming\IGB\bookmarks.html~ 20:09:58.607 WARN c.l.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://www.igbquickload.org/pollen/synonyms.txt 20:09:58.685 INFO com.affymetrix.igb.Activator - IGB Started 20:09:58.686 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.framework 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: affymetrix-common 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: annotation-tab 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: apollo-library 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bigBedHandler 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bigWigHandler 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: BigWig 20:09:58.687 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: bookmark 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.codec 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.compress 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.csv 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.io 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.lang3 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.commons.pool 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: console-gui 20:09:58.688 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: das 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: das2 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: externalView 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: genometry 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.affymetrix.genoviz 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: graphTab 20:09:58.689 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.google.gson 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.google.guava 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: heatmap-editor 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-genoviz-extensions 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-preferences 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igb-services 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igbScript 20:09:58.690 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: igbSwingExt 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: image-exporter 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.jidesoft.ultimate 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: keyWordSearch 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: keybinding-registry 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ch.qos.logback.classic 20:09:58.691 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ch.qos.logback.core 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: com.lorainelab.logging-config 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: ncbiBlast 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.bundlerepository 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: org.apache.felix.scr 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: osgi.cmpn 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: paired-data-preprocessor 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: plugins-manager 20:09:58.692 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: propertyView 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: quickload 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: restrictionSites 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: searchModelIdOrProps 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: searchView 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: sequenceViewer 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: session-manager 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: shared-lib-wrapper 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: slf4j.api 20:09:58.693 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: survey 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: thresholding 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: track-operations-panel 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: tutorial 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: update 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: weblinks 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - Starting Bundle: window-service 20:09:58.694 [main] INFO com.affymetrix.main.OSGiHandler - OSGi is started with org.apache.felix.framework version 4.6.0 20:09:58.836 WARN c.l.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://www.igbquickload.org/pollen/species.txt 20:09:58.842 INFO c.l.quickload.QuickloadDataProvider - Initializing Quickload Server http://www.igbquickload.org/cyto/ 20:09:59.912 WARN c.l.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://www.igbquickload.org/cyto/synonyms.txt 20:10:00.140 WARN c.l.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://www.igbquickload.org/cyto/species.txt 20:10:00.142 INFO c.l.quickload.QuickloadDataProvider - Initializing Quickload Server http://www.igbquickload.org/blueberry/ 20:10:01.217 WARN c.l.quickload.util.QuickloadUtils - Optional quickload synonyms.txt file could not be loaded from http://www.igbquickload.org/blueberry/synonyms.txt 20:10:01.430 WARN c.l.quickload.util.QuickloadUtils - Optional species.txt could not be loaded from: http://www.igbquickload.org/blueberry/species.txt 20:10:23.784 ERROR c.a.i.b.BookmarkUnibrowControlServlet - Error while loading bookmark. java.lang.NullPointerException: null at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.lambda$loadServers$15(BookmarkUnibrowControlServlet.java:425) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet$$Lambda$260/2137190807.apply(Unknown Source) ~[na:na] at java.util.stream.ReferencePipeline$3$1.accept(Unknown Source) ~[na:1.8.0_45] at java.util.Iterator.forEachRemaining(Unknown Source) ~[na:1.8.0_45] at java.util.Spliterators$IteratorSpliterator.forEachRemaining(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.copyInto(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.wrapAndCopyInto(Unknown Source) ~[na:1.8.0_45] at java.util.stream.ReduceOps$ReduceOp.evaluateSequential(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.evaluate(Unknown Source) ~[na:1.8.0_45] at java.util.stream.ReferencePipeline.collect(Unknown Source) ~[na:1.8.0_45] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.loadServers(BookmarkUnibrowControlServlet.java:430) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.access$500(BookmarkUnibrowControlServlet.java:74) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet$1.runInBackground(BookmarkUnibrowControlServlet.java:205) ~[na:na] at com.affymetrix.genometry.thread.CThreadWorker.doInBackground(CThreadWorker.java:73) [genometry-8.4.4.jar:na] at javax.swing.SwingWorker$1.call(Unknown Source) [na:1.8.0_45] at java.util.concurrent.FutureTask.run(Unknown Source) [na:1.8.0_45] at javax.swing.SwingWorker.run(Unknown Source) [na:1.8.0_45] at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) [na:1.8.0_45] at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) [na:1.8.0_45] at java.lang.Thread.run(Unknown Source) [na:1.8.0_45] 20:10:35.777 ERROR c.a.i.b.BookmarkUnibrowControlServlet - Error while loading bookmark. java.lang.NullPointerException: null at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.lambda$loadServers$15(BookmarkUnibrowControlServlet.java:425) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet$$Lambda$260/2137190807.apply(Unknown Source) ~[na:na] at java.util.stream.ReferencePipeline$3$1.accept(Unknown Source) ~[na:1.8.0_45] at java.util.Iterator.forEachRemaining(Unknown Source) ~[na:1.8.0_45] at java.util.Spliterators$IteratorSpliterator.forEachRemaining(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.copyInto(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.wrapAndCopyInto(Unknown Source) ~[na:1.8.0_45] at java.util.stream.ReduceOps$ReduceOp.evaluateSequential(Unknown Source) ~[na:1.8.0_45] at java.util.stream.AbstractPipeline.evaluate(Unknown Source) ~[na:1.8.0_45] at java.util.stream.ReferencePipeline.collect(Unknown Source) ~[na:1.8.0_45] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.loadServers(BookmarkUnibrowControlServlet.java:430) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet.access$500(BookmarkUnibrowControlServlet.java:74) ~[na:na] at com.affymetrix.igb.bookmarks.BookmarkUnibrowControlServlet$1.runInBackground(BookmarkUnibrowControlServlet.java:205) ~[na:na] at com.affymetrix.genometry.thread.CThreadWorker.doInBackground(CThreadWorker.java:73) [genometry-8.4.4.jar:na] at javax.swing.SwingWorker$1.call(Unknown Source) [na:1.8.0_45] at java.util.concurrent.FutureTask.run(Unknown Source) [na:1.8.0_45] at javax.swing.SwingWorker.run(Unknown Source) [na:1.8.0_45] at java.util.concurrent.ThreadPoolExecutor.runWorker(Unknown Source) [na:1.8.0_45] at java.util.concurrent.ThreadPoolExecutor$Worker.run(Unknown Source) [na:1.8.0_45] at java.lang.Thread.run(Unknown Source) [na:1.8.0_45]