java.lang.OutOfMemoryError: Java heap space

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  • GitHub comment 31#288356879
    via GitHub by thangaroja
    ,
  • Java Heap Space Error due to add function
    via by Amlan Karmakar,
  • Wallet size = 0 bytes - bug
    via GitHub by Elendilll
    ,
    • java.lang.OutOfMemoryError: Java heap space at java.util.Arrays.copyOf(Unknown Source) at java.util.ArrayList.grow(Unknown Source) at java.util.ArrayList.ensureExplicitCapacity(Unknown Source) at java.util.ArrayList.ensureCapacityInternal(Unknown Source) at java.util.ArrayList.add(Unknown Source) at org.broad.tribble.index.linear.LinearIndex$ChrIndex.addBlock(LinearIndex.java:161) at org.broad.tribble.index.linear.LinearIndexCreator.addFeature(LinearIndexCreator.java:46) at org.broad.tribble.index.DynamicIndexCreator.addFeature(DynamicIndexCreator.java:159) at org.broad.tribble.index.IndexFactory.createIndex(IndexFactory.java:136) at org.broad.tribble.index.IndexFactory.createIndex(IndexFactory.java:123) at org.broadinstitute.sting.gatk.refdata.tracks.RMDTrackBuilder.createIndexInMemory(RMDTrackBuilder.java:361) at org.broadinstitute.sting.gatk.refdata.tracks.RMDTrackBuilder.loadIndex(RMDTrackBuilder.java:258) at org.broadinstitute.sting.gatk.refdata.tracks.RMDTrackBuilder.getFeatureSource(RMDTrackBuilder.java:199) at org.broadinstitute.sting.gatk.refdata.tracks.RMDTrackBuilder.createInstanceOfTrack(RMDTrackBuilder.java:128) at org.broadinstitute.sting.gatk.datasources.rmd.ReferenceOrderedQueryDataPool.<init>(ReferenceOrderedDataSource.java:205) at org.broadinstitute.sting.gatk.datasources.rmd.ReferenceOrderedDataSource.<init>(ReferenceOrderedDataSource.java:85) at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.getReferenceOrderedDataSources(GenomeAnalysisEngine.java:783) at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.initializeDataSources(GenomeAnalysisEngine.java:653) at org.broadinstitute.sting.gatk.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:212) at org.broadinstitute.sting.gatk.CommandLineExecutable.execute(CommandLineExecutable.java:122) at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:236) at org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:146) at org.broadinstitute.sting.gatk.CommandLineGATK.main(CommandLineGATK.java:90)

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