java.lang.IllegalArgumentException

broadinstitute.org | 7 months ago
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  1. 0

    Release notes for GATK version 3.4 - GATK-Forum

    broadinstitute.org | 2 years ago
    java.lang.IllegalArgumentException
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    GATK | GATK | Blog

    broadinstitute.org | 10 months ago
    java.lang.IllegalArgumentException
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    GATK | GATK | Tagged #code-exception

    broadinstitute.org | 1 year ago
    java.lang.IllegalArgumentException
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  5. 0

    Release notes for GATK version 3.4 - GATK-Forum

    broadinstitute.org | 10 months ago
    java.lang.IllegalArgumentException
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    GATK | GATK | Blog

    broadinstitute.org | 7 months ago
    java.lang.IllegalArgumentException

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    Root Cause Analysis

    1. java.lang.IllegalArgumentException

      No message provided

      at java.nio.ByteBuffer.allocate()
    2. Java RT
      ByteBuffer.allocate
      1. java.nio.ByteBuffer.allocate(ByteBuffer.java:330)
      1 frame
    3. HTS JDK
      IndexedFastaSequenceFile.getSubsequenceAt
      1. htsjdk.samtools.reference.IndexedFastaSequenceFile.getSubsequenceAt(IndexedFastaSequenceFile.java:195)
      1 frame
    4. org.broadinstitute.gatk
      CommandLineGATK.main
      1. org.broadinstitute.gatk.utils.fasta.CachingIndexedFastaSequenceFile.getSubsequenceAt(CachingIndexedFastaSequenceFile.java:329)
      2. org.broadinstitute.gatk.tools.walkers.rnaseq.OverhangFixingManager$Splice.initialize(OverhangFixingManager.java:365)
      3. org.broadinstitute.gatk.tools.walkers.rnaseq.OverhangFixingManager.addSplicePosition(OverhangFixingManager.java:171)
      4. org.broadinstitute.gatk.tools.walkers.rnaseq.SplitNCigarReads.splitReadBasedOnCigar(SplitNCigarReads.java:280)
      5. org.broadinstitute.gatk.tools.walkers.rnaseq.SplitNCigarReads.splitNCigarRead(SplitNCigarReads.java:233)
      6. org.broadinstitute.gatk.tools.walkers.rnaseq.SplitNCigarReads.reduce(SplitNCigarReads.java:210)
      7. org.broadinstitute.gatk.tools.walkers.rnaseq.SplitNCigarReads.reduce(SplitNCigarReads.java:118)
      8. org.broadinstitute.gatk.engine.traversals.TraverseReadsNano$TraverseReadsReduce.apply(TraverseReadsNano.java:251)
      9. org.broadinstitute.gatk.engine.traversals.TraverseReadsNano$TraverseReadsReduce.apply(TraverseReadsNano.java:240)
      10. org.broadinstitute.gatk.utils.nanoScheduler.NanoScheduler.executeSingleThreaded(NanoScheduler.java:279)
      11. org.broadinstitute.gatk.utils.nanoScheduler.NanoScheduler.execute(NanoScheduler.java:245)
      12. org.broadinstitute.gatk.engine.traversals.TraverseReadsNano.traverse(TraverseReadsNano.java:102)
      13. org.broadinstitute.gatk.engine.traversals.TraverseReadsNano.traverse(TraverseReadsNano.java:56)
      14. org.broadinstitute.gatk.engine.executive.LinearMicroScheduler.execute(LinearMicroScheduler.java:108)
      15. org.broadinstitute.gatk.engine.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:315)
      16. org.broadinstitute.gatk.engine.CommandLineExecutable.execute(CommandLineExecutable.java:121)
      17. org.broadinstitute.gatk.utils.commandline.CommandLineProgram.start(CommandLineProgram.java:248)
      18. org.broadinstitute.gatk.utils.commandline.CommandLineProgram.start(CommandLineProgram.java:155)
      19. org.broadinstitute.gatk.engine.CommandLineGATK.main(CommandLineGATK.java:106)
      19 frames