java.lang.IllegalArgumentException: Comparison method violates its general contract!

broadinstitute.org | 3 months ago
  1. 0

    Comparison method violates its general contract! - GATK-Forum

    broadinstitute.org | 11 months ago
    java.lang.IllegalArgumentException: Comparison method violates its general contract!
  2. 0

    Comparison method violates its general contract! - GATK-Forum

    broadinstitute.org | 5 months ago
    java.lang.IllegalArgumentException: Comparison method violates its general contract!
  3. 0

    Comparison method violates its general contract! — GATK-Forum

    broadinstitute.org | 3 months ago
    java.lang.IllegalArgumentException: Comparison method violates its general contract!
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    Convert libs repo to Java 7

    GitHub | 3 years ago | jtesser
    java.lang.IllegalArgumentException: Comparison method violates its general contract!

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    Root Cause Analysis

    1. java.lang.IllegalArgumentException

      Comparison method violates its general contract!

      at java.util.TimSort.mergeLo()
    2. Java RT
      Collections.sort
      1. java.util.TimSort.mergeLo(TimSort.java:747)
      2. java.util.TimSort.mergeAt(TimSort.java:483)
      3. java.util.TimSort.mergeCollapse(TimSort.java:410)
      4. java.util.TimSort.sort(TimSort.java:214)
      5. java.util.TimSort.sort(TimSort.java:173)
      6. java.util.Arrays.sort(Arrays.java:659)
      7. java.util.Collections.sort(Collections.java:217)
      7 frames
    3. org.broadinstitute.cga
      MuTectWalker.map
      1. org.broadinstitute.cga.tools.gatk.walkers.cancer.mutect.MuTectWalker.map(MuTectWalker.java:664)
      2. org.broadinstitute.cga.tools.gatk.walkers.cancer.mutect.MuTectWalker.map(MuTectWalker.java:34)
      2 frames
    4. org.broadinstitute.sting
      CommandLineGATK.main
      1. org.broadinstitute.sting.gatk.traversals.TraverseLoci.traverse(TraverseLoci.java:77)
      2. org.broadinstitute.sting.gatk.traversals.TraverseLoci.traverse(TraverseLoci.java:18)
      3. org.broadinstitute.sting.gatk.executive.LinearMicroScheduler.execute(LinearMicroScheduler.java:61)
      4. org.broadinstitute.sting.gatk.GenomeAnalysisEngine.execute(GenomeAnalysisEngine.java:225)
      5. org.broadinstitute.sting.gatk.CommandLineExecutable.execute(CommandLineExecutable.java:104)
      6. org.broadinstitute.sting.commandline.CommandLineProgram.start(CommandLineProgram.java:227)
      7. org.broadinstitute.sting.gatk.CommandLineGATK.main(CommandLineGATK.java:89)
      7 frames