org.apache.commons.math3.exception.NotStrictlyPositiveException: 0 is smaller than, or equal to, the minimum (0)

GitHub | asmirnov239 | 9 months ago
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    AllelicCNV should throw a proper exception when the number of Hets is low

    GitHub | 9 months ago | asmirnov239
    org.apache.commons.math3.exception.NotStrictlyPositiveException: 0 is smaller than, or equal to, the minimum (0)

    Root Cause Analysis

    1. org.apache.commons.math3.exception.NotStrictlyPositiveException

      0 is smaller than, or equal to, the minimum (0)

      at org.apache.commons.math3.linear.AbstractRealMatrix.<init>()
    2. Apache Commons Math
      Array2DRowRealMatrix.<init>
      1. org.apache.commons.math3.linear.AbstractRealMatrix.<init>(AbstractRealMatrix.java:68)
      2. org.apache.commons.math3.linear.Array2DRowRealMatrix.<init>(Array2DRowRealMatrix.java:60)
      2 frames
    3. org.broadinstitute.hellbender
      Main.main
      1. org.broadinstitute.hellbender.tools.exome.SNPSegmenter.writeSegmentFile(SNPSegmenter.java:54)
      2. org.broadinstitute.hellbender.tools.exome.AllelicCNV.calculateAndWriteSNPSegmentation(AllelicCNV.java:370)
      3. org.broadinstitute.hellbender.tools.exome.AllelicCNV.performSNPSegmentationStep(AllelicCNV.java:340)
      4. org.broadinstitute.hellbender.tools.exome.AllelicCNV.runPipeline(AllelicCNV.java:263)
      5. org.broadinstitute.hellbender.engine.spark.SparkCommandLineProgram.doWork(SparkCommandLineProgram.java:38)
      6. org.broadinstitute.hellbender.cmdline.CommandLineProgram.runTool(CommandLineProgram.java:108)
      7. org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMainPostParseArgs(CommandLineProgram.java:166)
      8. org.broadinstitute.hellbender.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:185)
      9. org.broadinstitute.hellbender.Main.instanceMain(Main.java:76)
      10. org.broadinstitute.hellbender.Main.main(Main.java:92)
      10 frames