java.lang.RuntimeException: BAM file is empty.

Google Groups | Emmanuel Prestat | 4 months ago
  1. 0

    Failed to run (after 15 min) rnaseq

    Google Groups | 4 months ago | Emmanuel Prestat
    java.lang.RuntimeException: BAM file is empty.
  2. 0

    Maybe a bug: Qualimap step does not detect failure

    GitHub | 2 years ago | biocyberman
    java.lang.RuntimeException: BED format error, there should be at least 6 fields. Problematic line is 1 65509 65625 -
  3. 0

    Qualimap counts error!

    Google Groups | 3 years ago | Hoyoung Ghang
    java.lang.RuntimeException: The process returned non-zero status!
  4. Speed up your debug routine!

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  5. 0

    one question about RNA-seq QC

    Google Groups | 3 years ago | Harold
    java.lang.RuntimeException: The process returned non-zero status!
  6. 0

    Qualimap counts error!

    Google Groups | 3 years ago | Hoyoung Ghang
    java.lang.RuntimeException: The process returned non-zero status!

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    Root Cause Analysis

    1. java.lang.RuntimeException

      BAM file is empty.

      at org.bioinfo.ngs.qc.qualimap.process.ComputeCountsTask.run()
    2. org.bioinfo.ngs
      NgsSmartMain.main
      1. org.bioinfo.ngs.qc.qualimap.process.ComputeCountsTask.run(ComputeCountsTask.java:493)
      2. org.bioinfo.ngs.qc.qualimap.process.RNASeqQCAnalysis.run(RNASeqQCAnalysis.java:68)
      3. org.bioinfo.ngs.qc.qualimap.main.RnaSeqQcTool.execute(RnaSeqQcTool.java:188)
      4. org.bioinfo.ngs.qc.qualimap.main.NgsSmartTool.run(NgsSmartTool.java:187)
      5. org.bioinfo.ngs.qc.qualimap.main.NgsSmartMain.main(NgsSmartMain.java:111)
      5 frames