net.sf.picard.PicardException: Invalid interval record contains 4 fields: chr1 133573 133692 chr1:133573-133692

biostars.org | 8 months ago
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  1. 0

    error in samfile header

    biostars.org | 8 months ago
    net.sf.picard.PicardException: Invalid interval record contains 4 fields: chr1 133573 133692 chr1:133573-133692

    Root Cause Analysis

    1. net.sf.picard.PicardException

      Invalid interval record contains 4 fields: chr1 133573 133692 chr1:133573-133692

      at net.sf.picard.util.IntervalList.fromReader()
    2. picard
      CalculateHsMetrics.main
      1. net.sf.picard.util.IntervalList.fromReader(IntervalList.java:192)
      2. net.sf.picard.util.IntervalList.fromFile(IntervalList.java:152)
      3. net.sf.picard.analysis.directed.HsMetricsCalculator.<init>(HsMetricsCalculator.java:83)
      4. net.sf.picard.analysis.directed.CalculateHsMetrics.doWork(CalculateHsMetrics.java:83)
      5. net.sf.picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:158)
      6. net.sf.picard.analysis.directed.CalculateHsMetrics.main(CalculateHsMetrics.java:68)
      6 frames