java.lang.Exception

ERROR ERROR ERROR: Reached end of bam file, there are 22763461 orphaned reads, which are marked as having a mapped pair, but no corresponding pair is found in the bam file. (Example Orphaned Read Name: D00118:263:C89KTANXX:4:1209:7544:95127)

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Solutions on the web5958

  • via GitHub by royfrancis
    , 9 months ago
    ERROR ERROR ERROR: Reached end of bam file, there are 22763461 orphaned reads, which are marked as having a mapped pair, but no corresponding pair is found in the bam file. (Example Orphaned Read Name: D00118:263:C89KTANXX:4:1209:7544:95127)
  • via GitHub by hartleys
    , 10 months ago
    ERROR ERROR ERROR: Reached end of bam file, there are 22763461 orphaned reads, which are marked as having a mapped pair, but no corresponding pair is found in the bam file. (Example Orphaned Read Name: D00118:263:C89KTANXX:4:1209:7544:95127)
  • via blogspot.com by Unknown author, 1 year ago
    Google returned the following error: [400] invalid translation language pair
  • Stack trace

    • java.lang.Exception: ERROR ERROR ERROR: Reached end of bam file, there are 22763461 orphaned reads, which are marked as having a mapped pair, but no corresponding pair is found in the bam file. (Example Orphaned Read Name: D00118:263:C89KTANXX:4:1209:7544:95127) at internalUtils.Reporter$.error(Reporter.scala:269) at internalUtils.commonSeqUtils$$anon$2.next(commonSeqUtils.scala:728) at internalUtils.commonSeqUtils$$anon$2.next(commonSeqUtils.scala:699) at internalUtils.stdUtils$IteratorProgressReporter$$anon$4.next(stdUtils.scala:302) at scala.collection.Iterator$class.foreach(Iterator.scala:743) at internalUtils.stdUtils$IteratorProgressReporter$$anon$4.foreach(stdUtils.scala:296) at qcUtils.runAllQC$.runOnSeqFile(runAllQC.scala:1055) at qcUtils.runAllQC$.run(runAllQC.scala:774) at qcUtils.runAllQC$allQC_runner.run(runAllQC.scala:502) at runner.runner$.main(runner.scala:92) at runner.runner.main(runner.scala)

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