net.sf.picard.PicardException

Error creating temporary ReadEnds file

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Solutions on the web2

  • via seqanswers.com by Unknown author, 10 months ago
    Error creating temporary ReadEnds file
  • Stack trace

    • net.sf.picard.PicardException: Error creating temporary ReadEnds file at net.sf.picard.sam.DiskReadEndsMap.getOutputStreamForSequence(DiskReadEndsMap.java:175) at net.sf.picard.sam.DiskReadEndsMap.put(DiskReadEndsMap.java:147) at net.sf.picard.sam.MarkDuplicates.buildSortedReadEndLists(MarkDuplicates.java:278) at net.sf.picard.sam.MarkDuplicates.doWork(MarkDuplicates.java:109) at net.sf.picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:160) at net.sf.picard.sam.MarkDuplicates.main(MarkDuplicates.java:93) Caused by: java.io.FileNotFoundException: /media/1B3B8E0F52CC3359/mRNAsnp/DREM.4603601404094682558.tmp/32279.read_ends (Too many open files) at java.io.FileOutputStream.open(Native Method) at java.io.FileOutputStream.<init>(FileOutputStream.java:209) at java.io.FileOutputStream.<init>(FileOutputStream.java:160) at net.sf.picard.sam.DiskReadEndsMap.getOutputStreamForSequence(DiskReadEndsMap.java:170) ... 5 more

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