net.sf.samtools.FileTruncatedException

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  • SAM tools / Mailing Lists
    via by Unknown author,
  • GitHub comment 16#224552533
    via GitHub by royfrancis
    ,
    • net.sf.samtools.FileTruncatedException: Premature end of file at net.sf.samtools.util.BlockCompressedInputStream.readBlock(BlockCompressedInputStream.java:290) at net.sf.samtools.util.BlockCompressedInputStream.available(BlockCompressedInputStream.java:100) at net.sf.samtools.util.BlockCompressedInputStream.read(BlockCompressedInputStream.java:169) at java.io.DataInputStream.read(DataInputStream.java:132) at net.sf.samtools.util.BinaryCodec.readBytesOrFewer(BinaryCodec.java:394) at net.sf.samtools.util.BinaryCodec.readBytes(BinaryCodec.java:371) at net.sf.samtools.util.BinaryCodec.readBytes(BinaryCodec.java:357) at net.sf.samtools.BAMRecordCodec.decode(BAMRecordCodec.java:182) at net.sf.samtools.BAMFileReader$BAMFileIterator.getNextRecord(BAMFileReader.java:397) at net.sf.samtools.BAMFileReader$BAMFileIterator.advance(BAMFileReader.java:373) at net.sf.samtools.BAMFileReader$BAMFileIterator.next(BAMFileReader.java:363) at net.sf.samtools.BAMFileReader$BAMFileIterator.next(BAMFileReader.java:330) at net.sf.picard.sam.MarkDuplicates.buildSortedReadEndLists(MarkDuplicates.java:261) at net.sf.picard.sam.MarkDuplicates.doWork(MarkDuplicates.java:112) at net.sf.picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:150) at net.sf.picard.sam.MarkDuplicates.main(MarkDuplicates.java:96)
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