htsjdk.samtools.util.RuntimeIOException: /dev/stdout (Permission denied)

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via GitHub by nh13
, 1 year ago
/dev/stdout (Permission denied)
via GitHub by nh13
, 1 year ago
/dev/stdout (Permission denied)
htsjdk.samtools.util.RuntimeIOException: /dev/stdout (Permission denied)
at java.io.RandomAccessFile.open0(Native Method)
at java.io.RandomAccessFile.open(RandomAccessFile.java:316)
at java.io.RandomAccessFile.(RandomAccessFile.java:243)
at htsjdk.samtools.util.BlockCompressedInputStream.checkTermination(BlockCompressedInputStream.java:471)
at htsjdk.samtools.util.BlockCompressedOutputStream.close(BlockCompressedOutputStream.java:286)
at java.io.FilterOutputStream.close(FilterOutputStream.java:159)
at htsjdk.samtools.util.BinaryCodec.close(BinaryCodec.java:606)
at htsjdk.samtools.BAMFileWriter.finish(BAMFileWriter.java:143)
at htsjdk.samtools.SAMFileWriterImpl.close(SAMFileWriterImpl.java:219)
at picard.sam.FastqToSam.doWork(FastqToSam.java:290)
at picard.cmdline.CommandLineProgram.instanceMain(CommandLineProgram.java:208)
at picard.cmdline.PicardCommandLine.instanceMain(PicardCommandLine.java:95)
at picard.cmdline.PicardCommandLine.main(PicardCommandLine.java:105)

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