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Commits on Mar 25, 2015
  1. r82: "gc" command line help

    authored
Commits on Feb 26, 2015
  1. r77: added rename

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Commits on Feb 24, 2015
  1. Merge pull request #52 from zachcp/patch-1

    authored
    commad -> command
  2. @zachcp

    commad -> command

    zachcp authored
    great software. small typo.
Commits on Jan 27, 2015
Commits on Nov 13, 2014
  1. r75: updated to the latest kseq.h

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Commits on Nov 10, 2014
  1. bug in kseq.h (seqtk is still correct regardless)

    authored
    The bug occurs when kseq.h is used with the read() system call, which does not
    guarantee to fill the buffer even more data are coming. Seqtk is not affected
    as it uses gzread() which in turn uses fread().
Commits on Nov 2, 2014
  1. r72: default to high/low quality

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Commits on Oct 27, 2014
  1. r71: change P_err to Q

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Commits on Oct 26, 2014
  1. r70: added fqchk: fastq QC

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Commits on Sep 13, 2014
  1. removed tabtk

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  2. moved tabtk to a separate repo

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Commits on Aug 22, 2014
  1. r67: 2-pass sampling for low RAM

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Commits on Aug 21, 2014
  1. r65: cutN supports fastq output

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Commits on Jul 30, 2014
  1. r64: mask by max qual

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Commits on Jun 25, 2014
  1. bugfix: another %0 bug

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  2. bugfix: %0 may happen

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Commits on Jun 11, 2014
  1. change the way stdin is read

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    When a program is submitted via bsub etc., isatty(fileno(stdin))
    is always false. The old seqtk will attempt to read from stdin
    which is empty. This commit ignores stdin if a file is provided.
Commits on Jun 5, 2014
  1. debugging to stderr!!!

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Commits on Jun 4, 2014
  1. trimming adapters

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Commits on May 24, 2014
  1. r55: merge PE fasta/qr55: merge PE fasta/qr55: merge PE fasta/qr55: m…

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    …erge PE fasta/qr55: merge PE fasta/q
Commits on Apr 2, 2014
  1. tabtk: output %95 CI

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Commits on Mar 4, 2014
  1. Merge pull request #30 from bwlang/master

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    Only test for successful buffer allocation if a buffer needs to be allocated
Commits on Mar 3, 2014
  1. @bwlang

    Only test for successful buffer allocation if a buffer needs to be al…

    bwlang authored
    …located
    
    No buffer is allocated when using fractions of original reads (instead of a targeted number of reads), so the alloc always fails when using fractions.   
    
    Not sure if you'll want check before free at the bottom... I don't think it is needed, just for clarity/future.
Commits on Feb 5, 2014
  1. Merge pull request #24 from kdmurray91/fixsigsegv

    authored
    fix segfault in seqtk sample with large N
  2. @kdmurray91
  3. @kdmurray91

    fix segfault in seqtk sample with large N

    kdmurray91 authored
    If the <number> given to seqtk sample is too large,
        calloc(num, sizeof(kseq_t);
    will fail, leading to a segfault in cpy_kseq, where buf (which is ==
    NULL) is dereferenced.
    
    This fixes this.
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