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Commits on Jun 28, 2021

• Summer 2021 release copyright updates.

  

  whitwham

  authored and

  daviesrob

  committed
  ce9b492

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Commits on Apr 28, 2021

• Stop samtools cat from outputting multiple CRAM EOF markers.

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  jkbonfield

  authored and

  valeriuo

  committed
  1ea60ad

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Commits on Nov 9, 2020

• Fix the short option for the number of threads used by cat.

  valeriuo

  committed
  1e32ab3

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Commits on Nov 12, 2019

• Updates copyright message for 2019.

  Show description for 72d140b
  

  whitwham

  authored and

  daviesrob

  committed
  72d140b

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Commits on Oct 16, 2019

• Add --verbosity INT global option for setting hts_verbose

  Show description for f9e1caf
  

  jmarshall

  authored and

  jkbonfield

  committed
  f9e1caf

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Commits on Aug 20, 2019

• Add a PG line when producing a new file.

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  valeriuo

  authored and

  daviesrob

  committed
  7eb338f

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Commits on Aug 19, 2019

• Remove the use of `header.l_text` (part 2).

  

  valeriuo

  authored and

  daviesrob

  committed
  413d178

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• Added --output-fmt-option and --output-fmt

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  jenniferliddle

  authored and

  daviesrob

  committed
  db4f419

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• Change `bam_hdr*` to `sam_hdr*`, with the exception of `bam_hdr_read` and `bam_hdr_write`.

  

  valeriuo

  authored and

  daviesrob

  committed
  8a52b07

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• Switch to new header API.

  

  valeriuo

  authored and

  daviesrob

  committed
  b44ffdf

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Commits on Jun 22, 2018

• Fix samtools cat error message.

  Show description for cd71974
  jkbonfield

  committed
  cd71974

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Commits on Apr 7, 2017

• Improvements for C99/XOPEN compliance.

  Show description for 1129520
  jkbonfield

  committed
  1129520

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Commits on Mar 22, 2017

• Add "-b <bam.fofn>" flag to samtools cat.

  Show description for f5120be
  

  amwenger

  authored and

  jkbonfield

  committed
  f5120be

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Commits on Apr 14, 2016

• Merge error checking improvements (PR #467)

  Show description for f6db782
  jmarshall

  committed
  f6db782

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• Various tidying up and segfault fixes

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  jmarshall

  committed
  1152881

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Commits on Apr 13, 2016

• Use print_error_errno() where appropriate

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  jmarshall

  committed
  24d3235

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Commits on Mar 8, 2016

• Fix warnings from adding HTS_RESULT_USED to htslib prototypes.

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  daviesrob

  authored and

  jmarshall

  committed
  de96bfb

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Commits on Jan 28, 2016

• Add #include <config.h> to all *.c source files [minor]

  Show description for 74a3e0a
  jmarshall

  committed
  74a3e0a

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Commits on Aug 17, 2015

• Merge samtools cat for CRAM files (PR #420, #451)

  Show description for 08df3db
  jmarshall

  committed
  08df3db

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• Use hts_get_format() accessor function

  jmarshall

  committed
  7ba7dc3

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• Fixed samtools cat crash when given invalid filenames.

  

  jkbonfield

  authored and

  jmarshall

  committed
  8a7a1e7

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• Made samtools cat work, when possible, with CRAM files.

  Show description for 49ed754
  

  jkbonfield

  authored and

  jmarshall

  committed
  49ed754

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Commits on Jun 10, 2015

• Add checks for bam_hdr_read and sam_hdr_read returning NULL.

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  daviesrob

  committed
  8a0914e

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Commits on Aug 1, 2014

• Update copyright years and reformat licensing boilerplate

  jmarshall

  committed
  3ff81ed

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Commits on Nov 21, 2013

• Fix CRLF-style line termination

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  jmarshall

  committed
  256e657

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Commits on Sep 16, 2013

• Updates for recent htslib changes (9dfcc31)

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  jmarshall

  committed
  36a7193

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Commits on Jun 21, 2013

• Use all-bgzf_*() functions instead of a mixture

  jmarshall

  committed
  3932621

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Commits on Jun 17, 2013

• Use htslib's bgzf.h, faidx.h, and razf.h

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  jmarshall

  committed
  d69046f

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• Use htslib's klib instead of our own

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  jmarshall

  committed
  d8d6fb9

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Commits on Mar 18, 2012

• updated with the latest bgzf library

  lh3

  committed
  4e0a2f8

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Commits on Mar 18, 2011

• forget to add this file

  

  Heng Li

  committed
  082f868

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