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Commits on Apr 15, 2019

• Improve error messages. Resolves samtools#951 and samtools#925

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Commits on Apr 5, 2019

• docs: Explain better the view --trim-alt-alleles option. Resolves samtools#995

  pd3

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Commits on Jan 21, 2019

• Fix warnings due to function attributes added in htslib

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  daviesrob

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Commits on Jul 19, 2018

• Check return status of all *write() and *close() calls

  pd3

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Commits on Jul 11, 2018

• Fixed buffer overrun.

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  jkbonfield

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  daviesrob

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Commits on Feb 7, 2018

• Update copyright years

  pd3

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Commits on Jan 8, 2018

• Do not add AN=0 to lines without FMT/GT. Resolves samtools#399

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Commits on Apr 13, 2017

• Add support for breakends to view, norm, query and filtering

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  pd3

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Commits on Apr 6, 2017

• Exit with proper error status. Resolves samtools#588

  pd3

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Commits on Apr 5, 2017

• Tidy upsfor C99 / _XOPEN_SOURCE=700 compliance.

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  jkbonfield

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Commits on Mar 20, 2017

• Allow querying of min/max AC/AF equal to zero

  pd3

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Commits on Jan 13, 2017

• view: update trimming error check after samtools/htslib#453

  mcshane

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Commits on Nov 1, 2016

• Added multi-threading for reads on annotate, index, merge, roh and view.

  

  jkbonfield

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  pd3

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Commits on Jan 21, 2016

• add --no-version option to suppress appending of version and command line to output headers

  mcshane

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Commits on Dec 10, 2015

• add --threads option for output compression threads

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  mcshane

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  jmarshall

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Commits on Nov 10, 2015

• Fix error message segfault [minor]

  jmarshall

  committed
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Commits on Jul 6, 2015

• Implements "bcftools view -G removes all format header lines"

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  winni2k

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  mcshane

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Commits on Apr 2, 2015

• clear warnings about too many arguments

  mcshane

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• Merge pull request samtools#210 from tommycarstensen/patch-2

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  mcshane

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Commits on Feb 20, 2015

• -g miss and -g ^miss options not in error message

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  Tommy Carstensen

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Commits on Feb 10, 2015

• Printing accepted types when invalid type is given

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  Tommy Carstensen

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Commits on Jan 16, 2015

• Replaced ato[if] with strto[lf] to recognise user errors

  pd3

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Commits on Dec 9, 2014

• view: Major/nonmajor allele count filters

  

  travc

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Commits on Nov 17, 2014

• Check return status of bcf_hdr_subset

  pd3

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Commits on Oct 21, 2014

• Do not use 0x80 & co for missing alleles

  pd3

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Commits on Oct 20, 2014

• use new htslib file type detection and error reporting API

  pd3

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Commits on Aug 15, 2014

• man page: Resolved merge conflict

  pd3

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Commits on Aug 14, 2014

• Canonicalise whitespace -- USE -b/-w TO DIFF/BLAME ACROSS THIS COMMIT

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  jmarshall

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• Merge copyright notice and licensing boilerplate corrections

  jmarshall

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Commits on Aug 13, 2014

• Reformat license text

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  jmarshall

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Commits on Aug 11, 2014

• Improved filtering via -i/-e

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  pd3

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• documentation update

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  mcshane

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• Write out description and author in each source file header

  jmarshall

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Commits on Jul 9, 2014

• view: add sample exclusion

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  mcshane

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Commits on Jun 18, 2014

• view --trim-alt-alleles: Check return status of bcf_trim_alleles

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