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Commits on Sep 13, 2023

• Add the number of merged lines to the summary output

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Commits on Sep 6, 2023

• Silly error left vcmp uninitialized. Fixes #1990

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Commits on Sep 5, 2023

• Add new `-F, --print-filtered` option and include sample names in the header

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• Fix `bcftools annotate --mark-sites`

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Commits on Aug 28, 2023

• Prevent multiple -w options, clarify documentation

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Commits on Aug 23, 2023

• [docs] add section on terminology. Resolves #1982

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Commits on Aug 21, 2023

• Fix grammar in bcftools gtcheck help

  

  ghuls

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• Filtering expressions can be given a file with list of strings to match

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Commits on Aug 3, 2023

• Add --disable-automatic-newline option; Improve automatic behavior

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• Stop make check from running tests twice

  

  daviesrob

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• Print uint32_t values via PRIu32 rather than %d [minor]

  

  jmarshall

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• Fix Makefile dependencies

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• Move includes needed by gff.c (not by gff.h) to gff.c

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Commits on Jul 25, 2023

• Merge version number bump and NEWS file from master

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• Release 1.18

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Commits on Jul 20, 2023

• Change debugging aln_win from 1 back to 100. Should not affect results, only performance

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• Merge branch 'htslib-1620' into develop

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• Fix a memory leak

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• Resolve test.pl merge conflict

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• Add new `-g, --gff-annot` option

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Commits on Jul 15, 2023

• Refactor csq code to provide a mini library for GFF parsing

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Commits on Jul 12, 2023

• Fix a bug when update of INFO/END results in assertion error

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Commits on Jul 11, 2023

• Make `reheader --fai` aware of long contigs

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Commits on Jun 29, 2023

• The --gene-list option can be used for any field

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Commits on Jun 22, 2023

• Fix missed VCF regions

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Commits on Jun 21, 2023

• Merge branch 'develop' of github.com:samtools/bcftools into develop

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• Clarify the XXXXXX template convention of mkdtemp

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Commits on Jun 16, 2023

• Merge pull request #1942 from tecnickcom/develop

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Commits on Jun 15, 2023

• Add expected failure test

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Commits on Jun 10, 2023

• Fix license

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• Update variantkey with upstream changes

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Commits on Jun 5, 2023

• Test case for htslib/1620 and htslib/1630

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Commits on Jun 2, 2023

• Add stats for the number of sites matched in the GT-vs-GT, GT-vs-PL, etc modes.

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Commits on May 31, 2023

• Fix a bug in --indels-v2.0

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Commits on May 30, 2023

• Update documentation

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