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Commits on May 26, 2021

• ax_with_htslib.m4: Support separate HTSlib build directory

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Commits on Feb 10, 2021

• Fix typo so MinGW users' $CPPFLAGS aren't ignored

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Commits on Feb 4, 2021

• Update Makefile dependencies; include <strings.h> directly where needed

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Commits on Feb 3, 2021

• Reformat NEWS to be legible on an 80-column terminal

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Commits on Nov 30, 2020

• merge_format_string: Enlarge array for BCF_VL_A/BCF_VL_R too

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Commits on Nov 24, 2020

• Include <strings.h> directly where needed

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Commits on Nov 21, 2020

• Remove generated test/*.fa.fai files

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Commits on Nov 20, 2020

• Various user-visible typo fixes

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Commits on Sep 16, 2020

• Install misc/gff2gff.py and fix its #! to use python3

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• Reformat NEWS to be legible on an 80-column terminal

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Commits on Jul 23, 2020

• Rename bam_mpileup() to avoid clash with samtools's equivalent

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Commits on Jun 17, 2020

• Fix Makefile dependencies for new gtcheck code

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Commits on Jun 5, 2020

• Fix convert bug and avoid other new Clang warnings

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Commits on Apr 21, 2020

• Fix Illumos build: don't use -pthread, other miscellanea

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• Don't add hard-coded -ldl if configure was used

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• Find bash via $PATH rather than hard-coding /bin/bash

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Commits on Feb 20, 2020

• Spelling corrections [minor]

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• Use #include <assert.h> in source files that use assert()

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Commits on Nov 26, 2019

• Add calloc()/etc casts to suppress -Wc++-compat warnings

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Commits on Nov 25, 2019

• Reformat NEWS to be legible on an 80-column terminal

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Commits on Nov 6, 2019

• Fix configure --with-bcf-plugin-path

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Commits on Nov 5, 2019

• Update print statements to be both Python 2 and 3 compatible

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Commits on Sep 20, 2019

• Check that a filename has been provided [minor]

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• Fix Makefile dependencies

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Commits on Jul 31, 2019

• Avoid non-portable uname -o option and only invoke uname once

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• Add vcfsort error message; suppress various compiler warnings

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Commits on Sep 13, 2018

• Silence warnings [minor]

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Commits on Jul 18, 2018

• Use utility function to clamp lookup table index

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Commits on Jul 6, 2018

• Add missing Makefile dependencies

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Commits on Jun 27, 2018

• Use bgzf_open() to read FASTA file

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Commits on Dec 14, 2016

• Fix warnings due to newly-const tbx_conf_* presets

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Commits on Jul 25, 2016

• Fix typo

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Commits on May 27, 2016

• Avoid segfault when QUAL < 0

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Commits on May 24, 2016

• Merge concat --naive for vcf.gz file (PR samtools#418)

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• Fix test_cmd(exp=>"expected") when test fails

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