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Commits on Mar 3, 2022

• Document supported consequence types. Resolves samtools#1671

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Commits on Mar 1, 2022

• Check for non-ACGTN REF allele when atomizing,

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Commits on Feb 21, 2022

• Merge version number bump and NEWS file from master

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• Release 1.15

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Commits on Feb 18, 2022

• Merge pull request samtools#1663 from whitwham/install_updates

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• CentOS, Alpine Linux and Windows additions.

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• Merge pull request samtools#1662 from whitwham/main_2022_copyright

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• Merge pull request samtools#1660 from jmarshall/overlap-options

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Commits on Feb 17, 2022

• Updated the version year to 2022.

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• Add --regions/--targets-overlap pos|record|variant mnemonic options

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Commits on Feb 15, 2022

• Use unsigned PRIu64 where appropriate

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Commits on Feb 14, 2022

• New -m flip-all mode and support for arbitrary ids

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• Update to 64bit integers, fixes samtools#978

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• Add test for samtools#1598

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Commits on Feb 9, 2022

• Document missing option

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Commits on Feb 1, 2022

• Merge pull request samtools#1650 from daviesrob/rocky

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Commits on Jan 31, 2022

• Replace CentOS test build with Rocky Linux

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

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• Support for transfering ALT from VCF

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• Merge pull request samtools#1649 from jmarshall/deps+testfiles

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• Fix Makefile dependencies; correct VCF data files [minor]

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• Fix an API error, see samtools#1647 for discussion

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Commits on Jan 28, 2022

• Add new option --min-overlap to bcftools annotate

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

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Commits on Jan 25, 2022

• Fix header line formatting

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Commits on Jan 24, 2022

• Make use of TMPDIR environment variable. Resolves samtools#1642

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Commits on Jan 18, 2022

• Don't add a new Filter in the header when not needed

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Commits on Jan 17, 2022

• New --mask, --mask-file and --mask-overlap options

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• Merge branch 'filters' into develop

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• Merge develop

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• More flexible read filtering

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Commits on Jan 14, 2022

• Add support for ID~"regex" and ID!~"regex". Resolves samtools#1640

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Commits on Jan 7, 2022

• Merge pull request samtools#1636 from daviesrob/appveyor_autotools

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• Check the return status of hts_readlist and warn about non-existent files

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• Fix missing autotools on Appveyor

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