./biology/bcftools, Tools for manipulating BCF and VCF variant call files

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Branch: CURRENT, Version: 1.12nb1, Package name: bcftools-1.12nb1, Maintainer: bacon

BCFtools is a set of utilities that manipulate variant calls in the
Variant Call Format (VCF) and its binary counterpart BCF. All
commands work transparently with both VCFs and BCFs, both
uncompressed and BGZF-compressed.


Required to run:
[biology/htslib] [lang/python37]

Required to build:
[pkgtools/cwrappers]

Master sites:

Filesize: 2977.059 KB

Version history: (Expand)


CVS history: (Expand)


   2021-10-26 12:03:45 by Nia Alarie | Files touched by this commit (73)
Log message:
biology: Replace RMD160 checksums with BLAKE2s checksums

All checksums have been double-checked against existing RMD160 and
SHA512 hashes
   2021-10-07 15:19:44 by Nia Alarie | Files touched by this commit (73)
Log message:
biology: Remove SHA1 hashes for distfiles
   2021-05-24 21:56:06 by Thomas Klausner | Files touched by this commit (3575)
Log message:
*: recursive bump for perl 5.34
   2021-03-20 19:17:08 by Jason Bacon | Files touched by this commit (16)
Log message:
biology/htslib: Update to 1.12
biology/bcftools: Update to 1.12
biology/samtools: Update to 1.12

Numerous enhancements, performance improvements, and bug fixes since 1.10
Minimized pkgsrc patches in all three packages
Moved htslib to custom tarball since Github-generated distfiles are incomplete
   2020-12-04 21:45:51 by Nia Alarie | Files touched by this commit (456)
Log message:
Revbump packages with a runtime Python dep but no version prefix.

For the Python 3.8 default switch.
   2020-08-31 20:13:29 by Thomas Klausner | Files touched by this commit (3631)
Log message:
*: bump PKGREVISION for perl-5.32.
   2020-07-27 02:29:04 by Jason Bacon | Files touched by this commit (6)
Log message:
biology/bcftools: Upgrade to 1.10.2

Numerous bug fixes, usability improvements and sanity checks were added since
1.9 to prevent common user errors.
   2020-01-19 00:36:14 by Roland Illig | Files touched by this commit (3046)
Log message:
all: migrate several HOMEPAGEs to https

pkglint --only "https instead of http" -r -F

With manual adjustments afterwards since pkglint 19.4.4 fixed a few
indentations in unrelated lines.

This mainly affects projects hosted at SourceForce, as well as
freedesktop.org, CTAN and GNU.