./biology/biolibc, Low-level high-performance bioinformatics library

[ CVSweb ] [ Homepage ] [ RSS ] [ Required by ] [ Add to tracker ]


Branch: CURRENT, Version: 0.2.3, Package name: biolibc-0.2.3, Maintainer: bacon

Biolibc is a library of fast, memory-efficient, low-level functions for
processing biological data. Like libc, it consists of numerous disparate,
general-purpose functions which could be used by a wide variety of
applications. These include functions for streaming common file formats such
as SAM and VCF, string functions specific to bioinformatics, etc.


Master sites:

Filesize: 136.727 KB

Version history: (Expand)


CVS history: (Expand)


   2022-06-11 21:42:39 by Jason Bacon | Files touched by this commit (4)
Log message:
biology/biolibc: Update to 0.2.3

Expand use of tsv_read_field_malloc() to improve memory efficiency
Add SAM bit flag constants
Import SAM-GFF compare functions from diffanal
Updates for libxtend DSV API changes
Numerous minor bug fixes and enhancements
Changes: https://github.com/auerlab/biolibc/releases
   2022-03-15 22:06:32 by Jason Bacon | Files touched by this commit (4)
Log message:
biology/biolibc: Update to 0.2.2

Numerous bug fixes and enhancements
Serveral new functions
3 new classes
Cleaned up some API slop
Changes: https://github.com/auerlab/biolibc/tags
   2021-12-14 19:58:57 by Jason Bacon | Files touched by this commit (5)
Log message:
biology/biolibc: Update to 0.2.1

Add orf.c with start/stop codon locators
Standardize BED and GFF APIs
Implement VCF input filtering
Eliminate mutator macros mirroring mutator functions
Numerous minor bug fixes and enhancements

Changes: https://github.com/auerlab/biolibc/releases/tag/0.2.1
   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
   2021-09-18 02:42:40 by Jason Bacon | Files touched by this commit (4)
Log message:
biology/biolibc: Update to 0.2.0.11

Regenerate man pages with improved auto-c2man
Improved formatting and added missing return value sections
   2021-06-15 15:47:46 by Jason Bacon | Files touched by this commit (4)
Log message:
biology/biolibc: Update to 0.1.3.2

Add LDFLAGS to allow RELRO
   2021-06-11 19:04:55 by Jason Bacon | Files touched by this commit (4)
Log message:
biology/biolibc: Update to 0.1.3

Import sam_buff_t class and VCF functions from ad2vcf
Add BED and GFF support
Isolate headers under include/biolibc
Numerous small enhancements and fixes

Upstream change log: https://github.com/auerlab/biolibc/releases