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sci-biology/bwa

Burrows-Wheeler Alignment Tool, a fast short genomic sequence aligner

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ChangeLog

commit 307a9995cc3b29bd9726ad7ade53132c7c08f7fa
Author: Justin Lecher <jlec@gentoo.org>
Date: Sat Oct 27 21:03:05 2018 +0100

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Signed-off-by: Justin Lecher <jlec@gentoo.org>

commit aef6b7cc29677f3720adb39bebdc124ab6f64aa7
Author: Justin Lecher <jlec@gentoo.org>
Date: Sat Oct 27 20:45:04 2018 +0100

Sort keywords

Signed-off-by: Justin Lecher <jlec@gentoo.org>

commit cec8859662ffa14fd17eeb93abd6e9aeb0a088a6
Author: Martin Mokrejs <mmokrejs@fold.natur.cuni.cz>
Date: Sun Jun 24 10:28:22 2018 +0200

sci-biology/bwa: version bump

Also fix HOMEPAGE which does not listen on https (anymore?)

Package-Manager: Portage-2.3.40, Repoman-2.3.9

commit 7f516dcc0ff31783264d5aa43b598564d6dd5d1a
Author: David Seifert <soap@gentoo.org>
Date: Sat Sep 2 10:11:47 2017 +0200

sci-biology/bwa: Latest in main tree

commit ca813e4a288c12c2fee6734cd97c73e86e129920
Author: Martin Mokrejš <mmokrejs@fold.natur.cuni.cz>
Date: Mon Jul 31 13:25:53 2017 +0200

sci-biology/bwa: version bump

Release 0.7.16 (30 July 2017)
-----------------------------

This release added a couple of minor features and incorporated multiple pull
requests, including:

* Added option -5, which is useful to some Hi-C pipelines.

* Fixed an error with samtools sorting (#129). Updated download link for
GRCh38 (#123). Fixed README MarkDown formatting (#70). Addressed multiple
issues via a collected pull request #139 by @jmarshall. Avoid malformatted
SAM header when -R is used with TAB (#84). Output mate CIGAR (#138).

This release is expected to give the same alignment as 0.7.15, except the added
mate-cigar tag.

(0.7.16: 30 July 2017, r1180)

https://lists.sourceforge.net/lists/listinfo/bio-bwa-help

Package-Manager: Portage-2.3.6, Repoman-2.3.3

commit 1af3cb1d79a54e814b222cb56e4de3630136b828
Author: David Seifert <soap@gentoo.org>
Date: Sun May 8 01:20:43 2016 +0200

sci-biology/bwa: move to main tree

commit 71c08006931ce9a56edaa201c603d40933498021
Author: Martin Mokrejš <mmokrejs@fold.natur.cuni.cz>
Date: Sun Feb 28 21:04:03 2016 +0100

sci-biology/bwa: version bump; added a note about a brach of bwa-0.7.13 which has alternative Apache2 license

Package-Manager: portage-2.2.26

commit de8eb4ef90bedc116258edad0d769d7469dbc28c
Author: Justin Lecher <jlec@gentoo.org>
Date: Tue Mar 3 16:16:58 2015 +0100

IMport to CVS

Signed-off-by: Justin Lecher <jlec@gentoo.org>

commit 0e022df74f7743c179892b2d68d693ac4031c880
Author: Ted Tanberry <ted.tanberry@gmail.com>
Date: Fri Feb 6 09:59:48 2015 +0100

Amended bwa ebuild to remove base.eclass

commit b4649db619f8514efb9377422de3ea42154b3a80
Author: Ted Tanberry <ted.tanberry@gmail.com>
Date: Thu Feb 5 20:20:03 2015 +0100

Updated bwa to 0.7.12 and modernized the build system. Removed hard-coded ar.