./biology/bwa, Map low-divergent sequences against a large reference genome

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Branch: CURRENT, Version: 0.7.17nb4, Package name: bwa-0.7.17nb4, Maintainer: bacon

BWA is a software package for mapping low-divergent sequences against a large
reference genome, such as the human genome.


Required to run:
[lang/perl5]

Required to build:
[pkgtools/cwrappers]

Master sites:

SHA1: 77f9aac723110227ea51cb42011336d291d03723
RMD160: d26a266387dee4fc9fcf6eef4f7ffcc076495c22
Filesize: 227.142 KB

Version history: (Expand)

CVS history: (Expand)


   2020-08-31 20:13:29 by Thomas Klausner | Files touched by this commit (3631) | Package updated
Log message:
*: bump PKGREVISION for perl-5.32.
   2020-01-26 06:26:29 by Roland Illig | Files touched by this commit (189) 
Log message:
all: migrate some SourceForge homepage URLs back from https to http

https://mail-index.netbsd.org/pkgsrc-ch … 05146.html

In the above commit, the homepage URLs were migrated from http to https,
assuming that SourceForge would use the same host names for both http and
https connections. This assumption was wrong. Their documentation at
https://sourceforge.net/p/forge/documen … %20VHOSTs/ states
that the https URLs use the domain sourceforge.io instead.

To make the homepages from the above commit reachable again, pkglint has
been extended to check for reachable homepages. This check is only
enabled when the --network command line option is given.

Each of the homepages that referred to https://$project.sourceforge.net
before was migrated to https://$project.sourceforge.io (27), and if that
was not reachable, to the fallback URL http://$project.sourceforge.net
(163).
   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.
   2019-11-02 23:09:01 by Roland Illig | Files touched by this commit (10) 
Log message:
biology: align variable assignments

pkglint -Wall -F --only aligned --only indent -r
   2019-08-11 15:25:21 by Thomas Klausner | Files touched by this commit (3557) | Package updated
Log message:
Bump PKGREVISIONs for perl 5.30.0
   2018-08-22 11:48:07 by Thomas Klausner | Files touched by this commit (3558) 
Log message:
Recursive bump for perl5-5.28.0
   2017-12-28 00:44:02 by Havard Eidnes | Files touched by this commit (3) | Package updated
Log message:
Re-add patch to bring timeval definition and select prototype into scope.
Bump PKGREVISION.
   2017-12-17 15:30:36 by Jason Bacon | Files touched by this commit (4) | Package updated
Log message:
biology/bwa: Update to 0.7.17

Numerous bug fixes, enhancements, and new command-line options

ok wiz@