025ca27d46
biology/samtools: Upgrade to 1.11
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Numerous new features, bug fixes and performance enhancements
https://github.com/samtools/samtools/releases/tag/1.11
Reported by: portscout
2020-11-05 20:32:39 +00:00
7197facae5
biology/samtools: Upgrade to 1.10
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Numerous bug fixes and enhancements:
https://github.com/samtools/samtools/releases/tag/1.10
Take maintainership per ports/248089
PR: ports/248089
2020-08-03 18:22:06 +00:00
fb3f006dcf
biology/htslib: Upgrade to 1.10.2
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Numerous bug fixes and enhancements since 1.9:
https://github.com/samtools/htslib/tags
Bump PORTREVISION on dependents that don't require additional patching
PR: 248089
2020-08-03 17:40:04 +00:00
a6c40a689b
Convert to UCL & cleanup pkg-message (categories a-c)
2019-08-13 16:00:39 +00:00
54eae36d2c
biology/samtools: update to 1.9
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PR: 230171
Submitted by: ndowens.fbsd@yandex.com
Approved by: tcberner (mentor)
Differential Revision: https://reviews.freebsd.org/D16569
2018-08-02 19:28:36 +00:00
6063af74e8
Add a USES=python:env, that will not add a dependency on Python.
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It has the same effect than setting PYTHON_NO_DEPENDS, but in a more
compact way.
Sponsored by: Absolight
2017-12-04 15:27:29 +00:00
ecaa1024a6
biology/htslib biology/bcftools biology/samtools: Update to 1.6
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PR: 223094
Submitted by: mzaki@niid.go.jp
Approved by: cartwright@asu.edu (maintainer)
Approved by: olivier (mentor)
Differential Revision: https://reviews.freebsd.org/D12768
2017-10-25 10:19:50 +00:00
04b3bb054f
biology/{htslib|samtools|bcftools}: 1.3 -> 1.3.1
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Changes:
https://sourceforge.net/p/samtools/mailman/message/35033807/
PR: 209653
Submitted by: cartwright@asu.edu (maintainer)
2016-05-26 20:28:55 +00:00
e87a8bd319
- Fix trailing whitespace in pkg-messages
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Approved by: portmgr blanket
2016-05-19 11:09:14 +00:00
7f4572eae4
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.
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With hat: portmgr
Sponsored by: Absolight
2016-04-01 13:29:15 +00:00
e8ac90dd1c
biology/samtools: document ncurses requirement (USES+=ncurses)
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approved by: infrastructure blanket
2016-02-01 21:59:14 +00:00
d5dffd3623
biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3
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- Update ports to 1.3 and set BUILD_DEPENDS of dependent ports to require
version 1.3 of htslib.
- Add CURL option to htslib
- Add TEST_TARGET with perl and bash dependencies for testing
- Tidy up spacing and pkg-message's
PR: 205524
PR: 205525
PR: 205526
Submitted by: cartwright@asu.edu (maintainer)
2015-12-25 01:31:09 +00:00
c6457ffef4
Update ports in the [bcd]* categories to not use GH_COMMIT.
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With minor cleanups to make things simpler.
With hat: portmgr
Sponsored by: Absolight
2015-05-06 15:16:53 +00:00
9b9d6e55f6
biology/samtools: update 1.1 -> 1.2
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PR: 198292
Submitted by: Reed Cartwright <cartwright@asu.edu >
2015-03-06 12:53:58 +00:00
dc1d64b572
Samtools implements various utilities for post-processing alignments in the
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SAM, BAM, and CRAM formats, including indexing, variant calling (in conjunction
with bcftools), and a simple alignment viewer.
WWW: http://www.htslib.org/
PR: 195592
Submitted by: Reed A. Cartwright <cartwright@asu.edu >
2014-12-15 21:59:19 +00:00
Jason W. Bacon
Mathieu Arnold
Fernando Apesteguía
Luca Pizzamiglio
Kurt Jaeger
Dmitry Marakasov
John Marino
Jason Unovitch
Bartek Rutkowski
Pawel Pekala