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non port: biology/samtools/Makefile
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Number of commits found: 22

Fri, 24 Feb 2023
[ 23:27 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76  commit hash:1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76  commit hash:1993bfc7cf7d933c1a8cc11bf2198ce8691a0d76  1993bfc 
biology/samtools: Update to 1.17

Numerous enhancements and bug fixes

Changes: https://github.com/samtools/samtools/releases

Reported by:    portscout
Thu, 5 Jan 2023
[ 23:17 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:193567cc9e20e9ecb305506d92f522fc77dd18e4  commit hash:193567cc9e20e9ecb305506d92f522fc77dd18e4  commit hash:193567cc9e20e9ecb305506d92f522fc77dd18e4  193567c 
biology/samtools: Update to 1.16.1

New "reference" subcommand to extract CRAM features (1.16)
Numerous minor enhancements and bug fixes

Changes: https://github.com/samtools/samtools/releases
Wed, 7 Sep 2022
[ 21:10 Stefan E├čer (se) search for other commits by this committer ]    commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52  commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52  commit hash:b7f05445c00f2625aa19b4154ebcbce5ed2daa52  b7f0544  (Only the first 10 of 27931 ports in this commit are shown above. View all ports for this commit)
Add WWW entries to port Makefiles

It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.

Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.

There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above View all of this commit message)
Wed, 20 Jul 2022
[ 14:20 Tobias C. Berner (tcberner) search for other commits by this committer ]    commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671  commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671  commit hash:37526bbd4e50616d87f70e1c788ae4895d88d671  37526bb  (Only the first 10 of 82 ports in this commit are shown above. View all ports for this commit)
biology: remove 'Created by' lines

A big Thank You to the original contributors of these ports:

  *  Aaron Dalton <aaron@FreeBSD.org>
  *  Akinori MUSHA aka knu <knu@idaemons.org>
  *  Andrey Zakhvatov
  *  Bob Zimmermann <rpz@cse.wustl.edu>
  *  Camson Huynh <chuynh@biolateral.com.au>
  *  Dan Siercks <dsiercks@uwm.edu>
  *  Fernan Aguero <fernan@iib.unsam.edu.ar>
  *  Hannes Hauswedell <h2+fbsdports@fsfe.org>
  *  J. Bacon <jwb@FreeBSD.org>
  *  Jason Bacon <jwb@FreeBSD.org>
  *  Jeremy <karlj000@unbc.ca>
(Only the first 15 lines of the commit message are shown above View all of this commit message)
Sat, 26 Feb 2022
[ 15:04 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:822ec7476b36d4a004c88067044432fbc29ca9f4  commit hash:822ec7476b36d4a004c88067044432fbc29ca9f4  commit hash:822ec7476b36d4a004c88067044432fbc29ca9f4  822ec74 
biology/samtools: Update to 1.15

Several small enhancements and a few bug fixes
Changes: https://github.com/samtools/samtools/releases

Reported by:    portscout
Sat, 18 Dec 2021
[ 17:56 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:d0228a8a5f1c2b80211af892f32847ff4edb241f  commit hash:d0228a8a5f1c2b80211af892f32847ff4edb241f  commit hash:d0228a8a5f1c2b80211af892f32847ff4edb241f  d0228a8 
biology/samtools: Update to 1.14

Several enhancements and minor bug fixes

Changes: https://github.com/samtools/samtools/tags
Mon, 12 Jul 2021
[ 13:24 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:1c1b4943aef7525da9e15fb8f419c08e2f8849bf  commit hash:1c1b4943aef7525da9e15fb8f419c08e2f8849bf  commit hash:1c1b4943aef7525da9e15fb8f419c08e2f8849bf  1c1b494 
biology/samtools: Update to 1.13

Numerous enhancements and bug fixes

Changes:        https://github.com/samtools/samtools/releases/tag/1.13
Tue, 6 Apr 2021
[ 14:31 Mathieu Arnold (mat) search for other commits by this committer ]    commit hash:305f148f482daf30dcf728039d03d019f88344eb  commit hash:305f148f482daf30dcf728039d03d019f88344eb  commit hash:305f148f482daf30dcf728039d03d019f88344eb  305f148  (Only the first 10 of 29333 ports in this commit are shown above. View all ports for this commit)
Remove # $FreeBSD$ from Makefiles.
Sat, 20 Mar 2021
[ 17:14 jwb search for other commits by this committer ] Original commit   Revision:568874 (Only the first 10 of 17 ports in this commit are shown above. View all ports for this commit)
biology/htslib: Update to 1.12
biology/samtools: Update to 1.12
biology/bcftools: Update to 1.12

Numerous enhancements, performance improvements, and bug fixes since 1.11

Build-tested all other htslib dependents, no revbumps should be needed

Reported by:    portscout
Thu, 5 Nov 2020
[ 20:32 jwb search for other commits by this committer ] Original commit   Revision:554156
biology/samtools: Upgrade to 1.11

Numerous new features, bug fixes and performance enhancements
https://github.com/samtools/samtools/releases/tag/1.11

Reported by:    portscout
Mon, 3 Aug 2020
[ 18:22 jwb search for other commits by this committer ] Original commit   Revision:544098
biology/samtools: Upgrade to 1.10

Numerous bug fixes and enhancements:
https://github.com/samtools/samtools/releases/tag/1.10

Take maintainership per ports/248089

PR:             ports/248089
[ 17:40 jwb search for other commits by this committer ] Original commit   Revision:544090 (Only the first 10 of 12 ports in this commit are shown above. View all ports for this commit)
biology/htslib: Upgrade to 1.10.2

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
Thu, 2 Aug 2018
[ 19:28 fernape search for other commits by this committer ] Original commit   Revision:476246
biology/samtools: update to 1.9

PR:	230171
Submitted by:	ndowens.fbsd@yandex.com
Approved by:	tcberner (mentor)
Differential Revision:	https://reviews.freebsd.org/D16569
Mon, 4 Dec 2017
[ 15:27 mat search for other commits by this committer ] Original commit   Revision:455518
Add a USES=python:env, that will not add a dependency on Python.

It has the same effect than setting PYTHON_NO_DEPENDS, but in a more
compact way.

Sponsored by:	Absolight
Wed, 25 Oct 2017
[ 10:19 pizzamig search for other commits by this committer ] Original commit   Revision:452840 (Only the first 10 of 25 ports in this commit are shown above. View all ports for this commit)
biology/htslib biology/bcftools biology/samtools: Update to 1.6

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
Thu, 26 May 2016
[ 20:28 pi search for other commits by this committer ] Original commit   Revision:415914
biology/{htslib|samtools|bcftools}: 1.3 -> 1.3.1

Changes:
  https://sourceforge.net/p/samtools/mailman/message/35033807/

PR:		209653
Submitted by:	cartwright@asu.edu (maintainer)
Fri, 1 Apr 2016
[ 13:29 mat search for other commits by this committer ] Original commit   Revision:412344 (Only the first 10 of 1009 ports in this commit are shown above. View all ports for this commit)
Remove ${PORTSDIR}/ from dependencies, Mk and categories a, b, and c.

With hat:	portmgr
Sponsored by:	Absolight
Mon, 1 Feb 2016
[ 21:59 marino search for other commits by this committer ] Original commit   Revision:407776
biology/samtools: document ncurses requirement (USES+=ncurses)

approved by:	infrastructure blanket
Fri, 25 Dec 2015
[ 01:31 junovitch search for other commits by this committer ] Original commit   Revision:404398 (Only the first 10 of 27 ports in this commit are shown above. View all ports for this commit)
biology/{bcftools,htslib,samtools}: update 1.2.x -> 1.3

- 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)
Wed, 6 May 2015
[ 15:16 mat search for other commits by this committer ] Original commit   Revision:385521 (Only the first 10 of 348 ports in this commit are shown above. View all ports for this commit)
Update ports in the [bcd]* categories to not use GH_COMMIT.

With minor cleanups to make things simpler.

With hat:	portmgr
Sponsored by:	Absolight
Fri, 6 Mar 2015
[ 12:53 robak search for other commits by this committer ] Original commit   Revision:380597
biology/samtools: update 1.1 -> 1.2

PR:		198292
Submitted by:	Reed Cartwright <cartwright@asu.edu>
Mon, 15 Dec 2014
[ 21:59 pawel search for other commits by this committer ] Original commit   Revision:374767
Samtools implements various utilities for post-processing alignments in the
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>

Number of commits found: 22