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non port: biology/bowtie2/distinfo

Number of commits found: 16

Wednesday, 18 Oct 2023
12:26 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.5.2

A few bug fixes
Changes: https://github.com/BenLangmead/bowtie2/releases

Reported by:    portscout
commit hash: fee1d76936f6a36a27b271d0dbe7685b4fd84cc0 commit hash: fee1d76936f6a36a27b271d0dbe7685b4fd84cc0 commit hash: fee1d76936f6a36a27b271d0dbe7685b4fd84cc0 commit hash: fee1d76936f6a36a27b271d0dbe7685b4fd84cc0 fee1d76
Saturday, 21 Jan 2023
22:30 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.5.1

A few minor fixes and enhancements

Changes:    https://github.com/BenLangmead/bowtie2/tags

Reported by:    portscout
commit hash: 65ce3f1684bc6a0457bfc55feb059baf76bbee2a commit hash: 65ce3f1684bc6a0457bfc55feb059baf76bbee2a commit hash: 65ce3f1684bc6a0457bfc55feb059baf76bbee2a commit hash: 65ce3f1684bc6a0457bfc55feb059baf76bbee2a 65ce3f1
Friday, 4 Nov 2022
23:49 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.5.0

Performance improvements and minor improvements
Changes:    https://github.com/BenLangmead/bowtie2/tags

Reported by:    portscout
commit hash: f2f8bd75c4acf8a9c1fb5d51a0f381e25a9006fa commit hash: f2f8bd75c4acf8a9c1fb5d51a0f381e25a9006fa commit hash: f2f8bd75c4acf8a9c1fb5d51a0f381e25a9006fa commit hash: f2f8bd75c4acf8a9c1fb5d51a0f381e25a9006fa f2f8bd7
Friday, 21 Jan 2022
14:33 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.4.5

A few bug fixes

Changes:        https://github.com/BenLangmead/bowtie2/tags
Reported by:    portscout
commit hash: bfdda4387466c93127ca47424f61e03c94aae8bb commit hash: bfdda4387466c93127ca47424f61e03c94aae8bb commit hash: bfdda4387466c93127ca47424f61e03c94aae8bb commit hash: bfdda4387466c93127ca47424f61e03c94aae8bb bfdda43
Monday, 24 May 2021
16:35 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.4.4

Fix deadlock issue in multithreaded execution

Reported by:    portscout
commit hash: 4521502b9bd34932d3547b69cd5aea3c221fad88 commit hash: 4521502b9bd34932d3547b69cd5aea3c221fad88 commit hash: 4521502b9bd34932d3547b69cd5aea3c221fad88 commit hash: 4521502b9bd34932d3547b69cd5aea3c221fad88 4521502
Monday, 17 May 2021
23:40 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Update to 2.4.3

Drop tbb dependency (upstream switched to C++ threads)
Add support for powerpc64

Reported by:    portscout
Tested by:      pkubaj (powerpc64*)
commit hash: 1effaacbafd70e1bcf3e544d6a7b49bad3ca88ef commit hash: 1effaacbafd70e1bcf3e544d6a7b49bad3ca88ef commit hash: 1effaacbafd70e1bcf3e544d6a7b49bad3ca88ef commit hash: 1effaacbafd70e1bcf3e544d6a7b49bad3ca88ef 1effaac
Sunday, 18 Apr 2021
15:53 Jason W. Bacon (jwb) search for other commits by this committer
biology/bowtie2: Add support for powerpc64le

PR:             255092
Submitted by:   pkubaj
commit hash: 48ddc73c5822130dd3f00361ec6998eec0a29e6d commit hash: 48ddc73c5822130dd3f00361ec6998eec0a29e6d commit hash: 48ddc73c5822130dd3f00361ec6998eec0a29e6d commit hash: 48ddc73c5822130dd3f00361ec6998eec0a29e6d 48ddc73
Saturday, 7 Nov 2020
13:47 jwb search for other commits by this committer
biology/bowtie2: Upgrade to 2.4.2

Minor bug fix release

Reported by:    portscout
Original commitRevision:554390 
Sunday, 1 Mar 2020
16:01 jwb search for other commits by this committer
biology/bowtie2: Upgrade to 2.4.1

Numerous bugfixes and enhancements
Enable experimental support for aarch64

Reported by:    portscout
Original commitRevision:527560 
Sunday, 21 Apr 2019
15:23 jwb search for other commits by this committer
biology/bowtie2: Upgrade to 2.3.5.1

Disable aarch64.  Upstream support has changed and I lack the resources
to develop new patches.
Original commitRevision:499544 
Monday, 18 Mar 2019
17:30 jwb search for other commits by this committer
biology/bowtie2: Upgrade to 2.3.5

-   Add bowtie2-test script
-   Separate Makefile patches into a static patch for upstream and reinplace
    for ports-specifics
-   Allow aarch64 per upstream Makefile (untested)
Original commitRevision:496155 
Thursday, 30 Nov 2017
02:59 jwb search for other commits by this committer
biology/bowtie2: Upgrade to 2.3.3.1

Approved by: jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D13300
Original commitRevision:455161 
Monday, 27 Feb 2017
14:08 jbeich search for other commits by this committer
biology/bowtie2: update to 2.3.0

- Unbreak with Clang 4.0

Changes:	https://github.com/BenLangmead/bowtie2/releases/tag/v2.3.0
PR:		216619
Submitted by:	Jason Bacon <bacon4000@gmail.com> (maintainer)
Original commitRevision:434940 
Tuesday, 20 Dec 2016
17:01 jrm search for other commits by this committer
biology/bowtie2: Update to version 2.2.9

- Update license information.
- Add python to USES (bowtie2-build bowtie2-inspect need python)
- Add DOCS and EXAMPLES options

Approved by:	AMDmi3 (mentor) swills (mentor)
Differential Revision:	https://reviews.freebsd.org/D8182
Original commitRevision:429003 
Friday, 13 May 2016
20:12 pi search for other commits by this committer
biology/bowtie2: 2.2.7 -> 2.2.8

- Various website updates
- Fixed the bowtie2-build issue that made TBB compilation fail

PR:		208943
Submitted by:	Joseph Mingrone <jrm@ftfl.ca>
Approved by:	Jason Bacon <bacon4000@gmail.com> (maintainer)
Original commitRevision:415148 
Wednesday, 23 Mar 2016
11:22 rakuco search for other commits by this committer
New port: biology/bowtie2.

Bowtie is an ultrafast, memory-efficient short read aligner. It aligns short
DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp
reads per hour.

This is Bowtie version 2, which will need to coexists with Bowtie 1 for the
foreseeable future. Both are required by certain genomics pipelines, in some
cases (e.g. Trinity) by the same pipeline.

WWW: https://github.com/BenLangmead/bowtie2

PR:		207908
Submitted by:	Jason Bacon <bacon4000@gmail.com>
Original commitRevision:411698 

Number of commits found: 16