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non port: biology/vsearch/Makefile
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Number of commits found: 19

Sat, 8 Jul 2023
[ 19:10 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:168ecf03820a6e7c32f64f89948345c030555a7c  commit hash:168ecf03820a6e7c32f64f89948345c030555a7c  commit hash:168ecf03820a6e7c32f64f89948345c030555a7c  168ecf0 
biology/vsearch: Update to 2.23.0

Numerous minor fixes and enhancements
Changes: https://github.com/torognes/vsearch/releases

Reported by:    portscout
Wed, 21 Sep 2022
[ 16:24 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:001947d3e51c6373db11bb480c6ff5a66dad311d  commit hash:001947d3e51c6373db11bb480c6ff5a66dad311d  commit hash:001947d3e51c6373db11bb480c6ff5a66dad311d  001947d 
biology/vsearch: Update to 2.22.1

Add the derep_smallmem command for dereplication with less memory usage
Changes:    https://github.com/torognes/vsearch/releases

Reported by:    portscout
Fri, 16 Sep 2022
[ 16:17 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:de24c3efe81a4e1c90f0e5c0f00eebc6bbb6ceae  commit hash:de24c3efe81a4e1c90f0e5c0f00eebc6bbb6ceae  commit hash:de24c3efe81a4e1c90f0e5c0f00eebc6bbb6ceae  de24c3e 
biology/vsearch: Update to 2.21.2

Fix problems with the --lcaout option
Changes:        https://github.com/torognes/vsearch/tags

Reported by:    portscout
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)
Sun, 23 Jan 2022
[ 22:32 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:f67392e69b9c97f2c6ad5d5c86bbc3b3457872c0  commit hash:f67392e69b9c97f2c6ad5d5c86bbc3b3457872c0  commit hash:f67392e69b9c97f2c6ad5d5c86bbc3b3457872c0  f67392e 
biology/vsearch: Update to 2.21.1

Adds the sample, qsegout and tsegout options. It also enables the use of
UDB databases with uchime_ref.

Changes:        https://github.com/torognes/vsearch/releases

Reported by:    portscout
Sat, 8 Jan 2022
[ 00:04 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:231919fc1935355a5f7dc5466844c04cb51c6444  commit hash:231919fc1935355a5f7dc5466844c04cb51c6444  commit hash:231919fc1935355a5f7dc5466844c04cb51c6444  231919f 
biology/vsearch: Update to 2.19.0

A few bug fixes, new subcommands and options

Changes:        https://github.com/torognes/vsearch/tags
Reporte by:     portscout
Mon, 25 Oct 2021
[ 12:58 Alexey Dokuchaev (danfe) search for other commits by this committer ]    commit hash:61b661339366b6ee95ca1de0667979da9240c6b8  commit hash:61b661339366b6ee95ca1de0667979da9240c6b8  commit hash:61b661339366b6ee95ca1de0667979da9240c6b8  61b6613  (Only the first 10 of 79 ports in this commit are shown above. View all ports for this commit)
Style: improve ONLY_FOR_ARCHS_REASON (grammar, markup, etc.)

ONLY_FOR_ARCHS_REASON is used as part of the sentence and thus should
start with lower-case letter and not end with a period which is added
by the framework, similar to other knobs like BROKEN, IGNORE, et al.

While here, remove needless quoting, add missing Oxford comma, expand
contractions and jargonisms, use correct spelling for proper names.
Sat, 19 Jun 2021
[ 12:33 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:d571f1f33222ae3c639baa517f53783fdf759e69  commit hash:d571f1f33222ae3c639baa517f53783fdf759e69  commit hash:d571f1f33222ae3c639baa517f53783fdf759e69  d571f1f 
biology/vsearch: Update to 2.17.1

Changes:    https://github.com/torognes/vsearch/releases

Also enabled powerpc64le
Sat, 10 Apr 2021
[ 14:02 Jason W. Bacon (jwb) search for other commits by this committer ]    commit hash:a5f08a7c0165ceb7dcaf23944cda43b7264044d0  commit hash:a5f08a7c0165ceb7dcaf23944cda43b7264044d0  commit hash:a5f08a7c0165ceb7dcaf23944cda43b7264044d0  a5f08a7 
biology/vsearch: Update to 2.17.0

Afterthoughts from the recent 2.16.0 release
(Minor bug fixes and enhancements to the new orient subcommand)

Reported by:    portscout
Wed, 7 Apr 2021
[ 08:09 Mathieu Arnold (mat) search for other commits by this committer ]    commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c  commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c  commit hash:cf118ccf875508b9a1c570044c93cfcc82bd455c  cf118cc  (Only the first 10 of 8873 ports in this commit are shown above. View all ports for this commit)
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
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.
Wed, 24 Mar 2021
[ 18:43 jwb search for other commits by this committer ] Original commit   Revision:569151
biology/vsearch: Update to 2.16.0

Add "orient" subcommand
A few other fixes and enhancements

Reported by:    portscout
Sat, 30 Jan 2021
[ 15:31 jwb search for other commits by this committer ] Original commit   Revision:563418
biology/vsearch: Update to 2.15.2

Code clean up and modernization

Reported by:    portscout
Sat, 16 Jan 2021
[ 17:51 pkubaj search for other commits by this committer ] Original commit   Revision:561748
biology/vsearch: enable on powerpc64le
Sat, 20 Jun 2020
[ 14:31 jwb search for other commits by this committer ] Original commit   Revision:539742
biology/vsearch: Update to 2.15.0

Numerous minor enhancements
Wed, 19 Feb 2020
[ 22:34 jwb search for other commits by this committer ] Original commit   Revision:526534
biology/vsearch: Upgrade to 2.14.2

Numerous small bug fixes and enhancements

Reported by:    portscout
Sat, 11 May 2019
[ 13:42 jwb search for other commits by this committer ] Original commit   Revision:501259
biology/vsearch: Update to 2.13.4

FreeBSD patches incorporated into new upstream release

Reported by:    portscout
Thu, 9 May 2019
[ 22:12 jwb search for other commits by this committer ] Original commit   Revision:501148
biology/vsearch: Remove powerpc64 support

Requires little endian mode and FreeBSD currently does not support it
[ 21:28 jwb search for other commits by this committer ] Original commit   Revision:501147
biology/vsearch: Versatile open-source tool for metagenomics

VSEARCH supports de novo and reference based chimera detection, clustering,
full-length and prefix dereplication, rereplication, reverse complementation,
masking, all-vs-all pairwise global alignment, exact and global alignment
searching, shuffling, subsampling and sorting. It also supports FASTQ file
analysis, filtering, conversion and merging of paired-end reads.

The aim of this project is to create an alternative to the USEARCH tool
developed by Robert C. Edgar (2010).

Number of commits found: 19