notbugAs an Amazon Associate I earn from qualifying purchases.
Want a good read? Try FreeBSD Mastery: Jails (IT Mastery Book 15)
Want a good monitor light? See my photosAll times are UTC
Ukraine
non port: biology/biolibc-tools/Makefile

Number of commits found: 13

Saturday, 2 Mar 2024
18:44 Nuno Teixeira (eduardo) search for other commits by this committer
biology/biolibc-tools: Move man pages to share/man

Approved by:	portmgr (blanket)
commit hash: 17190fc6cf5983d6e0a7d7709323b6e7b720c2b4 commit hash: 17190fc6cf5983d6e0a7d7709323b6e7b720c2b4 commit hash: 17190fc6cf5983d6e0a7d7709323b6e7b720c2b4 commit hash: 17190fc6cf5983d6e0a7d7709323b6e7b720c2b4 17190fc
Sunday, 29 Oct 2023
22:41 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.4.13

Updates for new libxtend API
commit hash: 91d1591465a6aa2e9b8c711fbe4b849494525a89 commit hash: 91d1591465a6aa2e9b8c711fbe4b849494525a89 commit hash: 91d1591465a6aa2e9b8c711fbe4b849494525a89 commit hash: 91d1591465a6aa2e9b8c711fbe4b849494525a89 91d1591
Friday, 11 Aug 2023
20:40 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.4.9

Update for biolibc GFF3 API changes
commit hash: e9b6ad4f597e4afa869bbc2c0b6e1ba2f411e263 commit hash: e9b6ad4f597e4afa869bbc2c0b6e1ba2f411e263 commit hash: e9b6ad4f597e4afa869bbc2c0b6e1ba2f411e263 commit hash: e9b6ad4f597e4afa869bbc2c0b6e1ba2f411e263 e9b6ad4
Saturday, 10 Jun 2023
11:57 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.4.6

Improvements to deromanize
Updates for libxtend API changes
commit hash: e696f193a877ffbe89417df67092de71c488ec19 commit hash: e696f193a877ffbe89417df67092de71c488ec19 commit hash: e696f193a877ffbe89417df67092de71c488ec19 commit hash: e696f193a877ffbe89417df67092de71c488ec19 e696f19
Wednesday, 14 Dec 2022
00:11 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.4.1

deromanize:

Check for NULL field to prevent crash in some situations
Take optional input file as second argument
commit hash: 9d72e416798ec31f5e4ed968c52ea8b55cab1614 commit hash: 9d72e416798ec31f5e4ed968c52ea8b55cab1614 commit hash: 9d72e416798ec31f5e4ed968c52ea8b55cab1614 commit hash: 9d72e416798ec31f5e4ed968c52ea8b55cab1614 9d72e41
Tuesday, 13 Dec 2022
00:47 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.4

Add deromanize subcommand to convert Roman numeral chromosome IDs
fastx-stats: Report standard deviation for read length

Changes:    https://github.com/auerlab/biolibc-tools/releases
commit hash: a06965636b7360863524462378326b7145eaebb4 commit hash: a06965636b7360863524462378326b7145eaebb4 commit hash: a06965636b7360863524462378326b7145eaebb4 commit hash: a06965636b7360863524462378326b7145eaebb4 a069656
Wednesday, 7 Sep 2022
21:10 Stefan E├čer (se) search for other commits by this committer
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.

This commit implements such a proposal and moves one of the WWW: entries
of each pkg-descr file into the respective port's Makefile. A heuristic
attempts to identify the most relevant URL in case there is more than
one WWW: entry in some pkg-descr file. URLs that are not moved into the
Makefile are prefixed with "See also:" instead of "WWW:" in the pkg-descr
files in order to preserve them.

There are 1256 ports that had no WWW: entries in pkg-descr files. These
ports will not be touched in this commit.

The portlint port has been adjusted to expect a WWW entry in each port
Makefile, and to flag any remaining "WWW:" lines in pkg-descr files as
deprecated.

Approved by:		portmgr (tcberner)
commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 commit hash: b7f05445c00f2625aa19b4154ebcbce5ed2daa52 b7f0544
Saturday, 13 Aug 2022
18:51 Matthias Andree (mandree) search for other commits by this committer
*: bump PORTREVISION of all devel/xxhash users...

...except archivers/py-borgbackup, which requires a more complete fix.
commit hash: 875d7c7d1985049af69dcafec40b6669c562781c commit hash: 875d7c7d1985049af69dcafec40b6669c562781c commit hash: 875d7c7d1985049af69dcafec40b6669c562781c commit hash: 875d7c7d1985049af69dcafec40b6669c562781c 875d7c7
Wednesday, 20 Jul 2022
14:20 Tobias C. Berner (tcberner) search for other commits by this committer
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>
  *  Johann Visagie <johann@egenetics.com>
  *  Johann Visagie <wjv@FreeBSD.org>
  *  Mauricio Herrera Cuadra <mauricio@arareko.net>
  *  Motomichi Matsuzaki <mzaki@biol.s.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@e-mail.ne.jp>
  *  Motomichi Matsuzaki <mzaki@m.u-tokyo.ac.jp>
  *  Motomichi Matsuzaki <mzaki@niid.go.jp>
  *  Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Razi Khaja <razi@genet.sickkids.on.ca>
  *  Reed A. Cartwright <cartwright@asu.edu>
  *  Ryo MIYAMOTO
  *  Ryo MIYAMOTO <rmiya@cc.hirosaki-u.ac.jp>
  *  Sangwoo Shim <sangwoos@gmail.com>
  *  Sunpoet Po-Chuan Hsieh <sunpoet@FreeBSD.org>
  *  Tassilo Philipp <tphilipp@potion-studios.com>
  *  Tony Maher
  *  Tony Maher <tonym@biolateral.com.au>
  *  Wen Heping <wen@FreeBSD.org>
  *  Wen Heping <wenheping@gmail.com>
  *  Yonatan <onatan@gmail.com>
  *  Yuri Victorovich <yuri@rawbw.com>
  *  ballen
  *  barnhart@genetics.wustl.edu
  *  camson@bilateral.com.au
  *  chuynh@biolateral.com.au
  *  dbader@eece.unm.edu
  *  frankch@waru.life.nthu.edu.tw
  *  h2
  *  lentferj
  *  maho@FreeBSD.org
  *  mzaki@biol.s.u-tokyo.ac.jp
  *  tonym
  *  wen@FreeBSD.org

With hat:	portmgr
commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 commit hash: 37526bbd4e50616d87f70e1c788ae4895d88d671 37526bb
Saturday, 11 Jun 2022
14:26 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.3

Add vcf-downsample subcommand
Improvements to build system
extract-seq: Recurse to output subfeatures
Numerous other minor enhancements and fixes

Changes:        https://github.com/auerlab/biolibc-tools/tags
commit hash: f869d6b4120504eac85add6520b1b74e6144ac5d commit hash: f869d6b4120504eac85add6520b1b74e6144ac5d commit hash: f869d6b4120504eac85add6520b1b74e6144ac5d commit hash: f869d6b4120504eac85add6520b1b74e6144ac5d f869d6b
Tuesday, 15 Mar 2022
21:36 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.2

New fastx-stats and ensembl2gene subcommands
Minor updates for biolibc 0.2.2 API changes
Minor bug fixes and ennancements
commit hash: b8604e856abfd2bce2cd31e86dc4693be4d38763 commit hash: b8604e856abfd2bce2cd31e86dc4693be4d38763 commit hash: b8604e856abfd2bce2cd31e86dc4693be4d38763 commit hash: b8604e856abfd2bce2cd31e86dc4693be4d38763 b8604e8
Tuesday, 14 Dec 2021
19:45 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: Update to 0.1.1

Make all programs subcommands of "blt"
Several new commands
Updates for evolving libxtend and biolibc APIs
Add --version flag
Numerous minor fixes and enhancements

Changes: https://github.com/auerlab/biolibc-tools/releases/tag/0.1.1
commit hash: 3a7f92ec883e0d6926de8afe2e1c2ee8a005c13f commit hash: 3a7f92ec883e0d6926de8afe2e1c2ee8a005c13f commit hash: 3a7f92ec883e0d6926de8afe2e1c2ee8a005c13f commit hash: 3a7f92ec883e0d6926de8afe2e1c2ee8a005c13f 3a7f92e
Monday, 30 Aug 2021
13:09 Jason W. Bacon (jwb) search for other commits by this committer
biology/biolibc-tools: High-performance tools based on biolibc

Biolibc-tools is a collection of simple fast, memory-efficient,
programs for processing biological data.  These are simple programs
built on biolibc that are not complex enough to warrant a separate
project.
commit hash: 904aa60469601239cefbb5dde7f5aa33ccac9a21 commit hash: 904aa60469601239cefbb5dde7f5aa33ccac9a21 commit hash: 904aa60469601239cefbb5dde7f5aa33ccac9a21 commit hash: 904aa60469601239cefbb5dde7f5aa33ccac9a21 904aa60

Number of commits found: 13