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non port: biology/minimap2/Makefile

Number of commits found: 13

Saturday, 29 Apr 2023
14:53 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.25

New feature to output sequences in secondary alignments
Several minor enhancements and fixes
Changes: https://github.com/lh3/minimap2/releases

Reported by:    portscout
commit hash: 57d280a35eb7d931d7009182b8dd2289c946f391 commit hash: 57d280a35eb7d931d7009182b8dd2289c946f391 commit hash: 57d280a35eb7d931d7009182b8dd2289c946f391 commit hash: 57d280a35eb7d931d7009182b8dd2289c946f391 57d280a
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
Friday, 31 Dec 2021
14:30 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.24

Fix chaining algorithm issue resulting in poorly aligned regions

Reported by:    portscout
commit hash: 2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608b commit hash: 2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608b commit hash: 2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608b commit hash: 2b4cfc8ff39b9c6afa6984ca1deb5e0ce612608b 2b4cfc8
Friday, 3 Dec 2021
17:22 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Unbreak on i386 by resotring -msse flags
commit hash: 8261e82cd510324b14e5463928e537a342cbddbf commit hash: 8261e82cd510324b14e5463928e537a342cbddbf commit hash: 8261e82cd510324b14e5463928e537a342cbddbf commit hash: 8261e82cd510324b14e5463928e537a342cbddbf 8261e82
Tuesday, 30 Nov 2021
16:29 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.23

Also switch to SIMDE Makefile to support non-x86 platforms

Changes:        https://github.com/lh3/minimap2/releases/tag/v2.23
Reported by:    portscout
commit hash: 325754dd3899cb5b179ebc6ef87fbe4f4648c6ad commit hash: 325754dd3899cb5b179ebc6ef87fbe4f4648c6ad commit hash: 325754dd3899cb5b179ebc6ef87fbe4f4648c6ad commit hash: 325754dd3899cb5b179ebc6ef87fbe4f4648c6ad 325754d
Monday, 25 Oct 2021
12:58 Alexey Dokuchaev (danfe) search for other commits by this committer
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.
commit hash: 61b661339366b6ee95ca1de0667979da9240c6b8 commit hash: 61b661339366b6ee95ca1de0667979da9240c6b8 commit hash: 61b661339366b6ee95ca1de0667979da9240c6b8 commit hash: 61b661339366b6ee95ca1de0667979da9240c6b8 61b6613
Sunday, 22 Aug 2021
14:15 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.22

Changelog: https://github.com/lh3/minimap2/releases/tag/v2.22

Reported by:    portscout
commit hash: 205fcac2210ba735dde3e037616661ab16cd5e66 commit hash: 205fcac2210ba735dde3e037616661ab16cd5e66 commit hash: 205fcac2210ba735dde3e037616661ab16cd5e66 commit hash: 205fcac2210ba735dde3e037616661ab16cd5e66 205fcac
Saturday, 29 May 2021
21:06 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.20

Add "extra" binaries to install

Changes:    https://github.com/lh3/minimap2/releases/tag/v2.20
commit hash: da0bb00a74646f1a22eed576fb041c0d04a03a19 commit hash: da0bb00a74646f1a22eed576fb041c0d04a03a19 commit hash: da0bb00a74646f1a22eed576fb041c0d04a03a19 commit hash: da0bb00a74646f1a22eed576fb041c0d04a03a19 da0bb00
Sunday, 11 Apr 2021
19:18 Jason W. Bacon (jwb) search for other commits by this committer
biology/minimap2: Update to 2.18

Numerous bug fixes and a few minor improvements

Reported by:    portscout
commit hash: a2fa05009fd280fcf8e93f1062b554fdcca63c9a commit hash: a2fa05009fd280fcf8e93f1062b554fdcca63c9a commit hash: a2fa05009fd280fcf8e93f1062b554fdcca63c9a commit hash: a2fa05009fd280fcf8e93f1062b554fdcca63c9a a2fa050
Wednesday, 7 Apr 2021
08:09 Mathieu Arnold (mat) search for other commits by this committer
One more small cleanup, forgotten yesterday.
Reported by:	lwhsu
commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c commit hash: cf118ccf875508b9a1c570044c93cfcc82bd455c cf118cc
Tuesday, 6 Apr 2021
14:31 Mathieu Arnold (mat) search for other commits by this committer
Remove # $FreeBSD$ from Makefiles.
commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb commit hash: 305f148f482daf30dcf728039d03d019f88344eb 305f148
Sunday, 5 May 2019
14:56 jwb search for other commits by this committer
biology/minimap2: Upgrade to 2.17

Reported by:    portscout
Original commitRevision:500860 
Wednesday, 24 Apr 2019
18:03 jwb search for other commits by this committer
biology/minimap2: Pairwise aligner for genomic and spliced nucleotide sequences

Minimap2 is a versatile sequence alignment program that aligns DNA or mRNA
sequences against a large reference database.
Original commitRevision:499895 

Number of commits found: 13