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
This referral link gives you 10% off a Fastmail.com account and gives me a discount on my Fastmail account.
New feature planned: get notified when the package is available. Now is the time to contribute ideas/suggestions.
non port: biology/bwa/Makefile

Number of commits found: 19

Wednesday, 10 Jan 2024
08:16 Baptiste Daroussin (bapt) search for other commits by this committer
MAN?PREFIX: eleminate its usage  and move man to share/man
commit hash: 1b819e486953bae191a4b8f0da175b55cb6c3070 commit hash: 1b819e486953bae191a4b8f0da175b55cb6c3070 commit hash: 1b819e486953bae191a4b8f0da175b55cb6c3070 commit hash: 1b819e486953bae191a4b8f0da175b55cb6c3070 1b819e4
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
Wednesday, 1 Dec 2021
17:34 Piotr Kubaj (pkubaj) search for other commits by this committer
biology/bwa: don't use GCC on powerpc64le

Now that the port uses simde, it builds fine without gcc's translation.
commit hash: f75ac0cecdaf833014ca876fb369e788eb342500 commit hash: f75ac0cecdaf833014ca876fb369e788eb342500 commit hash: f75ac0cecdaf833014ca876fb369e788eb342500 commit hash: f75ac0cecdaf833014ca876fb369e788eb342500 f75ac0c
14:56 Jason W. Bacon (jwb) search for other commits by this committer
biology/bwa: Unbreak on most non-x86 platforms using simde
commit hash: c74d9767d204035f671225a70227a2b24ecb2491 commit hash: c74d9767d204035f671225a70227a2b24ecb2491 commit hash: c74d9767d204035f671225a70227a2b24ecb2491 commit hash: c74d9767d204035f671225a70227a2b24ecb2491 c74d976
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
Tuesday, 2 Mar 2021
15:01 pkubaj search for other commits by this committer
biology/bwa: fix build on powerpc64le

Use GCC's SSE->Altivec translation:
In file included from ksw.c:29:
In file included from /usr/lib/clang/11.0.1/include/emmintrin.h:13:
In file included from /usr/lib/clang/11.0.1/include/xmmintrin.h:13:
/usr/lib/clang/11.0.1/include/mmintrin.h:50:12: error: invalid conversion
between vector type '__m64' (vector of 1 'long long' value) and integer type
'int' of different size
    return (__m64)__builtin_ia32_vec_init_v2si(__i, 0);
Original commitRevision:566960 
Saturday, 2 Jan 2021
01:46 linimon search for other commits by this committer
For ports on riscv64 that fail the same (or similar ways) to aarch64, mark
them BROKEN.

While here, pet portlint (Makevar order).

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:559904 
Friday, 28 Aug 2020
11:17 tcberner search for other commits by this committer
biology/bwa: fix build on recent current

Obtained
from:	https://github.com/lh3/bwa/commit/2a1ae7b6f34a96ea25be007ac9d91e57e9d32284
Original commitRevision:546721 
Wednesday, 31 Jan 2018
01:07 jwb search for other commits by this committer
Multiple ports:
Change maintainer email bacon4000@gmail.com to jwb@FreeBSD.org
Remove Created by comments for same user

Approved by: jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D14128
Original commitRevision:460452 
Thursday, 30 Nov 2017
06:13 linimon search for other commits by this committer
For ports that are marked BROKEN on armv6, and also fail to build on
armv7, mark them so.

This is part two of a multipart commit to bring armv7 ports to parity
with armv6.

Approved by:	portmgr (tier-2 blanket)
Obtained from:	lonesome.com -exp run
Original commitRevision:455167 
Tuesday, 28 Nov 2017
15:21 jwb search for other commits by this committer
biology/bwa: Upgrade to 0.7.17

Approved by:    jrm (mentor)
Differential Revision:  https://reviews.freebsd.org/D13283
Original commitRevision:455045 
Friday, 26 May 2017
20:02 linimon search for other commits by this committer
Mark some ports failing on armv6, for errors classified as "???".

While here, pet portlint.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:441814 
Saturday, 13 May 2017
03:35 linimon search for other commits by this committer
Mark some ports failing on power64.  In cases where the error message
was a stub, provide a real one.

While here, pet portlint.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:440746 
Tuesday, 31 Jan 2017
03:40 linimon search for other commits by this committer
Mark various ports broken on aarch64 and armv6.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:432897 
Friday, 11 Nov 2016
09:07 linimon search for other commits by this committer
Attempt to fix build on non-x86 archs.

Approved by:	portmgr (tier-2 blanket)
Original commitRevision:425878 
Sunday, 13 Dec 2015
16:07 swills search for other commits by this committer
mark some of the ports that don't build on powerpc64 for me
Original commitRevision:403676 
Friday, 11 Dec 2015
08:48 miwi search for other commits by this committer
- Update maintainer mail address
- Update/Remove MASTER_SITE

PR:		204755
Submitted by:	 jwbacon@tds.net (maintainer)
Approved by:	mat (mentor)
Differential Revision:	D4493
Original commitRevision:403506 
Friday, 25 Sep 2015
18:39 rm search for other commits by this committer
BWA is a program for aligning sequencing reads against a large reference
genome (e.g. human genome). It has two major components, one for read shorter
than 150bp and the other for longer reads.

WWW: http://sourceforge.net/projects/bio-bwa/

PR:		203158
Submitted by:	Jason Bacon <jwbacon@tds.net>
Original commitRevision:397851 

Number of commits found: 19