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non port: biology/abyss/Makefile

Number of commits found: 32

Tuesday, 23 Jul 2024
00:34 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: update 2.3.7 → 2.3.8

Reported by:	portscout
commit hash: 01f227d6080c1dd2b458c6234e203e4711efeec6 commit hash: 01f227d6080c1dd2b458c6234e203e4711efeec6 commit hash: 01f227d6080c1dd2b458c6234e203e4711efeec6 commit hash: 01f227d6080c1dd2b458c6234e203e4711efeec6 01f227d
Sunday, 3 Mar 2024
10:04 Nuno Teixeira (eduardo) search for other commits by this committer
biology/abyss: Move man pages to share/man

Approved by:	portmgr (blanket)
commit hash: dfc94f5f31b8b27980052a60271c629234c76ab5 commit hash: dfc94f5f31b8b27980052a60271c629234c76ab5 commit hash: dfc94f5f31b8b27980052a60271c629234c76ab5 commit hash: dfc94f5f31b8b27980052a60271c629234c76ab5 dfc94f5
Sunday, 10 Dec 2023
10:23 Thierry Thomas (thierry) search for other commits by this committer
*/*: bump PORTREVISION after the upgrade of MPICH to 4.1.2
commit hash: 843da99a87b4c6b3953bcd4153ed1212636783c9 commit hash: 843da99a87b4c6b3953bcd4153ed1212636783c9 commit hash: 843da99a87b4c6b3953bcd4153ed1212636783c9 commit hash: 843da99a87b4c6b3953bcd4153ed1212636783c9 843da99
Saturday, 22 Jul 2023
08:55 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Update 2.3.5 → 2.3.7

Reported by:	portscout
commit hash: 97a754c68cc2783fe0574f1efff78f278befe42b commit hash: 97a754c68cc2783fe0574f1efff78f278befe42b commit hash: 97a754c68cc2783fe0574f1efff78f278befe42b commit hash: 97a754c68cc2783fe0574f1efff78f278befe42b 97a754c
Wednesday, 7 Jun 2023
07:25 Muhammad Moinur Rahman (bofh) search for other commits by this committer
biology/abyss: Fix build with llvm15

Approved by:	portmgr (blanket)
commit hash: 7be12eb0e21cff50ef862997d6420baf408ffa28 commit hash: 7be12eb0e21cff50ef862997d6420baf408ffa28 commit hash: 7be12eb0e21cff50ef862997d6420baf408ffa28 commit hash: 7be12eb0e21cff50ef862997d6420baf408ffa28 7be12eb
Sunday, 23 Apr 2023
09:09 Gerald Pfeifer (gerald) search for other commits by this committer
*: Bump PORTREVISIONs for math/mpc update to 1.3.1
commit hash: 8d3e020ed032a8db00208994d0db646de7dc6f5b commit hash: 8d3e020ed032a8db00208994d0db646de7dc6f5b commit hash: 8d3e020ed032a8db00208994d0db646de7dc6f5b commit hash: 8d3e020ed032a8db00208994d0db646de7dc6f5b 8d3e020
Wednesday, 7 Sep 2022
21:10 Stefan Eßer (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, 12 Aug 2022
14:46 Dima Panov (fluffy) search for other commits by this committer
*/*: bump all consumers after recent boost upgrade
commit hash: 4cf39decb348615b9c8a28370d987a85d1b8a5ed commit hash: 4cf39decb348615b9c8a28370d987a85d1b8a5ed commit hash: 4cf39decb348615b9c8a28370d987a85d1b8a5ed commit hash: 4cf39decb348615b9c8a28370d987a85d1b8a5ed 4cf39de
Saturday, 30 Jul 2022
07:34 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Add test target
commit hash: 5c534ae6563c43d6f99baf17f5e8b843e2da06c8 commit hash: 5c534ae6563c43d6f99baf17f5e8b843e2da06c8 commit hash: 5c534ae6563c43d6f99baf17f5e8b843e2da06c8 commit hash: 5c534ae6563c43d6f99baf17f5e8b843e2da06c8 5c534ae
Friday, 29 Jul 2022
19:57 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Update 2.3.1 -> 2.3.5
commit hash: 0a752832a5d6a21cdbacadfa4ca6e68a7d00c7f7 commit hash: 0a752832a5d6a21cdbacadfa4ca6e68a7d00c7f7 commit hash: 0a752832a5d6a21cdbacadfa4ca6e68a7d00c7f7 commit hash: 0a752832a5d6a21cdbacadfa4ca6e68a7d00c7f7 0a75283
Monday, 9 May 2022
19:23 Kevin Bowling (kbowling) search for other commits by this committer
devel/libffi: Bump deps PORTREVISION for shlib change

PR:		263764
Reported by:	VVD <vvd@unislabs.com>
commit hash: db78da8f8b7388d951665362479eb4aa0babf1b4 commit hash: db78da8f8b7388d951665362479eb4aa0babf1b4 commit hash: db78da8f8b7388d951665362479eb4aa0babf1b4 commit hash: db78da8f8b7388d951665362479eb4aa0babf1b4 db78da8
Thursday, 30 Sep 2021
21:23 Rene Ladan (rene) search for other commits by this committer
cleanup: drop support for EOL FreeBSD 11.X

Search criteria used:
- 11.4
- OSREL*
- OSVER*
- *_FreeBSD_11

Input from:
- adridg: devel/qca-legacy
- jbeich: _WITH_DPRINTF, _WITH_GETLINE, GNU bfd workarounds
- sunpoet: security/p5-*OpenSSL*

Reviewed by:	doceng, kde, multimedia, perl, python, ruby, rust
Differential Revision: https://reviews.freebsd.org/D32008
Test Plan: make index
commit hash: 620968a43a5f9bb3fa98ab20f257a4c0d864caa7 commit hash: 620968a43a5f9bb3fa98ab20f257a4c0d864caa7 commit hash: 620968a43a5f9bb3fa98ab20f257a4c0d864caa7 commit hash: 620968a43a5f9bb3fa98ab20f257a4c0d864caa7 620968a
Saturday, 21 Aug 2021
19:02 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Broken on 11

Reported by:	fallout
commit hash: 9352bd72e0b04fdf32d9c63353aabf1a672936fd commit hash: 9352bd72e0b04fdf32d9c63353aabf1a672936fd commit hash: 9352bd72e0b04fdf32d9c63353aabf1a672936fd commit hash: 9352bd72e0b04fdf32d9c63353aabf1a672936fd 9352bd7
Thursday, 22 Apr 2021
17:18 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Update 2.3.0-3 -> 2.3.1

Reported by:	portscout
commit hash: 8ec7f5d3deb04932228c003c0bebfbda541bb181 commit hash: 8ec7f5d3deb04932228c003c0bebfbda541bb181 commit hash: 8ec7f5d3deb04932228c003c0bebfbda541bb181 commit hash: 8ec7f5d3deb04932228c003c0bebfbda541bb181 8ec7f5d
Sunday, 18 Apr 2021
20:19 Yuri Victorovich (yuri) search for other commits by this committer
biology/abyss: Update 2.2.5 -> 2.3.0-3
commit hash: 8e65beb783c9abf477fa85e8437600b6890d94b8 commit hash: 8e65beb783c9abf477fa85e8437600b6890d94b8 commit hash: 8e65beb783c9abf477fa85e8437600b6890d94b8 commit hash: 8e65beb783c9abf477fa85e8437600b6890d94b8 8e65beb
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, 14 Mar 2021
05:17 yuri search for other commits by this committer
biology/abyss: Add PORTSCOUT line
Original commitRevision:568329 
Sunday, 27 Sep 2020
06:59 yuri search for other commits by this committer
biology/abyss: Update 2.2.4 -> 2.2.5

Reported by:	portscout
Original commitRevision:550242 
Saturday, 4 Jul 2020
18:11 zeising search for other commits by this committer
Chanse update of devel/libffi

Chase the devel/libffi update
Bump portrevision of all dependent ports to chace shard library version bump
in libffi.
Update LIB_DEPENDS lines where needed to not require a specific version of
libffi.so.

PR:		247028 (for tracking)
Original commitRevision:541232 
Saturday, 30 May 2020
09:10 yuri search for other commits by this committer
biology/abyss: Update 2.2.3 -> 2.2.4
Original commitRevision:537064 
Sunday, 8 Mar 2020
21:56 jbeich search for other commits by this committer
Drop dependency on devel/openmp

- Drop if devel/llvm* was used as a substitute

Approved by:	yuri, rene (earlier version)
Differential Revision:	https://reviews.freebsd.org/D23020
Original commitRevision:528082 
Saturday, 18 Jan 2020
19:46 yuri search for other commits by this committer
biology/abyss: Broken on i386

Reported by:	fallout
Original commitRevision:523491 
Monday, 13 Jan 2020
04:06 yuri search for other commits by this committer
biology/abyss: Update 2.1.5 -> 2.2.3

Reported by:	portscout
Original commitRevision:522851 
Wednesday, 11 Dec 2019
17:53 jbeich search for other commits by this committer
devel/boost-*: update to 1.72.0

Changes:	http://www.boost.org/users/history/version_1_72_0.html
PR:		241449
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D22136
Original commitRevision:519824 
Saturday, 21 Sep 2019
18:59 jbeich search for other commits by this committer
devel/openmp: update to 9.0.0

- Connect tests to the framework to help QA remaining patches
- Force rebuild all consumers after https://reviews.llvm.org/D59783

Changes:	http://llvm.org/viewvc/llvm-project/openmp/tags/RELEASE_900/final/?view=log
ABI:		https://abi-laboratory.pro/tracker/timeline/llvm_openmp/
Original commitRevision:512535 
Monday, 19 Aug 2019
15:35 jbeich search for other commits by this committer
devel/boost-*: update to 1.71.0

Changes:	http://www.boost.org/users/history/version_1_71_0.html
PR:		238827
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D20774
Original commitRevision:509290 
Friday, 26 Jul 2019
20:46 gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
Original commitRevision:507372 
Friday, 21 Jun 2019
11:43 pkubaj search for other commits by this committer
biology/abyss: fix build on big-endian architectures

Use new GCC from ports on GCC architectures.

Merge 25eb9d2a914fb211fdfe04fcda5593f29fd23ff5, fixes build on GCC
architectures.

Also include sys/endian.h and use bswap32 and bswap64 for byte-swapping (PR at
https://github.com/bcgsc/abyss/pull/287 ).

PR:		238737
Approved by:	yuri (maintainer), mat (mentor)
Differential Revision:	https://reviews.freebsd.org/D20717
Original commitRevision:504788 
Wednesday, 8 May 2019
16:05 jbeich search for other commits by this committer
devel/openmp: phase out

- Expire after the last version without /usr/lib/libomp.so
- Drop SOVERSION for seamless transition (i.e., avoid conditionals)

PR:		236907
Approved by:	bapt (maintainer)
Differential Revision:	https://reviews.freebsd.org/D19767
Original commitRevision:501030 
Friday, 12 Apr 2019
06:36 jbeich search for other commits by this committer
devel/boost-*: update to 1.70.0

Changes:	http://www.boost.org/users/history/version_1_70_0.html
PR:		235956
Exp-run by:	antoine
Differential Revision:	https://reviews.freebsd.org/D19303
Original commitRevision:498698 
Monday, 25 Feb 2019
07:56 yuri search for other commits by this committer
New port: biology/abyss: Assembly By Short Sequences: parallel, paired-end
sequence assembler
Original commitRevision:493842 

Number of commits found: 32