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Author SHA1 Message Date
Stefan Eßer
fb16dfecae Remove WWW entries moved into port Makefiles 
Commit b7f05445c0 has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.

This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.

Approved by:		portmgr (tcberner)
 2022-09-07 23:58:51 +02:00
Stefan Eßer
b7f05445c0 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)
 2022-09-07 23:10:59 +02:00
Joseph Mingrone
d9f5d5d949
biology/diamond: Update to 2.0.15 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.15

Sponsored by:	The FreeBSD Foundation
 2022-04-24 14:50:21 -03:00
Joseph Mingrone
7c428e83c0
biology/diamond: Update to 2.0.14 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.14

Sponsored by:	The FreeBSD Foundation
 2022-01-13 13:42:38 -04:00
Joseph Mingrone
84e457ed42
biology/diamond: Update to 2.0.13 
This update fixes a bug that caused invalid bit scores in frameshift
alignment mode.
 2021-11-11 13:17:24 -04:00
Joseph Mingrone
523d2537b4
biology/diamond: Update to 2.0.12 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.12
 2021-10-12 12:40:55 -03:00
Piotr Kubaj
b6994dfc3e biology/diamond: enable on powerpc64le 2021-10-09 13:49:00 +00:00
Piotr Kubaj
096fef40c5 biology/diamond: enable on powerpc64 2021-10-08 18:19:23 +00:00
Mikael Urankar
63de6c3db6 biology/diamond: Enable on aarch64. 2021-10-08 18:25:09 +02:00
Joseph Mingrone
d0bf21ba1d
biology/diamond: Update to 2.0.11-1 
Includes a build fix for 2.0.11 on FreeBSD

https://github.com/bbuchfink/diamond/releases/tag/v2.0.11
 2021-07-06 10:15:24 -03:00
Joseph Mingrone
43358569be
biology/diamond: Update to 2.0.10 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.10
 2021-07-03 13:25:00 -03:00
Joseph Mingrone
46fc7df854
biology/diamond: Update to 2.0.9 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.9
 2021-04-12 21:55:49 -03:00
Mathieu Arnold
cf118ccf87
One more small cleanup, forgotten yesterday. 
Reported by:	lwhsu
 2021-04-07 10:09:01 +02:00
Mathieu Arnold
305f148f48
Remove # $FreeBSD$ from Makefiles. 2021-04-06 16:31:07 +02:00
Joseph Mingrone
59815b0604 biology/diamond: Update to 2.0.8 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.8
 2021-03-11 12:41:20 +00:00
Joseph Mingrone
93cbba555f biology/diamond: Update to 2.0.7 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.7
 2021-02-17 16:43:27 +00:00
Joseph Mingrone
8d1a5bb642 biology/diamond: Update to version 2.0.6 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.6
 2020-12-20 20:21:41 +00:00
Joseph Mingrone
273b0bb5c1 biology/diamond: Update to version 2.0.5 
https://github.com/bbuchfink/diamond/releases/tag/v2.0.5
 2020-12-01 22:27:24 +00:00
Joseph Mingrone
bc66849a97 biology/diamond: Update to version 2.0.4 
Upstream changes:
https://github.com/bbuchfink/diamond/releases/tag/v2.0.3
https://github.com/bbuchfink/diamond/releases/tag/v2.0.4

Port changes:
Remove a patch that was upstreamed:
https://github.com/bbuchfink/diamond/pull/378
 2020-08-30 16:14:22 +00:00
Joseph Mingrone
c565364c26 biology/diamond: Update to version 2.0.2 
Upstream changes:
https://github.com/bbuchfink/diamond/releases/tag/v2.0.1
https://github.com/bbuchfink/diamond/releases/tag/v2.0.2
 2020-08-07 11:20:11 +00:00
Joseph Mingrone
32248779ba biology/diamond: Update to version 2.0.0 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v2.0.0
 2020-07-28 02:39:00 +00:00
Joseph Mingrone
5848822bf5 biology/diamond: Update to version 0.9.36 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.36
 2020-07-03 11:22:49 +00:00
Joseph Mingrone
bca3b9c7c6 biology/diamond: Update to version 0.9.35 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.35
 2020-06-27 16:26:54 +00:00
Joseph Mingrone
f177208d8a biology/diamond: Update to version 0.9.34 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.34
 2020-06-12 12:12:12 +00:00
Joseph Mingrone
1337e0f38e biology/diamond: Update to version 0.9.33 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.33
 2020-06-03 21:44:36 +00:00
Joseph Mingrone
0c4bc2a086 biology/diamond: Update to version 0.9.32 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.32
 2020-04-24 23:04:14 +00:00
Joseph Mingrone
0ca170c44d biology/diamond: Update to version 0.9.31.2 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.31

Also include two additional commits that fix a build error.
 2020-03-21 22:11:25 +00:00
Joseph Mingrone
586a7eaabb biology/diamond: Update to version 0.9.30 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.30
 2020-02-03 15:55:05 +00:00
Joseph Mingrone
8eb84e2015 biology/diamond: Update to v0.9.29 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.29
 2019-11-20 17:14:29 +00:00
Joseph Mingrone
47738adc67 biology/diamond: Update to version 0.9.28 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.28
 2019-11-07 14:12:07 +00:00
Joseph Mingrone
cf2251f192 biology/diamond: Update to version 0.9.27 (plus one fix) 
Since compiling from source no longer performs a native build, remove
-mtune=generic from CLFAGS when package building.

Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.27
 2019-11-03 01:34:11 +00:00
Joseph Mingrone
1aeb4149fc biology/diamond: Update to version 0.9.26 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.26
 2019-09-18 18:45:09 +00:00
Mathieu Arnold
a6c40a689b Convert to UCL & cleanup pkg-message (categories a-c) 2019-08-13 16:00:39 +00:00
Joseph Mingrone
4d67ec8def biology/diamond: Update to version 0.9.25 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.25
 2019-08-04 23:35:15 +00:00
Joseph Mingrone
3b7c3a4880 biology/diamond: Update to version 0.9.24 
Port changes: Tune for package building based on the author's
recommendation.

Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.24
 2018-12-31 19:00:00 +00:00
Tobias C. Berner
707c6bf295 Change cmake default behaviour to outsource. 
Ports that build out of source now simply can use "USES=cmake"
instead of "USES=cmake:outsource". Ports that fail to build
out of source now need to specify "USES=cmake:insource".

I tried to only set insource where explictely needed.

PR:		232038
Exp-run by:	antoine
 2018-12-25 20:25:39 +00:00
Joseph Mingrone
c9ff93b67d biology/diamond: Update to 0.9.23 plus fixes after release 
Also:
- update license since upstream changed to GPLv3
- only build/package for amd64, since it is untested on other architectures
  and currently does not build on i386

Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.23
 2018-12-17 19:12:38 +00:00
Joseph Mingrone
3a8df683d4 biology/diamond: Update to version 0.9.22 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.22
 2018-05-14 17:17:11 +00:00
Joseph Mingrone
0ec83055e0 biology/diamond: Update to version 0.9.21 
Upstream changes: https://github.com/bbuchfink/diamond/releases
 2018-04-20 21:23:27 +00:00
Joseph Mingrone
763d42349c biology/diamond: Update to version 0.9.19 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.19
 2018-03-17 15:29:13 +00:00
Joseph Mingrone
94e4c0f0fb biology/diamond: Update to version 0.9.18-49 
Pull in commits after the 0.9.18 release for build fixes.

Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.18
 2018-03-15 02:28:09 +00:00
Joseph Mingrone
bcc328fe9b biology/diamond: Update to version 0.9.17 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.17
 2018-02-01 19:20:07 +00:00
Joseph Mingrone
390c5f7f64 biology/diamond: Update to version 0.9.14 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.14
 2017-12-13 16:31:53 +00:00
Joseph Mingrone
6ce3a81f62 biology/diamond: Update to version 0.9.13 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.13
 2017-11-17 20:11:05 +00:00
Joseph Mingrone
587f788379 biology/diamond: Update to version 0.9.12 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.12
 2017-11-08 16:06:50 +00:00
Joseph Mingrone
a29978a882 biology/diamond: Update to 0.9.11 
Upstream changes: https://github.com/bbuchfink/diamond/releases
 2017-11-03 03:45:01 +00:00
Joseph Mingrone
5308546037 biology/diamond: Update to version 0.9.10 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.10
 2017-08-15 20:45:08 +00:00
Joseph Mingrone
7b52e9ffb8 biology/diamond: Update to version 0.9.9 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.9
 2017-07-03 19:12:18 +00:00
Joseph Mingrone
c08b519ed5 biology/diamond: Update to version 0.9.8 2017-06-16 14:49:19 +00:00
Joseph Mingrone
9f1a4d5a79 biology/diamond: Update to version 0.9.4 
Upstream changes: https://github.com/bbuchfink/diamond/releases/tag/v0.9.4
 2017-06-03 12:32:15 +00:00