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74 Commits

Author SHA1 Message Date
David Roman
68fbddeaec */*: drop py3.11 & remove dead py impls 
Part-of: https://github.com/gentoo/guru/pull/447
Closes: https://github.com/gentoo/guru/pull/447
Signed-off-by: David Roman <stkw0@disroot.org>
 2026-03-10 10:54:23 +01:00
Andres Becerra
5ebc91534e sci-biology/jalview-bin: drop 2.11.5.0 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2026-01-26 23:05:27 +01:00
Anna (cybertailor) Vyalkova
6e728aa9e7 sci-biology/cmdock: enable py3.13 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2026-01-03 19:28:33 +05:00
Andres Becerra
1342465486 sci-biology/jalview-bin: add 2.11.5.1 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-12-27 19:23:39 +01:00
Andres Becerra
6b5aa4545d sci-biology/jalview-bin: drop 2.11.4.1 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-10-14 21:51:55 +02:00
Andres Becerra
172b5cdd2a sci-biology/cytoscape-bin: drop 3.10.3 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-10-14 21:51:17 +02:00
Andres Becerra
40f4fe42cc sci-biology/cytoscape-bin: add 3.10.4 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-10-03 14:55:34 +02:00
Andres Becerra
b1d8f3bebc sci-biology/jalview-bin: add 2.11.5.0 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-10-03 14:47:39 +02:00
Andres Becerra
52a2bbb178 sci-biology/cytoscape-bin: JDK definitively needed instead of JRE 
Signed-off-by: Andres Becerra <andres.becerra@gmail.com>
 2025-04-27 20:34:09 +01:00
Andres Becerra
59228d13e9 sci-biology/jalview-bin: restrict to JVM 17 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2025-03-30 20:05:22 +01:00
Andres Becerra
ecbc901dbe sci-biology/jalview-bin: restrict to JVM 17 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2025-03-29 21:37:45 +00:00
Anna (cybertailor) Vyalkova
bb0aae8ad3 */*: disable py3.10 
Python 3.10 target is scheduled for removal in Gentoo:
https://public-inbox.gentoo.org/gentoo-dev/e6ca9f1f4ababb79ab2a3d005c39b483c3ecef6e.camel@gentoo.org/

Sphinx 8.2.0 already dropped support for CPython 3.10 and PyPy 3.10,
leading to multiple CI failures in ::guru.

We can safely remove this target, because GURU is "experimental" and
does not have stable keywords.

Let's not remove "pypy3" right now because
a) There are not many packages using it.
b) So we can see which packages supported PyPy 3.10, and test them with
   PyPy 3.11.

Closes: https://github.com/gentoo/guru/pull/291
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2025-02-21 17:51:14 +05:00
Andrés Becerra
07efeeda18 sci-biology/jalview-bin: upgrade to 2.11.4.1 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-11-28 21:05:52 +00:00
Andrés Becerra
be8daa1d03 sci-biology/cytoscape-bin: add version 3.10.3 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-11-28 20:59:14 +00:00
Anna (cybertailor) Vyalkova
716c771915 sci-biology/cmdock: add myself as a maintainer 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-10-07 05:25:39 +05:00
Wolfgang Müller
b0d9de7fd4 sci-biology/jalview-bin: update Manifest 
Signed-off-by: Wolfgang Müller <wolf@oriole.systems>
 2024-10-01 19:04:10 +02:00
Andrés Becerra
27c76fa765 sci-biology/jalview-bin: bump to 2.11.4.0 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-10-01 16:44:21 +01:00
Anna (cybertailor) Vyalkova
de2cb42154 sci-biology/cmdock: fix boinc deps 
Add "--wrapper" to "boinc-app_add_deps" call.

Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-08-22 05:27:10 +05:00
Anna (cybertailor) Vyalkova
1a76004eaa sci-biology/cmdock: boinc fixes 
* Update cmdline to the upstream current. Particularly, the option that
  causes CmDock to get stuck in an infinite loop in 1-5% of runs is
  removed.

* Sync with boinc-app.eclass updates.

Closes: https://bugs.gentoo.org/935231
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-07-14 12:27:19 +05:00
Anna (cybertailor) Vyalkova
e9427f8954 sci-biology/cmdock: drop 0.2.0-r0 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-07-14 12:27:10 +05:00
Joe Kappus
9d22a109cc */*: switch remaining metadata.xml to https 
gentoo.org 301's to https for a long time now.

Update the stragglers.

Signed-off-by: Joe Kappus <joe@wt.gd>
 2024-06-15 02:15:24 -04:00
Andrés Becerra
f09bcd0d42 sci-biology/jalview-bin: add version 2.11.3.3 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-05-24 21:41:39 +01:00
Andrés Becerra
b275387250 sci-biology/cytoscape-bin: fix https over http 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-05-24 21:35:21 +01:00
Andrés Becerra
fe4ab769d7 sci-biology/cytoscape-bin: add 3.10.2, drop 3.10.1 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-05-24 21:27:06 +01:00
Lucio Sauer
0b616c1310 sci-biology/cytoscape-bin: upgrade HOMEPAGE to https 
Signed-off-by: Lucio Sauer <watermanpaint@posteo.net>
 2024-05-15 04:37:20 +02:00
Lucio Sauer
971c5f4e9e sci-biology/cytoscape-bin: add github upstream metadata 
Signed-off-by: Lucio Sauer <watermanpaint@posteo.net>
 2024-05-15 04:36:26 +02:00
Lucio Sauer
8be6f6ab3f sci-biology/*: fix variable order 
Signed-off-by: Lucio Sauer <watermanpaint@posteo.net>
Signed-off-by: Julien Roy <julien@jroy.ca>
 2024-05-14 20:59:22 -04:00
David Roman
08ec2609da */*: rm sound@, sci-biology@ and proxy-maint@ maintainers 
Signed-off-by: David Roman <davidroman96@gmail.com>
 2024-04-04 19:44:29 +02:00
Julien Roy
3d25d4048d */*: remove empty global variable assigment 
Signed-off-by: Julien Roy <julien@jroy.ca>
 2024-03-21 18:34:41 -04:00
Andrés Becerra
828d452719 sci-biology/cytoscape-bin: new package 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-01-20 20:06:50 +00:00
Anna (cybertailor) Vyalkova
a395a6f2cc Revert "sci-biology/cmdock: make python optional" 
This reverts commit d1a766a474.

Closes: https://bugs.gentoo.org/922486
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-01-20 13:39:36 +05:00
Andrés Becerra
ad299e5836 sci-biology/jalview-bin: add version 2.11.3.2 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-01-18 18:33:13 +00:00
Andrés Becerra
f2f518d846 sci-biology/jalview-bin: fix license 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2024-01-18 18:25:27 +00:00
Anna (cybertailor) Vyalkova
d1a766a474 sci-biology/cmdock: make python optional 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-01-16 16:14:42 +05:00
Takuya Wakazono
ec4d1b0c2f */*: move {app-doc → app-text}/doxygen 
Signed-off-by: Takuya Wakazono <pastalian46@gmail.com>
 2024-01-13 12:18:38 +09:00
Anna (cybertailor) Vyalkova
bf5dd7c748 sci-biology/cmdock: fix build 
Closes: https://bugs.gentoo.org/901345
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-01-09 15:19:50 +05:00
Anna (cybertailor) Vyalkova
aa759c4c98 sci-biology/cmdock: drop *really* unused files 
Closes: https://bugs.gentoo.org/921229
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-01-09 14:06:03 +05:00
Anna (cybertailor) Vyalkova
8f10f75977 Revert "sci-biology/cmdock: remove unused patches" 
This reverts commit 1298cd2534.

Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2024-01-09 14:06:02 +05:00
Michael Mair-Keimberger
1298cd2534 sci-biology/cmdock: remove unused patches 
Signed-off-by: Michael Mair-Keimberger <mmk@levelnine.at>
 2023-12-30 19:20:01 +01:00
Huang Rui
8fb2de166c sci-biology/jalview-bin: add missing Manifest, fix QA 
Signed-off-by: Huang Rui <vowstar@gmail.com>
 2023-11-02 15:51:40 +08:00
Andrés Becerra
00b2cc2eb3 New ebuild for JalView (binary) 
Signed-off-by: Andrés Becerra <andres.becerra@gmail.com>
 2023-10-30 20:46:21 +00:00
Viorel Munteanu
9945d10952 */*: reassign cybertailor's packages 
Signed-off-by: Viorel Munteanu <ceamac@gentoo.org>
 2023-10-05 17:04:11 +03:00
Anna (cybertailor) Vyalkova
ed9fb41143 sci-biology/geneathome: update app_info.xml 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-06-12 22:58:30 +05:00
Anna (cybertailor) Vyalkova
9ea5a49aa1 sci-biology/geneathome: fix build with gcc 13 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-06-11 17:14:34 +05:00
Anna (cybertailor) Vyalkova
12088906c5 */*: drop dead py3.9 impl 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-05-02 00:45:35 +05:00
Anna (cybertailor) Vyalkova
1e95f22062 */*: update metadata schema uri 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-03-04 18:56:32 +05:00
Anna (cybertailor) Vyalkova
5921ae942a sci-biology/cmdock: drop 0.1.4-r2 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-02-19 10:26:31 +05:00
Anna (cybertailor) Vyalkova
43200432ac sci-biology/cmdock: add 0.2.0 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2023-01-07 14:40:44 +05:00
Anna (cybertailor) Vyalkova
2c7621909e sci-biology/cmdock: update SRC_URI 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2022-12-12 16:43:44 +05:00
Anna (cybertailor) Vyalkova
c7742604b7 sci-biology/cmdock: drop 0.1.3-r1 
Signed-off-by: Anna (cybertailor) Vyalkova <cyber+gentoo@sysrq.in>
 2022-12-12 16:43:09 +05:00