Atemu
9bd2506458
treewide: make ffmpeg_4-dependant packages depend on ffmpeg_4
...
These packages were identified as broken when ffmpeg = ffmpeg_5.
Tested _only_ by building them. If you are a maintainer of one of these
packages, please test whether your package still works.
2023-03-13 16:42:22 -06:00
R. Ryantm
77c83ddbc9
diamond: 2.1.4 -> 2.1.5
2023-03-11 18:22:58 +00:00
R. Ryantm
e175a2ea68
diamond: 2.1.3 -> 2.1.4
2023-03-04 15:44:53 +00:00
R. Ryantm
99785ee90e
picard-tools: 2.27.5 -> 3.0.0
2023-03-01 14:43:38 +00:00
Weijia Wang
ccd9d6da1e
Merge pull request #218118 from r-ryantm/auto-update/diamond
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diamond: 2.1.1 -> 2.1.3
2023-02-27 21:28:18 +02:00
Artturi
1c6a1e5650
Merge pull request #218500 from alyssais/pythonForBuild
2023-02-27 18:17:27 +02:00
Weijia Wang
21bb99733d
Merge pull request #218342 from r-ryantm/auto-update/bcftools
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bcftools: 1.16 -> 1.17
2023-02-27 18:02:55 +02:00
Alyssa Ross
2bfa93e01c
treewide: python{ => .pythonForBuild}.interpreter
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It won't be enough to fix cross in all cases, but it is in at least
one: pywayland. I've only made the change in cases I'm confident it's
correct, as it would be wrong to change this when python.interpreter
is used in wrappers, and possibly when it's used for running tests.
2023-02-26 20:26:17 +00:00
R. Ryantm
f2465e1ecf
neuron-full: 8.2.1 -> 8.2.2
2023-02-26 05:18:37 +00:00
R. Ryantm
95ca5f576c
bcftools: 1.16 -> 1.17
2023-02-25 23:02:27 +00:00
Weijia Wang
c8ba046415
Merge pull request #217897 from DavidCromp/nest
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nest: fix Python & Darwin
2023-02-25 19:47:22 +02:00
DavidCromp
5ce4a02687
nest: fix Python & Darwin
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Removed auto-patch-elf and replaced with find command that moves
libraries where they are expected by nest. Auto-patchelf isn't
supported on aarch64, so I copied my local derivation fix I've been
using.
PyNEST also requires numpy, so that has been added to
propagatedbuildinputs.
Also added support for OpenMP on Darwin.
2023-02-25 10:28:59 -05:00
Artturi
8e027ec1d1
Merge pull request #218240 from amesgen/tandem-aligner-fix-build-gcc-12
2023-02-25 15:35:12 +02:00
amesgen
a85b73c514
tandem-aligner: fix build with GCC 12
2023-02-25 13:40:11 +01:00
R. Ryantm
60ee2eaf54
diamond: 2.1.1 -> 2.1.3
2023-02-24 23:46:09 +00:00
Artturin
f9fdf2d402
treewide: move NIX_CFLAGS_COMPILE to the env attrset
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with structuredAttrs lists will be bash arrays which cannot be exported
which will be a issue with some patches and some wrappers like cc-wrapper
this makes it clearer that NIX_CFLAGS_COMPILE must be a string as lists
in env cause a eval failure
2023-02-22 21:23:04 +02:00
Artturin
6f6cc4a22d
treewide: use toString on list NIX_CFLAGS_COMPILE
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with structuredAttrs lists will be bash arrays which cannot be exported
which will be a issue with some patches and some wrappers like cc-wrapper
2023-02-22 21:23:04 +02:00
DavidCrompton1192@gmail.com
77aed40027
neuron: 7.5 -> 8.2.1
2023-02-21 13:52:34 -05:00
Ferry Jérémie
bfac2d0034
treewide:replace http by https when https is a permanent redirection
2023-02-19 21:47:59 +01:00
Sandro
ab78a72cd0
Merge pull request #198872 from jiegec/nest
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nest: init at 3.3
2023-02-17 13:53:52 +01:00
Felix Buehler
cdb39a86e0
treewide: use optionalString
2023-02-13 21:52:34 +01:00
Felix Bühler
fb2c37b576
Merge pull request #216064 from Stunkymonkey/treewide-pname-version-1
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inormalize/minc-widgets/gimp-plugins: use pname & version
2023-02-13 19:25:08 +01:00
Alyssa Ross
c6c7493c3b
Merge remote-tracking branch 'origin/master' into staging-next
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Conflicts:
pkgs/development/python-modules/pyarrow/default.nix
2023-02-13 00:15:28 +00:00
Felix Buehler
db348eb0d6
inormalize/minc-widgets/gimp-plugins: use pname & version
2023-02-12 22:21:44 +01:00
R. Ryantm
10c93d977d
last: 1445 -> 1447
2023-02-12 17:14:30 +00:00
github-actions[bot]
15bfb025ab
Merge master into staging-next
2023-02-11 18:01:19 +00:00
R. Ryantm
cc7591f90e
eggnog-mapper: 2.1.9 -> 2.1.10
2023-02-11 08:43:59 +00:00
github-actions[bot]
9be52f693f
Merge master into staging-next
2023-02-10 12:01:38 +00:00
R. Ryantm
b64bc146ed
diamond: 2.1.0 -> 2.1.1
2023-02-10 02:56:54 +00:00
github-actions[bot]
b30088fc3f
Merge master into staging-next
2023-02-07 00:02:12 +00:00
R. Ryantm
38e3d21824
stacks: 2.60 -> 2.62
2023-02-06 21:36:49 +01:00
github-actions[bot]
b2a1140ada
Merge master into staging-next
2023-02-06 06:01:25 +00:00
R. Ryantm
0fd2901e31
varscan: 2.4.4 -> 2.4.5
2023-02-05 13:38:28 +00:00
github-actions[bot]
cb231fb28d
Merge master into staging-next
2023-02-05 06:01:18 +00:00
R. Ryantm
eadaccaa42
igv: 2.15.5 -> 2.16.0
2023-02-04 18:01:58 +00:00
github-actions[bot]
6d7be19afb
Merge master into staging-next
2023-02-02 18:01:08 +00:00
Sandro
a9cadfb7b8
Merge pull request #213490 from OPNA2608/refactor/yaml-cpp
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yaml-cpp*: Refactor, rename, adopt
2023-02-02 17:32:34 +01:00
Vladimír Čunát
9287f4461d
Merge #206907 : stdenv: gcc11 -> gcc12
2023-02-01 16:54:44 +01:00
OPNA2608
c9b4c7dccd
treewide: Rename libyamlcpp* to yaml-cpp*
2023-01-31 16:22:54 +01:00
Nick Cao
c84edce4ec
Merge pull request #213063 from r-ryantm/auto-update/diamond
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diamond: 2.0.15 -> 2.1.0
2023-01-31 16:47:56 +08:00
Fabián Heredia Montiel
0cf5d85f0c
treewide: add gcc12 flags
2023-01-27 21:20:52 -06:00
R. Ryantm
01c2d762f3
diamond: 2.0.15 -> 2.1.0
2023-01-28 02:58:32 +00:00
Ben Darwin
b27838807e
ants: unpin vtk dependency
2023-01-27 00:21:26 -05:00
Fabian Affolter
bf0a5df606
Merge pull request #212793 from fabaff/last-fix
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last: 1422 -> 1445
2023-01-26 20:06:44 +01:00
Fabian Affolter
e14e8f5f31
last: 1422 -> 1445
2023-01-26 16:10:25 +01:00
R. Ryantm
422b1c5144
igv: 2.15.4 -> 2.15.5
2023-01-25 17:03:16 +00:00
Justin Bedő
ed15930675
Merge pull request #211057 from r-ryantm/auto-update/last
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last: 1411 -> 1422
2023-01-23 22:22:52 +00:00
Sandro
7726aa9ce6
Merge pull request #206287 from amesgen/add-TandemAligner
2023-01-23 23:12:36 +01:00
Weijia Wang
02d3fe6418
Merge pull request #212113 from r-ryantm/auto-update/sambamba
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sambamba: 0.8.2 -> 1.0.0
2023-01-23 21:01:50 +01:00
Nick Cao
06d76bd44e
Merge pull request #210641 from r-ryantm/auto-update/star
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star: 2.7.10a -> 2.7.10b
2023-01-23 16:16:01 +08:00
