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8687 Commits

Author SHA1 Message Date
R. Ryantm
2f143de8fd phd2: 2.6.11 -> 2.6.12 2023-11-22 05:33:54 +00:00
annalee
540ea20215
lp_solve: ignore implicit int warnings, add x64 darwin ldflags 
the configuration code generates small c programs with a main function
sans return type specifer. this causes clang builds to fail. add
'-Wno-error=implicit-int' to fix the build.

add -headerpad_max_install_names to env.NIX_LDFLAGS for x64 darwin
 2023-11-22 03:28:26 +00:00
Alexis Praga
75fc8ae0f4 perlPackages.BioBigFile: Addressing reviewer change 2023-11-21 23:16:39 +01:00
Alexis Praga
cc4bd30387 perlPackages.BioBigfile: init at 1.07 
Perl interface to manipulate BigWig and BigBeg files (for genomics)
This will be used to package VEP : uttps://www.ensembl.org/info/docs/tools/vep/script/vep_download.html

For that, only kent version 335 works at the moment.
For this commit, 2 commits for kent are needed
- e027a5d836 : packaging kent header
- 2b2c6f4c28 : enabling patches in kent
 2023-11-21 23:16:12 +01:00
R. Ryantm
110e47b449 wxmaxima: 23.10.0 -> 23.11.0 2023-11-21 21:10:32 +00:00
R. Ryantm
f23cd2617d cadical: 1.8.0 -> 1.9.0 2023-11-21 17:11:06 +00:00
Andreas Rammhold
9808815f41 xflr5: 6.47 -> 6.61 
This updates to the latest version. Unfortunately the project stopped
publishing source tarballs in the way we used to consume them. We've
to retrieve a source snapshot from sourceforge's SVN service instead.
The alternative would be a subversion checkout which I don't think is
any better or worse.
 2023-11-20 18:45:41 +01:00
ajs124
f1f62c94f6
Merge pull request #267114 from katexochen/maintainers/jfrankenau 
maintainers: remove jfrankenau
 2023-11-20 12:26:57 +01:00
Vincent Laporte
181a9fe1ea easycrypt: fix runtest command 
The `ec-runtest` program is still available as a separate
easycrypt-runtest package, but the `easycrypt runtest` command now also
works out-of-the-box.
 2023-11-20 09:04:33 +01:00
Paul Meyer
2c97a5caa7 maintainers: remove jfrankenau 
due to inactivity.
 2023-11-20 08:44:58 +01:00
Vincent Laporte
4800982f99 hol_light: 2023-07-21 → 2023-11-03 2023-11-20 07:03:45 +01:00
R. Ryantm
bac54b6e1b eigenmath: unstable-2023-10-26 -> unstable-2023-11-17 2023-11-18 21:18:16 +00:00
TelepathicWalrus
88387cffd2 update sources 2023-11-18 11:37:58 +00:00
Adam Joseph
c7e0f6b905 treewide: s_targetPlatform_hostPlatform_ in non-compiler packages 
stdenv.targetPlatform really shouldn't be used by software that
doesn't generate or manipulate binaries.  I reviewed all uses of
targetPlatform outside of pkgs/development/compilers and pkgs/stdenv
and replaced those which weren't involved in something which fits
these criteria.
 2023-11-17 08:07:34 +00:00
annalee
38eccd74c3
eprover: update hash - target modified inplace 
the last commit was Wed Nov 15 13:09:21 2023 +0000 but the target, E.tgz
was modified at 2023-11-15 23:29 (assuming utc)
https://wwwlehre.dhbw-stuttgart.de/~sschulz/WORK/E_DOWNLOAD/V_3.0/
 2023-11-17 04:12:46 +00:00
Viktor Sonesten
dd6fa9c2e6 mujoco: 3.0.0 -> 3.0.1 2023-11-16 19:09:22 +01:00
github-actions[bot]
dba5c9ef4e
Merge master into staging-next 2023-11-16 18:01:17 +00:00
Jeremy Fleischman
d0bec347c4 kicadAddons.kikit,kicadAddons.kikit-library: init at 1.3.0 
Create a new kicadAddons package set, and a mechanism to override
kicad to bundle addons.

Co-authored-by: Rohit <rohitsutradhar311@gmail.com>
Co-authored-by: Jeremy Fleischman <jeremyfleischman@gmail.com>
Co-authored-by: Shahar "Dawn" Or <mightyiampresence@gmail.com>
Co-authored-by: Alejandro Sanchez Medina <alejandrosanchzmedina@gmail.com>
Co-authored-by: Matúš Ferech <matus.ferech@gmail.com>
 2023-11-16 21:24:05 +07:00
Vladimír Čunát
0fe5300699
Merge branch 'master' into staging-next 2023-11-16 09:49:24 +01:00
7c6f434c
91c993afb9
Merge pull request #267664 from r-ryantm/auto-update/eprover 
eprover: 2.6 -> 3.0
 2023-11-15 23:52:24 +00:00
Alex Martens
0e1c4b8429 verilator: 5.016 -> 5.018 2023-11-15 14:54:37 -06:00
zimbatm
21c4107d3e gromacs: add the plumed patches 
plumed 2.9.0 only supports gromacs-2023 so I had to downgrade the
package as well.
 2023-11-15 18:28:24 +01:00
Nick Cao
4211246b55
Merge pull request #267679 from r-ryantm/auto-update/picard-tools 
picard-tools: 3.1.0 -> 3.1.1
 2023-11-15 11:08:55 -05:00
R. Ryantm
282aede4e4 picard-tools: 3.1.0 -> 3.1.1 2023-11-15 14:35:32 +00:00
R. Ryantm
e13386b72e eprover: 2.6 -> 3.0 2023-11-15 13:09:21 +00:00
Vladimír Čunát
c46eae0f35
Merge branch 'master' into staging-next 2023-11-15 07:33:10 +01:00
Mario Rodas
5268a6e24b
Merge pull request #267372 from cu1ch3n/update-abella 
abella: 2.0.7 -> 2.0.8
 2023-11-14 19:02:22 -05:00
github-actions[bot]
6cc772a6fa
Merge master into staging-next 2023-11-14 18:01:11 +00:00
Madoura
9709e96e1e
treewide: make 'gpuBackend' use 'config.(cuda|rocm)Support' 2023-11-14 08:44:42 -06:00
Chen
109bef7af3 abella: 2.0.7 -> 2.0.8 2023-11-14 13:38:26 +08:00
github-actions[bot]
772c3bbbf5
Merge master into staging-next 2023-11-14 00:02:14 +00:00
Pascal Bach
f524257148
Merge pull request #266008 from r-ryantm/auto-update/dsview 
dsview: 1.3.0 -> 1.3.1
 2023-11-13 22:16:44 +01:00
Fabián Heredia Montiel
884449105e Merge remote-tracking branch 'origin/master' into staging-next 2023-11-13 14:31:51 -06:00
Artturi
b5bd1053d2
Merge pull request #266273 from evils/xnec2c 2023-11-13 21:17:11 +02:00
Uri Shaked
4335400d78 magic-vlsi: 8.3.446 -> 8.3.447 2023-11-13 11:30:40 +02:00
Alexis Praga
2b2c6f4c28 kent: enable patches if needed. 
This is required by BioBigFile, which needs an older Kent version.
 2023-11-12 21:46:39 +01:00
Weijia Wang
74d102ce50 Merge branch 'master' into staging-next 2023-11-12 19:45:20 +01:00
Uri Shaked
ac5c40ee45 magic-vlsi: 8.3.277 -> 8.3.446 2023-11-12 12:01:48 -06:00
Viktor Sonesten
290bc1fbe0 mujoco: 2.3.7 -> 3.0.0, add Python bindings 
https://mujoco.readthedocs.io/en/stable/changelog.html#version-3-0-0-october-18-2023

Fixes #262698
Fixes #262629
Fixes #262593

Co-authored-by: Silvio Traversaro <silvio@traversaro.it>
 2023-11-12 11:45:20 +01:00
github-actions[bot]
eb26e06e9b
Merge master into staging-next 2023-11-12 06:01:07 +00:00
Pierre Bourdon
4098144884
Merge pull request #266486 from Luflosi/update/yosys 
yosys: 0.34 -> 0.35
 2023-11-12 03:24:48 +01:00
github-actions[bot]
9776723357
Merge master into staging-next 2023-11-11 18:00:58 +00:00
Anthony Roussel
e30f48be94
treewide: fix redirected and broken URLs 
Using the script in maintainers/scripts/update-redirected-urls.sh
 2023-11-11 10:49:01 +01:00
Weijia Wang
d8ebb73023 Merge branch 'master' into staging-next 2023-11-10 16:25:02 +01:00
7c6f434c
5c93b37109
Merge pull request #264760 from r-ryantm/auto-update/R 
R: 4.3.1 -> 4.3.2
 2023-11-10 15:12:42 +00:00
Alyssa Ross
afabc4a15d
Merge remote-tracking branch 'origin/master' into HEAD 
Conflicts:
	pkgs/development/libraries/SDL2/default.nix
 2023-11-10 15:18:19 +01:00
R. Ryantm
a7b54e1136 seqkit: 2.5.1 -> 2.6.0 2023-11-10 12:50:42 +00:00
Renato Garcia
3c87cb32f0
snakemake: 7.29.0 -> 7.32.4 (#266543) 2023-11-10 06:48:45 -05:00
github-actions[bot]
b55905ceb6
Merge master into staging-next 2023-11-10 06:01:22 +00:00
Silvan Mosberger
fb2e311d1e root5: Fix build with Python 3.11 
Was broken since the Python update from https://github.com/NixOS/nixpkgs/pull/251878

This should fix the apfelgrid and applgrid builds, not tested yet
 2023-11-09 19:01:58 +01:00
github-actions[bot]
e112f9b8bb
Merge master into staging-next 2023-11-09 18:00:56 +00:00
R. Ryantm
70bc041b9c bedtools: 2.31.0 -> 2.31.1 2023-11-09 06:18:08 +00:00
R. Ryantm
8f0fc5a2eb sumo: 1.18.0 -> 1.19.0 2023-11-08 23:02:41 +00:00
Luflosi
783a01c64e
abc-verifier: unstable-2023-09-13 -> unstable-2023-10-13 2023-11-08 15:21:35 +01:00
Luflosi
9882bdee1e
abc-verifier: cleanup 
- Move each function argument into its own line
- Use `finalAttrs` instead of the `rec` keyword to properly handle overriding
- Run the `preInstall` and `postInstall` hooks in the `installPhase`
- Use `install` instead of `mkdir -p` and `mv` to be more concise
 2023-11-08 15:21:34 +01:00
Luflosi
0942f79dda
abc-verifier: add Luflosi as maintainer 2023-11-08 15:21:31 +01:00
Evils
47a196d1f8 xnec2c: add wrapGAppsHook 2023-11-08 14:47:04 +01:00
github-actions[bot]
263a89fa08
Merge master into staging-next 2023-11-08 12:01:20 +00:00
Weijia Wang
67fc292e5a
Merge pull request #266136 from wegank/stellarium-fix 
stellarium: fix version
 2023-11-08 12:12:26 +01:00
Adam Joseph
ba2ed469c2
Merge branch 'master' into staging-next 2023-11-08 06:15:46 +00:00
Justin Bedő
5cd7971391
Merge pull request #264872 from r-ryantm/auto-update/last 
last: 1471 -> 1499
 2023-11-08 09:21:48 +11:00
Artturi
d24da52844
Merge pull request #265764 from amjoseph-nixpkgs/pr/pythonForBuild 2023-11-08 00:13:25 +02:00
Weijia Wang
73698c7c06 stellarium: fix version 2023-11-07 21:23:26 +01:00
github-actions[bot]
bed56440cb
Merge master into staging-next 2023-11-07 12:00:57 +00:00
R. Ryantm
6ff2f664cd polymake: 4.10 -> 4.11 2023-11-07 10:26:26 +00:00
Weijia Wang
1136113354
Merge pull request #265975 from wegank/readstat-clang-16 
readstat: fix build with clang 16
 2023-11-07 09:22:07 +01:00
R. Ryantm
71e8d7a47b dsview: 1.3.0 -> 1.3.1 2023-11-07 07:00:00 +00:00
Weijia Wang
311c0ae699 Merge branch 'master' into staging-next 2023-11-07 03:22:29 +01:00
Weijia Wang
c97fbef1f3
Merge pull request #265981 from wegank/root-patches-drop 
root: drop patches
 2023-11-07 03:20:41 +01:00
Weijia Wang
5827957a06 root: drop patches 2023-11-07 02:42:16 +01:00
Weijia Wang
7cf44d8b0a readstat: fix build with clang 16 2023-11-07 02:07:06 +01:00
github-actions[bot]
38bc2a577e
Merge master into staging-next 2023-11-07 00:02:31 +00:00
Dmitry Kalinkin
93b63a2cab
Merge pull request #265514 from xworld21/treewide-texlive-with-packages 
treewide: switch to texlive.withPackages
 2023-11-06 16:47:04 -05:00
Adam Joseph
bc2d598878 treewide: change pythonForBuild to pythonOnBuildForHost 2023-11-05 17:42:12 -08:00
github-actions[bot]
b23f12e076
Merge master into staging-next 2023-11-06 00:02:12 +00:00
Evils
3580ff791f kicad: 7.0.8 -> 7.0.9 2023-11-05 17:45:34 +01:00
Evils
6d6e7afdc8 kicad: 7.0.7 -> 7.0.8 2023-11-05 17:39:18 +01:00
Vincenzo Mantova
69899e59a2 R: replace texlive.combine with texliveSmall.withPackages 2023-11-05 13:43:30 +00:00
Markus Kowalewski
3d4c831671 nwchem: 7.2.1 -> 7.2.2 2023-11-05 14:08:05 +01:00
Vincenzo Mantova
9b4d056ec5 xyce: replace texlive.combine with texliveMedium.withPackages 2023-11-05 11:56:05 +00:00
Vincenzo Mantova
eb6eef1073 singular: replace texlive.combined.scheme-small with texliveSmall 2023-11-05 11:56:04 +00:00
Vincenzo Mantova
37726ded83 giac: replace texlive.combined.scheme-small with texliveSmall 2023-11-05 11:56:03 +00:00
Vincenzo Mantova
d589dcc0e9 openmolcas: replace texlive.combined.scheme-minimal with texliveMinimal 2023-11-05 11:56:03 +00:00
Vincenzo Mantova
fb56552789 pari: replace texlive.combined.scheme-basic with texliveBasic 2023-11-05 11:54:55 +00:00
Weijia Wang
ed6188ec2f
Merge pull request #265253 from wegank/verilog-clang 
verilog: fix build on darwin
 2023-11-04 19:05:27 +01:00
Weijia Wang
9627659c22 Merge branch 'master' into staging-next 2023-11-04 17:27:09 +01:00
Weijia Wang
ef0caaefce verilog: fix build on darwin 2023-11-04 17:19:51 +01:00
R. Ryantm
f0ae83ce52 gwyddion: 2.63 -> 2.64 2023-11-04 09:13:11 -07:00
R. Ryantm
c526304148 uhdm: 1.76 -> 1.77 2023-11-04 09:08:43 -07:00
Weijia Wang
44f16f33cc Merge branch 'master' into staging-next 2023-11-04 01:43:45 +01:00
Weijia Wang
91eee2a69e
Merge pull request #262844 from r-ryantm/auto-update/qgroundcontrol 
qgroundcontrol: 4.2.8 -> 4.2.9
 2023-11-04 00:46:03 +01:00
github-actions[bot]
db0a71076b
Merge master into staging-next 2023-11-03 12:01:07 +00:00
OTABI Tomoya
9b586ea68f
Merge pull request #243431 from natsukium/kssd/update 
kssd: 1.1 -> 2.21; enable aarch64-linux support
 2023-11-03 20:15:48 +09:00
natsukium
10c3a40621
kssd: enable aarch64-linux support & tests 2023-11-03 19:34:28 +09:00
natsukium
847c506eae
kssd: refactor 2023-11-03 19:34:28 +09:00
natsukium
fdc1ddd305
kssd: 1.1 -> 2.21 
Diff: https://github.com/yhg926/public_kssd/compare/v1.1...v2.21
 2023-11-03 19:34:28 +09:00
OTABI Tomoya
6847716409
Merge pull request #264692 from wegank/gdal-fix-pre 
superlu, apbs, hdf4: fix build with clang 16
 2023-11-03 10:39:45 +09:00
github-actions[bot]
29efc257c0
Merge master into staging-next 2023-11-02 18:01:07 +00:00
Pablo Ovelleiro Corral
5c90581563 coq: fix hompage url 
Just a trivial nitpick
 2023-11-02 15:26:30 +01:00
R. Ryantm
901dcdf4df kallisto: 0.50.0 -> 0.50.1 2023-11-02 11:02:00 +00:00
R. Ryantm
c783a977dc last: 1471 -> 1499 2023-11-01 19:08:21 +00:00
github-actions[bot]
4a533d29ce
Merge master into staging-next 2023-11-01 12:01:10 +00:00
R. Ryantm
454e029519 mmseqs2: 14-7e284 -> 15-6f452 2023-11-01 09:19:34 +00:00
Mauricio Collares
2849cfb6e6
Merge pull request #264591 from collares/sage-sphinx-7 
[staging-next] sageWithDoc: import sphinx 7 and 7.2 upgrade patches
 2023-11-01 08:53:38 +01:00
R. Ryantm
3c7be35913 R: 4.3.1 -> 4.3.2 2023-11-01 07:19:05 +00:00
Weijia Wang
66bcff76eb apbs: fix build with clang 16 2023-11-01 00:34:30 +01:00
github-actions[bot]
81270bbdcf
Merge master into staging-next 2023-10-31 18:01:02 +00:00
Mauricio Collares
43405a49a4 sageWithDoc: import sphinx 7 and 7.2 upgrade patches 2023-10-31 14:02:27 +01:00
Mario Rodas
7d0a063a1a
Merge pull request #264551 from r-ryantm/auto-update/boinc 
boinc: 7.24.1 -> 7.24.2
 2023-10-31 07:11:59 -05:00
github-actions[bot]
2fd5f8dd7a
Merge master into staging-next 2023-10-31 12:01:11 +00:00
R. Ryantm
9ca6747e6b boinc: 7.24.1 -> 7.24.2 2023-10-31 08:44:00 +00:00
github-actions[bot]
97868dae8e
Merge master into staging-next 2023-10-31 06:00:58 +00:00
Mario Rodas
f811a92b7b
Merge pull request #256550 from bcdarwin/opencv-updates 
{caffe,mxnet,sdrangel,video2midi,waifu2x-converter-cpp}: opencv3 -> opencv4
 2023-10-30 22:21:15 -05:00
github-actions[bot]
135430eb60
Merge master into staging-next 2023-10-31 00:02:27 +00:00
Felix Bühler
83dbda68a8
Merge pull request #263781 from r-ryantm/auto-update/clp 
clp: 1.17.8 -> 1.17.9
 2023-10-30 23:31:02 +01:00
Mario Rodas
39042adae3 lean4: 4.1.0 -> 4.2.0 
Diff: https://github.com/leanprover/lean4/compare/v4.1.0...v4.2.0

Changelog: https://github.com/leanprover/lean4/blob/v4.2.0/RELEASES.md
 2023-10-30 04:20:00 +00:00
github-actions[bot]
571f1df5e4
Merge master into staging-next 2023-10-29 12:00:57 +00:00
OTABI Tomoya
d9603c14be
Merge pull request #263887 from r-ryantm/auto-update/qucs-s 
qucs-s: 2.0.0 -> 2.1.0
 2023-10-29 16:47:43 +09:00
github-actions[bot]
52b6b90243
Merge master into staging-next 2023-10-28 18:00:57 +00:00
Guillaume Girol
97da6c943d
Merge pull request #262311 from scalavision/update-deeptools 
deeptools: 3.5.1 -> 3.5.4
 2023-10-28 16:51:14 +02:00
markuskowa
10a91eeeb1
Merge pull request #263844 from r-ryantm/auto-update/jmol 
jmol: 16.1.41 -> 16.1.43
 2023-10-28 16:31:51 +02:00
github-actions[bot]
81ed2302dc
Merge master into staging-next 2023-10-28 06:00:57 +00:00
OTABI Tomoya
ae84a36b66
Merge pull request #262697 from natsukium/dssp/update 
dssp: 4.4.3 -> 4.4.4.1; libcifpp: 5.2.1 -> 5.2.2
 2023-10-28 12:20:29 +09:00
R. Ryantm
2189d5d178 qucs-s: 2.0.0 -> 2.1.0 2023-10-28 02:19:22 +00:00
Weijia Wang
90e0e54124
Merge pull request #261508 from r-ryantm/auto-update/raxml 
raxml: 8.2.12 -> 8.2.13
 2023-10-28 03:30:42 +02:00
github-actions[bot]
4791949f6a
Merge master into staging-next 2023-10-28 00:02:23 +00:00
R. Ryantm
ddb42e2e09 jmol: 16.1.41 -> 16.1.43 2023-10-27 19:51:26 +00:00
github-actions[bot]
4c838ddf14
Merge master into staging-next 2023-10-27 18:01:08 +00:00
Phillip Seeber
bde9b25ce2 cp2k: allow fortran argument mismatches 2023-10-27 17:25:24 +02:00
Randy Eckenrode
0194cd67af
aiger: fix build with clang 16 
Add missing header to resolve implicit decalaration of `isatty`.
 2023-10-27 08:58:05 -04:00
R. Ryantm
160cafb403 clp: 1.17.8 -> 1.17.9 2023-10-27 12:28:56 +00:00
R. Ryantm
ee3ee9adc4 eigenmath: unstable-2023-08-03 -> unstable-2023-10-26 2023-10-27 04:14:57 +00:00
Vladimír Čunát
d811555465
Merge branch 'staging' into staging-next 2023-10-26 10:36:50 +02:00
Nick Cao
de2dcc2689
Merge pull request #263313 from r-ryantm/auto-update/delly 
delly: 1.1.7 -> 1.1.8
 2023-10-25 09:22:20 -04:00
Vladimír Čunát
47b0ad3d47
Merge #257301: cairo: 1.16.0 -> 1.18.0 
...into staging
 2023-10-25 13:05:42 +02:00
R. Ryantm
bda407e1c8 delly: 1.1.7 -> 1.1.8 2023-10-25 10:07:12 +00:00
R. Ryantm
1d182037be cryptominisat: 5.11.14 -> 5.11.15 2023-10-25 06:22:19 +00:00
Fabián Heredia Montiel
c895e2397b
Merge pull request #263067 from r-ryantm/auto-update/xschem 
xschem: 3.1.0 -> 3.4.4
 2023-10-24 15:04:49 -06:00
Doron Behar
ed6f836f54
Merge pull request #263037 from r-ryantm/auto-update/wxmaxima 
wxmaxima: 23.02.1 -> 23.10.0
 2023-10-24 17:01:55 +00:00
Weijia Wang
a6e3ae5ced
Merge pull request #260097 from Et7f3/fix_calc_darwin 
calc: fix substituteInPlace call
 2023-10-24 07:52:31 +02:00
R. Ryantm
94ca57375c xschem: 3.1.0 -> 3.4.4 2023-10-24 04:29:15 +00:00
Weijia Wang
b6d8f859e5
Merge pull request #262899 from vbgl/proverif-2.05 
proverif: 2.04 → 2.05
 2023-10-24 03:56:48 +02:00
R. Ryantm
8828ad054a wxmaxima: 23.02.1 -> 23.10.0 2023-10-23 21:56:00 +00:00
github-actions[bot]
2c2c0379b7
Merge staging-next into staging 2023-10-23 12:02:04 +00:00
Vincent Laporte
ee0d269562
proverif: 2.04 → 2.05 2023-10-23 12:07:37 +02:00
R. Ryantm
69919a28af verilator: 5.012 -> 5.016 2023-10-23 03:57:51 -05:00
github-actions[bot]
9f5438ccdf
Merge staging-next into staging 2023-10-23 06:01:38 +00:00
Weijia Wang
b6dfb5223d
Merge pull request #261588 from wegank/geda-xorn 
geda: drop xorn
 2023-10-23 02:29:39 +02:00
R. Ryantm
4b89da7980 qgroundcontrol: 4.2.8 -> 4.2.9 2023-10-23 00:17:20 +00:00
github-actions[bot]
3d9ca9d8e3
Merge staging-next into staging 2023-10-22 18:01:34 +00:00
natsukium
30e00f04e3
dssp: 4.4.3 -> 4.4.4.1 
Diff: https://github.com/PDB-REDO/dssp/compare/refs/tags/v4.4.3...v4.4.4.1

Changelog: https://github.com/PDB-REDO/libcifpp/releases/tag/refs/tags/v4.4.4.1
 2023-10-22 18:22:11 +09:00
R. Ryantm
8253629e61 gnuastro: 0.20 -> 0.21 2023-10-22 09:14:20 +00:00
github-actions[bot]
e5968ce788
Merge staging-next into staging 2023-10-21 06:01:24 +00:00
github-actions[bot]
1c4183d88a
Merge master into staging-next 2023-10-21 06:00:57 +00:00
OTABI Tomoya
0686263a23
Merge pull request #227090 from natsukium/bowtie2/aarch64 
bowtie2: fix build on aarch64
 2023-10-21 10:29:31 +09:00
github-actions[bot]
613d60266a
Merge staging-next into staging 2023-10-21 00:02:49 +00:00
github-actions[bot]
fb3e2499b7
Merge master into staging-next 2023-10-21 00:02:17 +00:00
Alyssa Ross
c4e8f6072b
gwyddion: add libGL build input 
Currently, this is propagated from cairo, but that will soon no longer
be the case.
 2023-10-20 22:02:43 +00:00
Dmitry Kalinkin
6392f18258
Merge pull request #262351 from h7x4/remove-nix-exec-bits 
treewide: remove execute bit for non-executable `*.nix` files
 2023-10-20 14:45:16 -04:00
R. Ryantm
06c6fb463b root: 6.28.06 -> 6.28.08 2023-10-20 14:40:50 -04:00
github-actions[bot]
02a21c89b8
Merge staging-next into staging 2023-10-20 18:01:21 +00:00
github-actions[bot]
cfc75eec46
Merge master into staging-next 2023-10-20 18:00:54 +00:00
h7x4
e6321d2788
treewide: remove execute bit for non-executable *.nix files 2023-10-20 19:55:39 +02:00
Mauricio Collares
af038be354
Merge pull request #262290 from collares/sage-matplotlib-3.8 
[staging-next] sage, rpy2: test fixes
 2023-10-20 18:50:24 +02:00
markuskowa
8553dcf2e2
Merge pull request #262252 from r-ryantm/auto-update/gromacs 
gromacs: 2023.2 -> 2023.3
 2023-10-20 18:07:22 +02:00
Mauricio Collares
54968254b0 sage: add nbclassic dependency 2023-10-20 14:54:45 +02:00
github-actions[bot]
b0ec8bbe1d
Merge staging-next into staging 2023-10-20 12:01:55 +00:00
github-actions[bot]
d7e9da1742
Merge master into staging-next 2023-10-20 12:01:24 +00:00
R. Ryantm
1daf6722ed gromacs: 2023.2 -> 2023.3 2023-10-20 09:17:18 +00:00
OTABI Tomoya
0a18e1f929
Merge pull request #249750 from natsukium/bioawk/init 
bioawk: init at unstable-2017-09-11
 2023-10-20 17:59:30 +09:00
natsukium
056f9e21c0
bowtie2: enable tests 2023-10-20 17:08:20 +09:00
natsukium
13fe1effaf
bowtie2: fix build on aarch64 2023-10-20 17:07:55 +09:00
natsukium
aae51697be
bowtie2: refactor 2023-10-20 17:06:09 +09:00
github-actions[bot]
024144542b
Merge staging-next into staging 2023-10-19 18:01:22 +00:00
github-actions[bot]
0bcaa2f556
Merge master into staging-next 2023-10-19 18:00:54 +00:00
markuskowa
bab9ed9e26
Merge pull request #262058 from sheepforce/openmolcas 
openmolcas: 23.06 -> 23.10
 2023-10-19 17:25:11 +02:00
Phillip Seeber
b36fb3932c openmolcas: 23.06 -> 23.10 2023-10-19 15:23:43 +02:00
R. Ryantm
db6910471f alt-ergo: 2.5.1 -> 2.5.2 2023-10-19 06:27:42 +00:00
github-actions[bot]
bb7c6d7a79
Merge staging-next into staging 2023-10-19 00:02:54 +00:00
Artturi
5a1cc0e11d
Merge pull request #258431 from pbsds/stabilize-patches 2023-10-19 03:02:46 +03:00
github-actions[bot]
4b9cf6ff6e
Merge master into staging-next 2023-10-19 00:02:21 +00:00
Weijia Wang
369ab55a00
Merge pull request #250633 from jue89/add-horizonpy 
python311Packages.horizon-eda: init at 2.5.0
 2023-10-19 01:18:01 +02:00
Juergen Fitschen
4c62088101 python311Packages.horizon-eda: init at 2.5.0 2023-10-19 01:03:34 +02:00
Juergen Fitschen
f203901b4f horizon-eda: clarify package license 
Source: https://github.com/horizon-eda/horizon/blob/v2.5.0/org.horizon_eda.HorizonEDA.metainfo.xml#L6
 2023-10-18 23:23:59 +02:00
scalavision
9fd3ea0f76 deeptools: 3.5.1 -> 3.5.4 2023-10-18 19:06:01 +02:00
github-actions[bot]
35eee590be
Merge master into staging-next 2023-10-18 00:02:17 +00:00
Weijia Wang
afc40db179
Merge pull request #260244 from r-ryantm/auto-update/kstars 
kstars: 3.6.6 -> 3.6.7
 2023-10-17 23:51:35 +02:00
github-actions[bot]
14b83b5e05
Merge master into staging-next 2023-10-17 18:01:04 +00:00
R. Ryantm
8450377782 nvc: 1.10.3 -> 1.10.4 2023-10-17 11:36:40 +00:00
Weijia Wang
773a8314ef geda: drop xorn 2023-10-17 10:20:21 +02:00
github-actions[bot]
c61915bc96
Merge master into staging-next 2023-10-17 06:01:22 +00:00
Weijia Wang
60fefd4cce
Merge pull request #261506 from wegank/tulip-bump 
tulip: 5.6.1 -> 5.7.2
 2023-10-17 07:48:54 +02:00
R. Ryantm
355e594816 raxml: 8.2.12 -> 8.2.13 2023-10-16 22:16:12 +00:00
Weijia Wang
9f628e292e tulip: 5.6.1 -> 5.7.2 2023-10-17 00:10:30 +02:00
Mauricio Collares
feff64db6e sage: import matplotlib 3.8 upgrade patch 2023-10-16 16:12:12 +02:00
Martin Weinelt
94c8c31bee
Merge remote-tracking branch 'origin/master' into staging-next 
Conflicts:
- pkgs/development/python-modules/numba/default.nix
 2023-10-15 22:31:34 +02:00
Henner Zeller
10e4eb07ad surelog: 1.73 -> 1.76 2023-10-15 09:30:13 -05:00
Henner Zeller
b2dad8840a uhdm: 1.74 -> 1.76 2023-10-15 09:30:13 -05:00
Weijia Wang
4a6dff8f83 drgeo: drop 2023-10-15 01:01:30 -03:00
github-actions[bot]
1d9483230a
Merge master into staging-next 2023-10-15 00:02:33 +00:00