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Author SHA1 Message Date
Gabriel Ebner 8934eb7c91
Merge pull request #157843 from jvanbruegge/isabelle_setup 
isabelle: Rebuild isabelle_setup.jar
 2022-03-01 12:11:25 +01:00
Sandro b7ec0afb59
Merge pull request #162205 from Stunkymonkey/treewide-vVersion 2022-02-28 14:26:16 +01:00
Felix Buehler 1573dbdcd0 treewide: fix versions starting with 'v' 2022-02-28 13:05:18 +01:00
Felix Buehler fe7678ca81 raxml-mpi: remove appendToName to have a consistent package name for repology 2022-02-28 12:46:15 +01:00
Felix Buehler 13dca33cdc neuron-mpi: remove appendToName to have a consistent package name for repology 2022-02-28 12:46:15 +01:00
Bobby Rong f35d1b8568
Merge pull request #160332 from florentc/tlaps 
tlaps: 1.4.3 -> 1.4.5
 2022-02-28 16:33:42 +08:00
Guillaume Girol b9ecdae495
Merge pull request #161344 from ulrikstrid/ulrikstrid/tree-wide-native-inputs 
ocamlPackages tree-wide: Move buildInputs that should be nativeBuildInputs
 2022-02-27 19:49:07 +00:00
7c6f434c da576d8a4a
Merge pull request #161876 from FRidh/sage-python 
Sage: make it possible to extend the Python runtime environment with additional packages
 2022-02-27 19:02:59 +00:00
Vincent Laporte 68e4b639a3
Merge pull request #161111 from ulrikstrid/ulrikstrid/coq-move-dune-to-native 
coq: Move dune, ocaml and findlib to nativeBuildInputs
 2022-02-26 08:54:53 +01:00
R. Ryantm 21a1125f37 gmsh: 4.9.4 -> 4.9.5 2022-02-25 14:21:11 -08:00
K900 cb2cfba6f7 treewide: switch all desktop file generators to new API 
Notably:
- remove explicit arguments that match the defaults
- convert everything to the right Nix types
 2022-02-25 13:40:38 -08:00
Frederik Rietdijk 330d9344d2 sage: make it possible not to rebuild sage-tests 
Requiring sage-tests as build input just so it gets build is a bit
unfortunatey but understandable. This commit introduces an option to not
add sage-tests as a dependency. This is preferred in case e.g. Python
packages are added to the environment.
 2022-02-25 21:27:14 +01:00
Frederik Rietdijk 7442533bf1 sage: support adding extra Python packages to environment 
mysage = sage.override { extraPythonPackages = ps: with ps; [ dask ]; };

Note that the sage-tests are executed again as well, which is not very nice.
 2022-02-25 21:18:23 +01:00
R. Ryantm 1e7c64aae1 bcftools: 1.14 -> 1.15 2022-02-25 11:12:05 -08:00
markuskowa 49186d631f
Merge pull request #161635 from r-ryantm/auto-update/jmol 
jmol: 14.32.21 -> 14.32.24
 2022-02-25 13:42:31 +01:00
Ulrik Strid 7e20e9039e coqPackages: tree-wide move packages to nativeBuildInputs and add strictDeps = true 
Co-authored-by: Vincent Laporte <vbgl@users.noreply.github.com>
 2022-02-25 07:54:17 +01:00
Vincent Laporte 056c34167d why3: 1.4.0 → 1.4.1 2022-02-25 06:00:09 +01:00
Justin Bedő 6b477d556d
Merge pull request #161695 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.26.10 -> 2.26.11
 2022-02-25 08:27:23 +11:00
R. Ryantm d6a24fc108 cwltool: 3.1.20220217222804 -> 3.1.20220221074232 2022-02-24 15:52:49 -05:00
R. Ryantm ce9d28cc49 picard-tools: 2.26.10 -> 2.26.11 2022-02-24 17:34:18 +00:00
Ulrik Strid 48df7cdbba coq: Move dune to nativeBuildInputs and add ocaml, findlib and menhir 2022-02-24 14:39:45 +01:00
Ulrik Strid a13cdfe520 ocamlPackages tree-wide: Move buildInputs that should be nativeBuildInputs 
To keep this for the future we also strictDeps where possible, including for janePackages, topkg, oasis and ocamlbuild.
This makes some closures significantly smaller and makes cross compilation easier
 2022-02-24 14:39:27 +01:00
R. Ryantm 1b8518cadd jmol: 14.32.21 -> 14.32.24 2022-02-24 08:42:12 +00:00
Renaud 65ecaa9903
Merge pull request #150078 from r-ryantm/auto-update/gurobi 
gurobi: 9.1.2 -> 9.5.0
 2022-02-23 22:08:43 +01:00
Markus Kowalewski 469ae42107
gromacs: 2021.5 -> 2022 2022-02-23 14:47:26 +01:00
Renaud a723c88d4e
Merge pull request #159967 from r-ryantm/auto-update/workcraft 
workcraft: 3.3.5 -> 3.3.6
 2022-02-23 13:30:39 +01:00
Renaud 359d63179e
Merge pull request #160360 from r-ryantm/auto-update/qalculate-gtk 
qalculate-gtk: 3.22.0 -> 4.0.0
 2022-02-23 08:30:49 +01:00
Bobby Rong 93883402a4
Merge pull request #160594 from Cogitri/bada-bib 
bada-bib: 0.4.1 -> 0.5.1
 2022-02-22 12:10:40 +08:00
Wanja Zaeske 2d67cc2bf6 removing maintainer wucke13 from some packages 2022-02-21 22:58:18 +01:00
ajs124 55bf481a21
Merge pull request #159212 from helsinki-systems/init/febio-studio 
febio-studio: init at 1.6.1
 2022-02-21 17:24:33 +01:00
Scriptkiddi 4e60a4823b febio-studio: init at 1.6.1 2022-02-21 16:43:36 +01:00
Rasmus Thomsen 87c1d9f92c
bada-bib: 0.4.1 -> 0.5.1 2022-02-21 16:33:50 +01:00
R. Ryantm c35aa0a0f3 cwltool: 3.1.20220217190813 -> 3.1.20220217222804 2022-02-21 01:31:33 -05:00
markuskowa 48ab0d0233
Merge pull request #160924 from qbg/submit/mathematica-13.0.1 
mathematica: 13.0.0 -> 13.0.1
 2022-02-20 10:23:22 +01:00
R. RyanTM 286ecff9e0
getdp: 3.3.0 -> 3.4.0 
(#150127)
 2022-02-19 22:41:33 +01:00
Mario Rodas 94723d21f9
Merge pull request #159540 from r-ryantm/auto-update/marvin 
marvin: 21.20.0 -> 22.3.0
 2022-02-19 15:59:08 -05:00
qbg f4f52d9d70 mathematica: 13.0.0 -> 13.0.1 
https://wolfram.com/mathematica/quick-revision-history.html#v130
 2022-02-19 11:26:53 -06:00
Millian Poquet bc2604732e simgrid: mark as broken on darwin 2022-02-19 10:05:17 +01:00
Millian Poquet 3f804f68bc simgrid: 3.28 -> 3.30 + python + clean 
- use latest SimGrid release
- enable the python binding (in new output "python")
- reviews from PR 141040 have been applied
 2022-02-19 10:05:12 +01:00
Ulrik Strid 4150bf02b5 coq: allow static linking by moving wrapGAppsHook to nativeBuildInputs 
Co-authored-by: Vincent Laporte <vbgl@users.noreply.github.com>
 2022-02-18 15:17:04 +01:00
Mario Rodas 947c98310c
Merge pull request #160545 from collares/lean-3.39.2 
lean: 3.39.1 -> 3.39.2
 2022-02-18 06:26:51 -05:00
R. Ryantm b715fcd9d9 cwltool: 3.1.20220210171524 -> 3.1.20220217190813 2022-02-18 00:36:37 -05:00
Mauricio Collares 0c36a9cc35 lean: 3.39.1 -> 3.39.2 2022-02-17 23:42:05 -03:00
R. RyanTM 94f61e4c82
SPAdes: 3.15.3 -> 3.15.4 
(#158938)
 2022-02-18 00:55:34 +01:00
R. RyanTM ac1c96ecec
colmap: 3.6 -> 3.7 
* colmap: 3.6 -> 3.7 (#159198)

* colmap: license is BSD-3-Clause

Co-authored-by: Renaud <c0bw3b@users.noreply.github.com>
 2022-02-18 00:29:14 +01:00
Ben Wolsieffer 1382f006a9
qgroundcontrol: 4.1.4 -> 4.2.0 
* qgroundcontrol: 4.1.4 -> 4.2.0 (#159291)

QGroundControl now tries to download a prebuilt x86_64 .deb package for
the Airmap SDK, so we have to disable this feature. Previously, it was
disabled by default. I guess they were trying to make things easier for
users, but it seems pretty half-baked.

* qgroundcontrol: update homepage

The domain seems to have changed from .org to .com.
 2022-02-18 00:09:39 +01:00
Daniel Wheeler 4befe7a89f
snakemake: 6.10.0 -> 6.15.5 (#159026) 
Fetch from GitHub rather than PyPI so tests are included.
 2022-02-17 18:06:23 -05:00
ajs124 80160499bc
Merge pull request #160340 from helsinki-systems/tetgen 
tetgen: also install library and headers
 2022-02-17 01:57:18 +01:00
Scriptkiddi c8fb08b1e4 tetgen: also install library and headers 2022-02-17 01:37:28 +01:00
R. Ryantm 581628a7f4 qalculate-gtk: 3.22.0 -> 4.0.0 2022-02-16 19:33:07 +00:00