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Commit Graph

6837 Commits

Author SHA1 Message Date
github-actions[bot]
886633ba43
Merge master into staging-next 2022-10-15 00:04:00 +00:00
Artturi
eb49b683f3
Merge pull request #195661 from wamserma/arg-cleanup-app 
pkgs.applications: remove unused args
 2022-10-15 02:20:29 +03:00
github-actions[bot]
14fe809072
Merge master into staging-next 2022-10-14 18:02:25 +00:00
R. Ryantm
2dffc57c88 gtkwave: 3.3.111 -> 3.3.113 2022-10-14 23:53:22 +08:00
R. Ryantm
9765cc81f6 cbmc: 5.67.0 -> 5.68.0 2022-10-14 23:46:21 +08:00
R. Ryantm
4cee9b9ddb angsd: 0.938 -> 0.940 2022-10-14 14:50:26 +00:00
github-actions[bot]
cc090d2b94
Merge master into staging-next 2022-10-14 12:01:35 +00:00
R. Ryantm
211d284b5c mavproxy: 1.8.56 -> 1.8.57 2022-10-13 16:35:12 +00:00
Sébastien Maret
a332c25bb3 gildas: mark as broken on aarch64-darwin 2022-10-13 15:45:20 +02:00
Sébastien Maret
7808276611 gildas: 20220601_a -> 20221001_b 2022-10-13 11:58:43 +02:00
Vladimír Čunát
00a757ed3f
Merge branch 'master' into staging 2022-10-13 08:27:55 +02:00
Artturi
e66d2fd89d
Merge pull request #194256 from Artturin/treewides2 2022-10-13 00:08:01 +03:00
Sandro
2678c1b034
Merge pull request #193484 from wegank/gpl1-eol 2022-10-12 21:04:31 +02:00
Vincent Laporte
661ee3a269 coq_8_16: use OCaml 4.14 2022-10-12 20:38:44 +02:00
Markus S. Wamser
c9d167f174 pkgs.applications: remove unused args 2022-10-12 16:00:16 +02:00
Stanisław Pitucha
f0e9e476bd
Merge pull request #195453 from evils/kicad 
kicad: 6.0.7 -> 6.0.8
 2022-10-11 22:33:41 +11:00
Guillaume Girol
067b107e95
Merge pull request #194463 from Mrmaxmeier/build-bitwuzla-with-symfpu 
bitwuzla: build with SymFPU
 2022-10-11 11:18:30 +00:00
Evils
77b76b92d8 kicad: 6.0.7 -> 6.0.8 2022-10-11 02:55:55 +02:00
github-actions[bot]
5d957f3dba
Merge staging-next into staging 2022-10-11 00:05:26 +00:00
Martin Weinelt
cf7f4393f3
Merge pull request #193494 from NixOS/staging-next 2022-10-11 01:12:59 +02:00
Alexis Praga
2ce78bd571 gatk: add java and python to PATH 
gatk is actually a python script that starts either the local or spark
.jar file according to a fixed setup.
In the initial commit, neither java nor python were present in PATH.
 2022-10-10 23:06:01 +02:00
Artturin
7e49471316 treewide: optional -> optionals where the argument is a list 
the argument to optional should not be list
 2022-10-10 15:40:21 +03:00
Franz Pletz
2c10e089b9
root: fix build with libxcrypt 2022-10-09 18:10:46 +02:00
Franz Pletz
6264d94616
root5: fix build with libxcrypt 2022-10-09 18:10:46 +02:00
Martin Weinelt
7f0e9f0859
sumo: fix build with libxcrypt 2022-10-09 18:10:37 +02:00
github-actions[bot]
8972888c55
Merge master into staging-next 2022-10-09 12:01:31 +00:00
Sergei Trofimovich
7c0859b7d5
Merge pull request #194691 from amjoseph-nixpkgs/pr/xlibsWrapper/pcb 
pcb: use xorg.* packages directly instead of xlibsWrapper
 2022-10-09 10:07:29 +01:00
Nick Cao
ffb43186dc
stellarium: 0.22.2 -> 1.0 2022-10-06 21:49:59 +08:00
Nick Cao
e5c2ffc288
calcmysky: init at 0.1.0 2022-10-06 21:49:58 +08:00
github-actions[bot]
8d6fbd7341
Merge master into staging-next 2022-10-06 12:01:31 +00:00
R. Ryantm
cdfcbf552e simgrid: 3.31 -> 3.32 2022-10-06 15:54:46 +08:00
Adam Joseph
30b0c8fec9 pcb: use xorg.* packages directly instead of xlibsWrapper 
As recommended by https://github.com/NixOS/nixpkgs/issues/194054

Built outputs (`x86-linux`) are identical except for the `pcb` binary, which was
manually reviewed with `vbindiff` to confirm that the only differences were
self-$out path references.
 2022-10-05 20:07:54 -07:00
github-actions[bot]
939050602c
Merge master into staging-next 2022-10-05 18:07:32 +00:00
R. Ryantm
68a8e9aa62 jmol: 14.32.75 -> 14.32.76 2022-10-05 04:43:26 +00:00
Martin Weinelt
253ca4957d Merge remote-tracking branch 'origin/master' into staging-next 2022-10-05 00:44:16 +02:00
Mrmaxmeier
18663fd1c1 bitwuzla: unstable-2022-08-07 -> unstable-2022-10-03 
We're dropping -DUSE_SYMFPU because the new Bitwuzla version has a hard
requirement on SymFPU.
 2022-10-04 18:14:31 +00:00
Mrmaxmeier
69e6f91ed1 bitwuzla: build with SymFPU 2022-10-04 18:14:26 +00:00
markuskowa
c17f8f9e76
Merge pull request #194421 from sheepforce/avogadro2 
avogadro2: 1.95.1 -> 1.97.0
 2022-10-04 17:09:20 +02:00
Phillip Seeber
b070c222d1 avogadro2: 1.95.1 -> 1.97.0 2022-10-04 16:34:10 +02:00
Phillip Seeber
c75b4ee2f0 cp2k: 9.1.0 -> 2022.2 2022-10-04 15:42:45 +02:00
Sandro
83928b1d5e
Merge pull request #193165 from pmiddend/crystfel-wrap-program-fix 
crystfel-headless: fix wrapProgram dependency
 2022-10-04 10:44:48 +02:00
R. Ryantm
052662fab4 librepcb: 0.1.6 -> 0.1.7 2022-10-03 16:29:32 -05:00
Sandro
718d7b8540
Merge pull request #192277 from swflint/add-readstat-pyreadstat 2022-10-03 23:01:07 +02:00
Samuel W. Flint
35d5dd7989 readstat: init at 1.1.8 
The readstat package allows for reading and manipulating
SAS/Stata/SPSS data files.  This can be useful for interacting and
interoperating with datasets distributed in these formats.
 2022-10-03 15:11:30 -05:00
Matt Huszagh
16f8a4b3e7 uhdm: add patch to fix darwin build 2022-10-03 11:35:48 -07:00
Dmitry Kalinkin
846f382e4b
Merge pull request #192660 from samlich/master 
pymol: use Qt instead of Tk; fixes #192555
 2022-10-03 12:45:25 -04:00
R. Ryantm
1085ad554f verilator: 4.224 -> 4.226 2022-10-03 10:24:21 -05:00
github-actions[bot]
a46be8f23d
Merge master into staging-next 2022-10-03 12:01:27 +00:00
Markus Kowalewski
4d6abfa6b4
octopus: 11.4 -> 12.0 2022-10-03 11:12:28 +02:00
github-actions[bot]
25043f0f28
Merge master into staging-next 2022-10-01 12:01:27 +00:00
Christian Kögler
3bcb621a8d
Merge pull request #191613 from r-ryantm/auto-update/cbmc 
cbmc: 5.65.1 -> 5.67.0
 2022-10-01 09:56:47 +02:00
github-actions[bot]
e1d2f74dee
Merge master into staging-next 2022-09-30 18:03:29 +00:00
José Romildo Malaquias
e78c23cf5b
Merge pull request #193248 from romildo/upd.generic-updater 
generic-updater: more flexible with name, pname, version and attr path, and cleanups
 2022-09-30 09:19:21 -03:00
R. Ryantm
119b1e2fd7 cbmc: 5.65.1 -> 5.67.0 2022-09-30 10:33:04 +00:00
github-actions[bot]
f29cec4450
Merge master into staging-next 2022-09-30 06:22:32 +00:00
Theodore Ni
2d3705b141
root: mark broken on aarch64 2022-09-29 17:06:14 -07:00
github-actions[bot]
9c14978f84
Merge master into staging-next 2022-09-29 12:01:25 +00:00
Weijia Wang
870d6f4a98 licenses: remove gpl1 2022-09-29 10:54:21 +02:00
Vladimír Čunát
8ba120420f
Merge #191339: staging-next 2022-09-15 2022-09-29 09:16:47 +02:00
Sandro
6a01ce12ff
Merge pull request #188718 from wegank/pagsuite-init 2022-09-29 00:40:20 +02:00
github-actions[bot]
f18d801779
Merge staging-next into staging 2022-09-28 18:05:53 +00:00
Weijia Wang
428cdfb609 pagsuite: init at 1.80 2022-09-28 19:51:05 +02:00
Martin Weinelt
7da8d25d87 Merge remote-tracking branch 'origin/master' into staging-next 2022-09-28 17:15:11 +02:00
Vladimír Čunát
7ddee326c2
gromacs*: fixup paths in .pc files 2022-09-28 16:48:34 +02:00
polygon
5700835116 siril: 1.0.3 -> 1.0.5 2022-09-28 09:37:11 -05:00
Jonas Heinrich
563cdec4eb
Merge pull request #193168 from r-ryantm/auto-update/delly 
delly: 1.1.3 -> 1.1.5
 2022-09-28 10:08:58 +02:00
José Romildo
01510c7ff3 treewide: no need to pass pname, version and attrPath to update scripts based on generic-updater 2022-09-27 23:41:53 -03:00
Matt Huszagh
49d8092132 uhdm: update to 0.9.1.40 2022-09-27 18:07:13 -07:00
Matt Huszagh
3db955db91 surelog: update to 1.40 2022-09-27 18:05:51 -07:00
github-actions[bot]
d6a1c7033e
Merge staging-next into staging 2022-09-28 00:06:37 +00:00
github-actions[bot]
70776ac218
Merge master into staging-next 2022-09-28 00:06:02 +00:00
R. Ryantm
f28b6e5468 snakemake: 7.14.1 -> 7.14.2 2022-09-27 19:16:23 -04:00
Artturi
1c1c182814
Merge pull request #192851 from Artturin/treewides1 2022-09-28 00:50:06 +03:00
R. Ryantm
ddf9f1800a delly: 1.1.3 -> 1.1.5 2022-09-27 11:26:09 +00:00
Philipp Middendorf
f893f28019 crystfel-headless: fix wrapProgram dependency 2022-09-27 12:53:25 +02:00
Vladimír Čunát
85d3dce182
Merge branch 'master' into staging-next 2022-09-27 08:20:58 +02:00
R. Ryantm
fe2504c61b snakemake: 7.14.0 -> 7.14.1 2022-09-26 23:13:22 -04:00
github-actions[bot]
59a37c822b
Merge master into staging-next 2022-09-26 18:01:53 +00:00
Artturin
0734f54ef2 treewide: move pkg-config, autoreconfHook, intltool to nativeBuildInputs 
found with nixpkgs-lint
 2022-09-26 17:53:26 +03:00
Timo Kaufmann
62228ccc67
Merge pull request #192961 from r-ryantm/auto-update/jmol 
jmol: 14.32.74 -> 14.32.75
 2022-09-26 14:33:40 +02:00
Frederik Rietdijk
de57d754a0 Merge master into staging-next 2022-09-26 09:31:22 +02:00
Justin Bedő
d21b5ac044
Merge pull request #192211 from r-ryantm/auto-update/last 
last: 1409 -> 1411
 2022-09-26 11:49:30 +10:00
Brad Langhorst
2beb26b45b seqtk: init at 1.3 
Co-authored-by: Anderson Torres <torres.anderson.85@protonmail.com>
 2022-09-25 19:55:58 -04:00
R. Ryantm
8a60b7fbc4 jmol: 14.32.74 -> 14.32.75 2022-09-25 21:24:47 +00:00
Timo Kaufmann
e453c6bcce
Merge pull request #192832 from collares/sage-ipywidgets 
[staging-next] sage: update test expectations (sympy and ipywidgets upgrades)
 2022-09-25 22:04:42 +02:00
Martin Weinelt
68c0ca4416 Merge remote-tracking branch 'origin/master' into staging-next 2022-09-25 21:36:31 +02:00
Narazaki, Shuji
031d152c4a cadical: 1.5.0 -> 1.5.3 2022-09-26 00:00:17 +09:00
Robert Scott
6618c00660
Merge pull request #192512 from tjni/mxnet 
mxnet: 1.8.0 -> 1.9.1
 2022-09-25 11:30:50 +01:00
AndersonTorres
c897c59a4a pari: remove myself from maintainers 
Because it is now mostly managed by the Sage team, and I don't want to be in a
team for now.
 2022-09-24 23:02:27 -03:00
AndersonTorres
4419927a5c gp2c: 0.0.12 -> 0.0.13 
Also, inheriting meta attributes from pari.
 2022-09-24 23:02:27 -03:00
Theodore Ni
5ac4f45f72
mxnet: patch to fix build on aarch64-darwin 
The patches autodetect when the system is x86 and supports SSE.
 2022-09-24 17:49:23 -07:00
Mauricio Collares
4ab37278c5 sage: update test expectations (sympy and ipywidgets upgrades) 2022-09-24 18:48:13 -03:00
wucke13
3eb83269ec inav-configurator: 4.1.0 -> 5.1.0 2022-09-24 19:09:08 +02:00
samlich
ab3f0771a4
pymol: use Qt instead of Tk; fixes #192555 2022-09-23 19:35:44 +00:00
Theodore Ni
865ce72890 pulseview: remove librevisa dependency 2022-09-23 19:10:54 +02:00
figsoda
61c9d7867b
Merge pull request #192612 from superherointj/broken-cntk 
cntk: mark broken
 2022-09-23 10:18:37 -04:00
figsoda
11ea0525b6
Merge pull request #192618 from superherointj/broken-nasc 
nasc: mark broken
 2022-09-23 10:05:55 -04:00
superherointj
82f2e31ac0
Merge pull request #191887 from evils/kicad-unstable 
kicad-unstable: 2022-06-21 -> 2022-09-18
 2022-09-23 11:04:23 -03:00
superherointj
6be3357a74 nasc: mark broken 2022-09-23 10:33:04 -03:00
superherointj
fb83696690 cntk: mark broken 2022-09-23 10:01:29 -03:00
github-actions[bot]
ef833a6fd2
Merge master into staging-next 2022-09-23 12:01:34 +00:00
Theodore Ni
c13952175c
mxnet: 1.8.0 -> 1.9.1 2022-09-22 16:49:40 -07:00
R. Ryantm
7ea88902ae streamlit: 1.12.2 -> 1.13.0 2022-09-22 21:47:16 +00:00
github-actions[bot]
6ded381b0e
Merge master into staging-next 2022-09-22 00:03:22 +00:00
Nikolay Korotkiy
7f12a08ee1
Merge pull request #192042 from r-ryantm/auto-update/ginac 
ginac: 1.8.3 -> 1.8.4
 2022-09-21 22:13:27 +03:00
Matt Huszagh
a3b780cf97 surelog: update to 1.37 2022-09-21 05:20:32 -07:00
Matt Huszagh
30eca8eb68 uhdm: use tag for version 2022-09-21 05:20:29 -07:00
R. Ryantm
1008651931 last: 1409 -> 1411 2022-09-21 08:24:01 +00:00
github-actions[bot]
7da9ac9ae6
Merge master into staging-next 2022-09-21 00:03:46 +00:00
7c6f434c
1b665201f0
Merge pull request #189891 from collares/sage-9.7 
sage: 9.6 -> 9.7
 2022-09-20 22:37:37 +00:00
Martin Weinelt
5d4267b0f2 Merge remote-tracking branch 'origin/master' into staging-next 2022-09-20 12:25:19 +02:00
Jonas Heinrich
5c26920c58
Merge pull request #191896 from r-ryantm/auto-update/mavproxy 
mavproxy: 1.8.55 -> 1.8.56
 2022-09-20 11:39:09 +02:00
R. Ryantm
fcfdc8b58e ginac: 1.8.3 -> 1.8.4 2022-09-20 08:22:40 +00:00
Mauricio Collares
d36168afa1 sage: 9.6 -> 9.7 2022-09-19 21:34:02 -03:00
Martin Weinelt
f1dcc2356b
Merge pull request #191333 from NixOS/python-updates 2022-09-19 18:23:07 +02:00
Martin Weinelt
c2f03aa6f1
easycrypt-runtest: use other format 2022-09-19 16:05:27 +02:00
R. Ryantm
0a930eb9f6 mavproxy: 1.8.55 -> 1.8.56 2022-09-19 08:53:58 +00:00
Evils
a3336a44f5 kicad-unstable: fix build by enabling EGL 
wxwidgets (wxGTK?) somehow changed to support EGL by default
 2022-09-19 08:29:04 +02:00
Evils
a62cbaddca kicad-unstable: 2022-06-21 -> 2022-09-18 2022-09-19 08:29:04 +02:00
Anthony Roussel
341029d5cc
sasview: fix build 
Caused by `asscalar` numpy API removal.
See https://github.com/SasView/sasview/pull/2178
 2022-09-18 20:42:33 +02:00
superherointj
2610966118
Merge pull request #191509 from r-ryantm/auto-update/fast-downward 
fast-downward: 22.06.0 -> 22.06.1
 2022-09-18 11:28:25 -03:00
Christian Kögler
12049b4651
Merge pull request #189919 from r-ryantm/auto-update/gama 
gama: 2.21 -> 2.22
 2022-09-18 15:59:34 +02:00
Christian Kögler
e06e88d003
Merge pull request #189923 from r-ryantm/auto-update/igv 
igv: 2.14.0 -> 2.14.1
 2022-09-18 15:59:16 +02:00
Vincent Laporte
af34e3be8c ocamlPackages.cmdliner: default to 1.1 
ocamlPackages.alcotest: 1.5.0 → 1.6.0

ocamlPackages.crowbar: 0.2 → 0.2.1

ocamlPackages.dune-release: 1.5.1 → 1.6.2

ocamlPackages.functoria: 3.1.1 → 4.2.0

ocamlPackages.mirage: 3.10.7 → 4.2.0

ocamlPackages.irmin-pack: disable checks

ocamlPackages.mdx: disable checks

ocamlPackages.git-unix: mark as broken
 2022-09-18 15:03:10 +02:00
Guanpeng Xu
34b08c6c34 mathematica: 13.0.1 -> 13.1.0 2022-09-18 08:33:27 +02:00
Christian Kögler
31da214833
Merge pull request #191483 from vbgl/why3-1.5.1 
why3: 1.5.0 → 1.5.1
 2022-09-17 23:18:46 +02:00
7c6f434c
18a6fd410d
Merge pull request #191611 from r-ryantm/auto-update/clingo 
clingo: 5.6.0 -> 5.6.1
 2022-09-17 16:32:38 +00:00
R. Ryantm
5538b8f0cc nanovna-saver: 0.5.2 -> 0.5.3 2022-09-17 17:19:47 +08:00
R. Ryantm
9cb166091c clingo: 5.6.0 -> 5.6.1 2022-09-17 05:32:12 +00:00
R. Ryantm
288127f747 fast-downward: 22.06.0 -> 22.06.1 2022-09-16 15:08:28 +00:00
Sébastien Maret
8ca353fbac gildas: 20211101_a -> 20220601_a 
This update fixes the build on darwin.
 2022-09-16 15:57:13 +02:00
Vincent Laporte
cccc3b53f4
why3: 1.5.0 → 1.5.1 2022-09-16 13:29:18 +02:00
Jonas Heinrich
15055cd7f8
Merge pull request #191403 from r-ryantm/auto-update/messer-slim 
messer-slim: 4.0 -> 4.0.1
 2022-09-16 11:33:24 +02:00
Sandro
cba7f9e9ed
Merge pull request #189206 from wegank/scilab-bin-darwin 2022-09-16 10:59:26 +02:00
Weijia Wang
34456529c9 scilab-bin: add darwin support 2022-09-16 10:20:22 +02:00
R. Ryantm
9da745bfaf messer-slim: 4.0 -> 4.0.1 2022-09-15 22:25:51 +00:00
Bouke van der Bijl
079dc8c3a9 why3: use why3.version in withProvers 
I was getting an error that 'name' was not defined, which was being
caused by pname being passed in without a version.

Using the version of the why3 package resolves this.
 2022-09-15 13:51:50 +02:00
K900
42dc5a7269
Merge pull request #188924 from McSinyx/klee-llvm 
klee: use the same LLVM version for clang
 2022-09-15 10:36:25 +03:00
R. Ryantm
101fa50263 cbmc: 5.65.0 -> 5.65.1 2022-09-14 22:04:14 +08:00
7c6f434c
1cea3c2362
Merge pull request #190919 from r-ryantm/auto-update/clingo 
clingo: 5.5.2 -> 5.6.0
 2022-09-13 18:04:50 +00:00
Gabriel Ebner
38aa976494 elan: 1.4.1 -> 1.4.2 2022-09-13 11:02:26 +02:00
R. Ryantm
4fbc5fa77f nanovna-saver: 0.5.1 -> 0.5.2 2022-09-12 19:15:18 +00:00
Timo Kaufmann
f77ac81009
Merge pull request #190892 from r-ryantm/auto-update/jmol 
jmol: 14.32.73 -> 14.32.74
 2022-09-12 19:26:49 +02:00
R. Ryantm
09bed085c3 clingo: 5.5.2 -> 5.6.0 2022-09-12 11:37:36 +00:00
R. Ryantm
55e1e9a104 jmol: 14.32.73 -> 14.32.74 2022-09-12 07:15:47 +00:00
Sandro
c300be33fd
Merge pull request #186868 from lopsided98/mavproxy-update 2022-09-11 19:21:27 +02:00
Sandro Jäckel
224da23db2 sasview: remove unused input 2022-09-11 16:25:56 +02:00
Sandro
785031e430
Merge pull request #185819 from apraga/gatk-4.2.6.1 2022-09-10 21:31:42 +02:00
Christian Kögler
a25f0b9bbd
Merge pull request #190317 from r-ryantm/auto-update/nanovna-saver 
nanovna-saver: 0.4.0 -> 0.5.1
 2022-09-10 15:58:21 +02:00
R. Ryantm
6e55797c64 nanovna-saver: 0.4.0 -> 0.5.1 2022-09-10 01:28:51 +00:00
Sandro
65c1313165
Merge pull request #189758 from tjni/r-stackprotector 2022-09-10 00:41:39 +02:00
Mario Rodas
448df40425
Merge pull request #190430 from natsukium/mafft/update 
mafft: 7.505 -> 7.508
 2022-09-09 09:02:08 -05:00
Jonas Heinrich
89da4a3ace
Merge pull request #190382 from 4825764518/qalculate-qt-4.3.0 
qalculate-qt: 4.2.0 -> 4.3.0
 2022-09-09 10:45:41 +02:00
Vincent Laporte
a22abdf7c2 acgtk: 1.5.2 → 1.5.4 2022-09-09 08:53:49 +02:00
natsukium
9e65d09e3d
mafft: 7.505 -> 7.508 
changed to fetch from new gitlab repository
 2022-09-09 13:26:38 +09:00
Dmitry Kalinkin
ea1dcc4f8b
Merge pull request #189926 from veprbl/pr/root_rip_via_setup_hook 
root: populate ROOT_INCLUDE_PATH via the setupHook
 2022-09-08 19:45:45 -04:00
4825764518
4dbacd4930
qalculate-qt: 4.2.0 -> 4.3.0 2022-09-08 16:16:51 -04:00
4825764518
eeefb876af
qalculate-qt: init at 4.2.0 2022-09-08 14:20:20 -04:00
R. Ryantm
914100fd45 snakemake: 7.12.1 -> 7.14.0 2022-09-08 09:57:07 -04:00
Jonas Heinrich
eab3e4bffa
Merge pull request #190087 from victormignot/systemc 
systemc: Init at 2.3.3
 2022-09-07 21:16:40 +02:00
7c6f434c
41df56c421
Merge pull request #189784 from collares/singular-431p2 
singular: 4.3.1 -> 4.3.1p2
 2022-09-07 18:58:16 +00:00
Théo Zimmermann
4754c69e97
Merge pull request #189997 from r-ryantm/auto-update/coq_8_16 
coq_8_16: 8.16+rc1 -> 8.16.0
 2022-09-07 14:48:05 +02:00
Victor Mignot
777ba23c17
systemc: Init at 2.3.3 2022-09-07 08:04:56 -04:00
Christian Kögler
1034788cf2
Merge pull request #189339 from r-ryantm/auto-update/jmol 
jmol: 14.32.68 -> 14.32.73
 2022-09-06 22:09:07 +02:00
Timo Kaufmann
5e03752766
Merge pull request #184457 from r-ryantm/auto-update/polymake 
polymake: 4.6 -> 4.7
 2022-09-06 16:22:36 +02:00
Timo Kaufmann
b292bfd0ab
Merge pull request #189776 from collares/sage-docindex 
sageWithDoc: fix documentation index
 2022-09-06 16:15:54 +02:00
R. Ryantm
a037a50b46 coq_8_16: 8.16+rc1 -> 8.16.0 2022-09-06 12:15:29 +00:00
Dmitry Kalinkin
0fe6d6f6b9
root: populate ROOT_INCLUDE_PATH via the setupHook 2022-09-05 18:47:48 -04:00
R. Ryantm
c7832514ef igv: 2.14.0 -> 2.14.1 2022-09-05 22:29:15 +00:00
R. Ryantm
3bced25629 gama: 2.21 -> 2.22 2022-09-05 22:06:20 +00:00
markuskowa
fec757aa4e
Merge pull request #189871 from r-ryantm/auto-update/gromacs 
gromacs: 2022.2 -> 2022.3
 2022-09-05 22:27:10 +02:00
Mauricio Collares
13d2edaa42 sageWithDoc: fix documentation index 2022-09-05 12:42:36 -03:00
R. Ryantm
53a4c0bec3 gromacs: 2022.2 -> 2022.3 2022-09-05 15:04:40 +00:00
Sandro
ef987a9604
Merge pull request #189329 from bcdarwin/itk4-removal 2022-09-05 16:05:51 +02:00
Sandro
73bf7a0ca0
Merge pull request #181954 from bzizou/treemix 2022-09-05 15:57:48 +02:00
Bruno Bzeznik
7c09cfdc1a treemix: init at 1.13 2022-09-05 06:55:03 +02:00
Mauricio Collares
91311e30b3 singular: disable docbuilding on darwin 2022-09-04 22:12:22 -03:00
Mauricio Collares
ea79b7ad0c singular: 4.3.1 -> 4.3.1p2 2022-09-04 21:42:47 -03:00
Jonas Heinrich
eb3d3b2e90
Merge pull request #175449 from bzizou/iqtree 
iqtree: init at 2.2.0.4
 2022-09-04 23:58:04 +02:00
Ben Wolsieffer
073d3c1b77 mavproxy: add lxml dependency 
Also, alphabetize the dependencies.

Add dependencies that are not part of install_requires (apparently due to
some issue with pip and distro packaging). The closure size is increased
somewhat by OpenCV, but this allows all the tools to work correctly.
 2022-09-04 17:30:03 -04:00
Jonas Heinrich
bb738c5202
Merge pull request #179257 from mrbitt/master 
Update perseus
 2022-09-04 23:09:19 +02:00
Theodore Ni
093edcbfcb
R: reenable stackprotector on aarch64-darwin 
The original error that required disabling the stack protector on
aarch64-darwin has been fixed in GCC.
 2022-09-04 11:33:51 -07:00
Ben Darwin
1280129aab EZminc: itk4 -> itk (formally; package is broken) 2022-09-04 13:36:24 -04:00
Ben Darwin
961b308fe1 ants: 2.2.0 -> 2.4.1 2022-09-04 13:36:24 -04:00
Sandro
6b52fe0b72
Merge pull request #188855 from risicle/ris-hal-fmt-8.0.1-override 2022-09-04 16:30:36 +02:00
Alexis Praga
95da303902 gatk : init at 4.2.6.1 
GATK is the industry standard for genetics analysis, more precisely for
identifying SNPs and indels in germline DNA and RNAseq data .
This package does not ship the Spark version.

Apply suggestions from code review
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-09-04 15:34:30 +02:00
Iztok Fister Jr
af482381f6
uarmsolver: init at 0.2.4 (#188274) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-09-04 14:44:43 +02:00
Christian Kögler
8edb96b411
Merge pull request #189426 from kilianar/cadical-1.5.0 
cadical: 1.4.1 -> 1.5.0
 2022-09-04 12:49:36 +02:00
Jonas Heinrich
3b3a01e3f9
Merge pull request #188785 from jbedo/last 
last: 1406 -> 1409
 2022-09-04 12:40:30 +02:00
Sandro
8e4ec09365
Merge pull request #187023 from panicgh/dataexplorer 2022-09-04 12:01:50 +02:00
Nicolas Benes
16013ac6c4 dataexplorer: init at 3.6.2 2022-09-04 10:53:16 +02:00
Bobby Rong
187f55926c
Merge pull request #189430 from r-ryantm/auto-update/cbmc 
cbmc: 5.64.0 -> 5.65.0
 2022-09-04 10:19:33 +08:00
Justin Bedo
d9acf90371
last: 1406 -> 1409 2022-09-04 10:36:01 +10:00
Sandro
9b214e6dad
Merge pull request #177830 from r-ryantm/auto-update/eggnog-mapper 2022-09-03 22:43:11 +02:00
Jörg Thalheim
932758095e
Merge pull request #189576 from r-ryantm/auto-update/mavproxy 
mavproxy: 1.8.52 -> 1.8.55
 2022-09-03 17:31:01 +01:00
Jörg Thalheim
5c3f9c0213 mavproxy: add missing opencv dependency 2022-09-03 17:49:42 +02:00
Matt Huszagh
83a3076177 surelog: keep pkg in lib/surelog 2022-09-03 06:47:55 -07:00
Matt Huszagh
9ace7642c0 surelog: exclude darwin 2022-09-03 06:38:50 -07:00
Matt Huszagh
b684303d69 surelog: update version 2022-09-03 06:34:46 -07:00
Robert Scott
fd66073cf3
Merge pull request #189414 from kilianar/kissat-3.0.0 
kissat: 2.0.1 -> 3.0.0
 2022-09-03 11:53:29 +01:00