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6115 Commits

Author SHA1 Message Date
Rocky Breslow
09b7444b82
dcm2niix: add support for configuring optional compile-time modules 
Right now, the dcm2niix package produces a single binary without support for
dcm2niibatch, JPEG-LS, OpenJPEG, or an alternative zlib library. The official
build process for dcm2niix configures all these options (minus batch support). I
was motivated to make these changes so my organization could process JPEG 2000
imagery using the Nix binary.
 2022-04-04 10:41:27 -04:00
ajs124
b52d39ee09 eagle7: drop 2022-04-04 15:10:44 +01:00
Martin Weinelt
f95a3d1140 Merge remote-tracking branch 'origin/staging-next' into staging 2022-04-04 00:46:25 +02:00
R. Ryantm
2a5b81d50f bada-bib: 0.6.0 -> 0.6.1 2022-04-03 19:11:54 +00:00
github-actions[bot]
c46200d454
Merge master into staging-next 2022-04-03 18:01:07 +00:00
ajs124
672ea43d0e otter: remove after being marked broken for over two years 
It was marked in commit ca0e724266 by Tuomas Tynkkynen on 2016-04-27 (commited on 2016-04-27)
 2022-04-03 16:14:59 +01:00
ajs124
64a3d95fc1 openspace: remove after being marked broken for over two years 
It was marked in commit e6223c022b by Jonathan Ringer on 2019-07-14 (commited on 2019-07-14)
 2022-04-03 16:14:56 +01:00
ajs124
f9ad6fb744 openmvs: remove after being marked broken for over two years 
It was marked in commit 796050fedd by Michael Raskin on 2019-04-14 (commited on 2019-04-14)
 2022-04-03 16:14:19 +01:00
ajs124
60f1e6ffe2 ncbi_tools: remove after being marked broken for over two years 
It was marked in commit b9948fedc6 by Robin Gloster on 2017-03-30 (commited on 2017-03-30)
 2022-04-03 16:14:18 +01:00
ajs124
33e8308dbc lean2: remove after being marked broken for over two years 
It was marked in commit 5aa4b19946 by Linus Heckemann on 2019-10-07 (commited on 2019-10-08)
 2022-04-03 16:14:16 +01:00
ajs124
90c42fa33f jonprl: remove after being marked broken for over two years 
It was marked in commit 5aa4b19946 by Linus Heckemann on 2019-10-07 (commited on 2019-10-08)
 2022-04-03 16:14:16 +01:00
github-actions[bot]
9aa014c46a
Merge staging-next into staging 2022-03-31 12:02:10 +00:00
Alyssa Ross
ac5a927919
Merge remote-tracking branch 'nixpkgs/master' into staging-next 
Conflicts:
	pkgs/development/python-modules/einops/default.nix
	pkgs/development/python-modules/elegy/default.nix
 2022-03-31 11:46:46 +00:00
Alyssa Ross
22c23dbb8d
Merge remote-tracking branch 'nixpkgs/staging-next' into staging 
Conflicts:
	pkgs/development/python-modules/google-auth-oauthlib/default.nix
 2022-03-31 11:42:24 +00:00
Ben Siraphob
5187709ff7
Merge pull request #166508 from siraben/automake-buildinputs 2022-03-31 03:15:41 -05:00
github-actions[bot]
3c526dbe2c
Merge master into staging-next 2022-03-31 06:01:18 +00:00
Ben Siraphob
cbbef27aa9
Merge pull request #166527 from siraben/nuxmv-darwin 2022-03-30 23:44:48 -05:00
Ben Siraphob
0535074d17
nuXmv: fix darwin build 2022-03-30 23:43:21 -05:00
Martin Weinelt
d0bfb3ccbb Merge remote-tracking branch 'origin/master' into staging-next 2022-03-31 03:49:37 +02:00
Ben Siraphob
21faf9fc29
treewide: move autoconf, automake to nativeBuildInputs 2022-03-30 20:17:24 -05:00
Oleksii Filonenko
cade4603c3
Merge pull request #166120 from r-ryantm/auto-update/rink 2022-03-30 20:24:36 +03:00
Connor Baker
57961e1a5e z3: remove 4.6.0 and 4.5.0 2022-03-29 23:46:27 -04:00
Sandro
71d8b69306
Merge pull request #166144 from alyaeanyx/gprojector-3.0.3 2022-03-30 02:17:50 +02:00
github-actions[bot]
5a9b6a3f1a
Merge master into staging-next 2022-03-29 12:06:05 +00:00
Sandro
1f6bdf4d93
Merge pull request #165458 from rbreslow/add-flywheel-cli 2022-03-29 13:33:54 +02:00
alyaeanyx
aa931a46e0
gprojector: 3.0.2 -> 3.0.3 2022-03-28 23:56:35 +02:00
Rocky Breslow
603e9d7b64
flywheel-cli: init at 16.2.0 2022-03-28 15:54:39 -04:00
R. Ryantm
53dff2f7c8 rink: 0.6.2 -> 0.6.3 2022-03-28 18:13:37 +00:00
Jan Tojnar
c8a5db3854 Merge branch 'staging-next' into staging 
; Conflicts:
;	pkgs/tools/archivers/rar/default.nix
 2022-03-28 17:56:38 +02:00
Jan Tojnar
997bb5e42c Merge branch 'master' into staging-next 
; Conflicts:
;	pkgs/development/python-modules/dnspython/default.nix
;	pkgs/development/python-modules/googleapis-common-protos/default.nix
 2022-03-28 17:55:31 +02:00
Sandro
a63a39e238
Merge pull request #165335 from willcohen/qwt-6.2 2022-03-28 14:19:09 +02:00
Sandro
2f1e03cb2b
Merge pull request #165691 from lucc/github-removed-unencrypted-git 2022-03-28 12:47:42 +02:00
Maximilian Bosch
f9dd150fbe
Merge pull request #165960 from Ma27/bump-stellarium 
stellarium: 0.21.3 -> 0.22.0
 2022-03-28 10:06:37 +02:00
7c6f434c
1dfd957336
Merge pull request #165570 from r-ryantm/auto-update/jmol 
jmol: 14.32.33 -> 14.32.39
 2022-03-28 07:52:03 +00:00
github-actions[bot]
36198fe197
Merge staging-next into staging 2022-03-27 18:01:40 +00:00
github-actions[bot]
e3d20dfaa5
Merge master into staging-next 2022-03-27 18:01:05 +00:00
Maximilian Bosch
c951914f43
stellarium: 0.21.3 -> 0.22.0 
ChangeLog: https://github.com/Stellarium/stellarium/releases/tag/v0.22.0
 2022-03-27 17:40:34 +02:00
Sandro
966dd84461
Merge pull request #165778 from Luz/ngspice 2022-03-27 16:13:39 +02:00
Martin Weinelt
d68657af92 Merge remote-tracking branch 'origin/master' into staging-next 2022-03-27 15:54:05 +02:00
Sandro
7d63d0891b
Merge pull request #156413 from numinit/klee-fixes 2022-03-27 13:36:16 +02:00
Sandro
08e8862bca
Merge pull request #159943 from evils/kicad-unstable 2022-03-27 11:58:39 +02:00
Sandro
2a581ac5e5
Merge pull request #164981 from evils/kicad-6.0.4 2022-03-27 11:58:31 +02:00
github-actions[bot]
77dc421883
Merge staging-next into staging 2022-03-26 18:01:56 +00:00
github-actions[bot]
3b6f03e497
Merge master into staging-next 2022-03-26 18:01:22 +00:00
Will Cohen
f405c59874 libsForQt5.qwt: 6.1.6 -> 6.2.0 2022-03-26 13:35:18 -04:00
Sandro
f338d0737c
Merge pull request #159997 from jvanbruegge/isabelle-linter 2022-03-26 15:58:08 +01:00
Luz
793d40b8df ngspice: 34 -> 36 2022-03-25 19:19:48 +01:00
github-actions[bot]
84962daf66
Merge staging-next into staging 2022-03-25 18:01:48 +00:00
github-actions[bot]
c6dd9fd65d
Merge master into staging-next 2022-03-25 18:01:14 +00:00
Silvan Mosberger
3180037c84
Merge pull request #164616 from TilCreator/update-inav-configurator 
inav-configurator: 3.0.2 -> 4.1.0
 2022-03-25 18:19:45 +01:00
github-actions[bot]
8357b101a5
Merge staging-next into staging 2022-03-25 12:02:05 +00:00
Lucas Hoffmann
f3bda2f2c0 docs: replace defunct git://github.com urls with https:// 2022-03-25 11:21:42 +01:00
Vladimír Čunát
0a8b4eddd2
Merge branch 'master' into staging-next 2022-03-25 10:16:56 +01:00
Ben Siraphob
1cf5591a99
Merge pull request #165303 from Stunkymonkey/treewide-pname-version-18 2022-03-24 22:55:34 -05:00
Connor Baker
0489a21577 z3: init 4.8.15, 4.7.1, 4.6.0, 4.5.0 2022-03-24 16:44:24 -04:00
davidak
6ea8d5ee71
Merge pull request #165297 from Stunkymonkey/treewide-pname-version-17 
treewide: rename name to pname&version
 2022-03-24 16:38:33 +01:00
Ryan Mulligan
994642544e
Merge pull request #165594 from r-ryantm/auto-update/marvin 
marvin: 22.7.0 -> 22.8.0
 2022-03-24 07:57:52 -07:00
Doron Behar
4a02c56a7d
Merge pull request #164746 from ncfavier/makeWrapper-chdir 2022-03-24 13:51:27 +02:00
R. Ryantm
a7f7b6977f marvin: 22.7.0 -> 22.8.0 2022-03-24 10:35:36 +00:00
Vincent Laporte
3d0a9d1668 coq_8_15: 8.15.0 → 8.15.1 2022-03-24 10:17:42 +01:00
R. Ryantm
a4bf7fed59 jmol: 14.32.33 -> 14.32.39 2022-03-24 06:38:50 +00:00
Felix Buehler
3bc5196252 treewide: rename name to pname&version 2022-03-23 22:55:50 +01:00
Felix Buehler
e0476d93fe treewide: rename name to pname&version 2022-03-23 22:34:54 +01:00
Jan van Brügge
0391279c24
isabelle: Add isabelle-linter as optional component 2022-03-23 14:47:21 +01:00
markuskowa
3095b43655
Merge pull request #165368 from sikmir/gnuastro 
gnuastro: init at 0.17
 2022-03-23 13:04:04 +01:00
github-actions[bot]
c80dabe3b1
Merge staging-next into staging 2022-03-23 06:01:55 +00:00
Nikolay Korotkiy
d9d3fe9b7c
gnuastro: init at 0.17 2022-03-23 07:37:18 +03:00
Sandro
50715837d6
Merge pull request #165277 from mpoquet/simgrid-3.30-to-3.31 2022-03-23 04:18:06 +01:00
ajs124
6324abc93e libpng_apng: drop 
It's been the same as libpng since 8164d28, because
`libpng_apng = libpng.override { apngSupport = true; };`, but `apngSupport ? true`
 2022-03-23 03:20:11 +01:00
zowoq
be98149597 Merge remote-tracking branch 'origin/staging-next' into staging 
Conflicts:
	pkgs/servers/isso/default.nix
 2022-03-23 10:04:17 +10:00
R. Ryantm
8fd85d6940 verilator: 4.218 -> 4.220 2022-03-22 23:21:05 +00:00
Franz Pletz
9dd3e78f7e
Merge pull request #165194 from q3k/q3k/magic-vlsi-8.7.277 
magic-vlsi: 8.3.109 -> 8.3.277
 2022-03-22 22:00:17 +01:00
Millian Poquet
9ff032c291 simgrid: 3.30 -> 3.31 
- addition of the optional eigen dependency, used by a new simulation
  model (bmf) that looks very promising to take interference phenomena
  into account while remaining coarse-grained.
- enabled the new dependency by default as I think this is interesting
  for most users.
 2022-03-22 14:52:22 +01:00
github-actions[bot]
c62314becb
Merge staging-next into staging 2022-03-22 06:01:42 +00:00
Serge Bazanski
8171e0a24e magic-vlsi: 8.3.109 -> 8.3.277 2022-03-22 02:14:44 +01:00
Sandro
4348e36456
Merge pull request #164248 from Stunkymonkey/treewide-fetchFromGitHub-2 2022-03-22 02:13:45 +01:00
github-actions[bot]
03c279d7ea
Merge staging-next into staging 2022-03-22 00:02:58 +00:00
Jörg Thalheim
800d3e733c
Merge pull request #165100 from armeenm/remove-golly-beta 
golly-beta: remove
 2022-03-21 20:20:31 +00:00
github-actions[bot]
6ae26bb3c8
Merge staging-next into staging 2022-03-21 18:07:51 +00:00
Ryan Mulligan
0ecdc95822
Merge pull request #165002 from r-ryantm/auto-update/kstars 
kstars: 3.5.7 -> 3.5.8
 2022-03-21 10:02:16 -07:00
Armeen Mahdian
858e03cf1f golly-beta: remove 
Golly is more up to date
 2022-03-21 07:08:53 -05:00
Vladimír Čunát
a519740b4c
Merge branch 'staging-next' into staging 2022-03-21 11:57:43 +01:00
R. Ryantm
142a76c412 kstars: 3.5.7 -> 3.5.8 2022-03-20 17:43:56 +00:00
Gabriel Ebner
3aa72cc471
Merge pull request #157515 from jvanbruegge/isabelle-naproche 
isabelle: Enable and use naproche from nixpkgs
 2022-03-20 18:26:33 +01:00
Evils
dfb7d36e7a kicad-unstable: 2022-01-13 -> 2022-03-19 2022-03-20 16:32:32 +01:00
Evils
fc6f267e5d kicad: 6.0.2 -> 6.0.4 
6.0.3 was tagged but never released due to an issue
 2022-03-20 15:36:44 +01:00
Doron Behar
6f227f03cb qalculate-gtk: 4.0.0 -> 4.1.0 2022-03-20 16:04:47 +08:00
Bobby Rong
b3549ba290
Merge pull request #164837 from bobby285271/pantheon-eco 
various: remove elementary-icon-theme from buildInputs & vala 0.56 fixes
 2022-03-20 13:34:08 +08:00
Martin Weinelt
f4f3622cb1 Merge remote-tracking branch 'origin/staging-next' into staging 2022-03-20 00:00:32 +01:00
Bobby Rong
88aee703c2
various: remove elementary-icon-theme from buildInputs 
These apps don't hardcode their icon themes and the icon theme
is no longer picked up by wrapGAppsHook by default. User may
also able to choose to use icon themes of their choice so pulling
them to XDG_DATA_DIRS is mostly no use.
 2022-03-19 17:16:30 +08:00
Naïm Favier
9160044f5f
treewide/makeWrapper: replace --run cd with --chdir 
Lay the groundwork for switching to binary wrappers by reducing uses
of `--run` (which is not supported by `makeBinaryWrapper`).
 2022-03-19 09:46:31 +01:00
7c6f434c
c8677c4da2
Merge pull request #164193 from NixOS/r-updates 
R 4.1.2 -> 4.1.3 and rPackages bump
 2022-03-18 17:27:53 +00:00
Ryan Mulligan
bfe3a6f08a
Merge pull request #164022 from r-ryantm/auto-update/jmol 
jmol: 14.32.30 -> 14.32.33
 2022-03-18 10:25:57 -07:00
Sandro
957075fd6d
Merge pull request #164375 from fedeinthemix/gaw-update 2022-03-18 17:58:40 +01:00
Gabriel Ebner
dccd0f76c3
Merge pull request #164717 from collares/lean-3.42.0 
lean: 3.41.0 -> 3.42.0
 2022-03-18 17:31:26 +01:00
Armeen Mahdian
6cfaf0a464 eggnog-mapper: 1.0.3 -> 2.1.7 
https://github.com/eggnogdb/eggnog-mapper/releases
 2022-03-18 10:26:47 -05:00
Mauricio Collares
897ba65b6f lean: 3.41.0 -> 3.42.0 2022-03-18 11:52:10 -03:00
github-actions[bot]
588298ee0a
Merge staging-next into staging 2022-03-18 12:01:57 +00:00
R. Ryantm
d055eda636 mavproxy: 1.8.46 -> 1.8.48 2022-03-18 11:17:17 +00:00
R. Ryantm
d29ff668b5 opensmt: 2.3.0 -> 2.3.1 2022-03-17 18:40:58 +00:00
tilcreator
73449ea799 inav-configurator: 3.0.2 -> 4.1.0 2022-03-17 17:50:49 +01:00
Felix Buehler
f8684d34e9 cntk: switch to fetchFromGitHub 2022-03-16 23:23:09 +01:00
github-actions[bot]
177bd4ed53
Merge staging-next into staging 2022-03-16 18:01:43 +00:00
Bobby Rong
2079219a72
Merge pull request #164162 from jdupak/master 
QtRVSim: 0.9.1 -> 0.9.2
 2022-03-16 21:32:22 +08:00
Federico Beffa
3076eab196 gaw: 20200922 -> 20220315 2022-03-16 08:01:53 +01:00
zowoq
6431086967 Merge remote-tracking branch 'origin/staging-next' into staging 
Conflicts:
	pkgs/development/python-modules/symengine/default.nix
 2022-03-16 16:03:43 +10:00
Morgan Jones
98a951c509 klee: build with klee-uclibc 
This ends up enabling more of the KLEE test suite, so apply patches to
fix those too.
 2022-03-15 19:21:00 -06:00
Ryan Mulligan
2a0d98d319
Merge pull request #163638 from r-ryantm/auto-update/siril 
siril: 0.99.10.1 -> 1.0.0
 2022-03-15 14:56:47 -07:00
Ryan Mulligan
7e1cc45b66
Merge pull request #162443 from r-ryantm/auto-update/phd2 
phd2: 2.6.10 -> 2.6.11
 2022-03-15 14:56:29 -07:00
Martin Weinelt
8d18f29b60
Merge pull request #161366 from NixOS/staging-next 
Staging next 2022-02-22
 2022-03-15 22:31:01 +01:00
Ben Siraphob
cc7b9eac78
Merge pull request #164195 from siraben/nuXmv-init 2022-03-15 18:53:13 +00:00
Ben Siraphob
b39792d141
nuXmv: init at 2.0.0 2022-03-15 13:50:58 -05:00
Vladimír Čunát
b61852cd94
Merge branch 'master' into staging-next 2022-03-15 18:08:32 +01:00
Rasmus Thomsen
69895c6248
bada-bib: 0.5.1 -> 0.6.0 2022-03-15 12:50:26 +01:00
Jakub Dupak
b72a99d718 QtRVSim: 0.9.1 -> 0.9.2 2022-03-14 22:04:17 +02:00
Alyssa Ross
d7e181ff83
Merge remote-tracking branch 'nixpkgs/staging-next' into staging 
Conflicts:
	pkgs/development/compilers/ocaml/4.12.nix
	pkgs/development/python-modules/oci/default.nix
	pkgs/tools/admin/bubblewrap/default.nix
 2022-03-14 12:33:16 +00:00
github-actions[bot]
0ed928e4ab
Merge master into staging-next 2022-03-14 12:01:26 +00:00
Mauricio Collares
5240cbc0d8 sage: adapt tachyon interface for 0.99.3 2022-03-13 16:53:22 -03:00
R. Ryantm
6d61669d69 jmol: 14.32.30 -> 14.32.33 2022-03-13 16:20:57 +00:00
github-actions[bot]
1630ab9b47
Merge master into staging-next 2022-03-13 06:05:11 +00:00
Jakub Dupak
d09489e5f1
QtRvSim: init at 0.9.1 (#163128) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-03-13 03:08:40 +01:00
github-actions[bot]
6f7d104254
Merge master into staging-next 2022-03-13 00:02:14 +00:00
Sandro
529b89d755
Merge pull request #161434 from collares/lean-3.40.0 2022-03-12 23:43:20 +01:00
Sandro
8057801ad7
Merge pull request #163849 from fedeinthemix/add-xschem-2 2022-03-12 22:32:08 +01:00
R. Ryantm
b3cadfd9e6 ott: 0.31 -> 0.32 2022-03-12 18:31:38 +00:00
R. Ryantm
29d7a27d9f opensmt: 2.2.0 -> 2.3.0 2022-03-12 17:44:51 +00:00
R. Ryantm
31d64f7498 gurobi: 9.5.0 -> 9.5.1 2022-03-12 17:28:03 +00:00
Federico Beffa
5d702c6b23 gaw: init at version 20200922 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-03-12 17:50:10 +01:00
Federico Beffa
a40de4b146 xschem: init at version 3.0.0 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-03-12 17:49:48 +01:00
github-actions[bot]
a9a2d9475d
Merge staging-next into staging 2022-03-11 18:01:59 +00:00
github-actions[bot]
7573d7fe79
Merge master into staging-next 2022-03-11 18:01:20 +00:00
Renaud
28721c55c5
Merge pull request #160342 from Luflosi/update/yosys 
yosys: 0.12+54 -> 0.15
 2022-03-11 18:15:51 +01:00
Mauricio Collares
bab25a7a3a lean: 3.40.0 -> 3.41.0 2022-03-11 11:40:27 -03:00
R. Ryantm
f764458ed2 siril: 0.99.10.1 -> 1.0.0 2022-03-10 22:40:03 +00:00
Justin Bedo
3739a7819d
R: 4.1.2 -> 4.1.3 2022-03-10 22:31:13 +11:00
github-actions[bot]
f6b4a4048a
Merge staging-next into staging 2022-03-09 12:01:59 +00:00
github-actions[bot]
201cc2f89b
Merge master into staging-next 2022-03-09 00:02:05 +00:00
Luflosi
0e4d199cbd
abc-verifier: 2021.11.12 -> 2022.03.04 2022-03-08 18:28:13 +01:00
R. Ryantm
e0c3da7946 jmol: 14.32.28 -> 14.32.30 2022-03-08 16:34:40 +00:00
github-actions[bot]
69e1d85d54
Merge staging-next into staging 2022-03-06 18:01:46 +00:00
github-actions[bot]
68a45fb1f2
Merge master into staging-next 2022-03-06 18:01:10 +00:00
R. Ryantm
f3288c60f0 marvin: 22.3.0 -> 22.7.0 2022-03-06 07:45:27 +00:00
github-actions[bot]
6933fb31ab
Merge staging-next into staging 2022-03-06 06:01:40 +00:00
github-actions[bot]
3f8e60728f
Merge master into staging-next 2022-03-06 06:01:06 +00:00
Bobby Rong
cf7e4cac05
Merge pull request #161194 from wucke13/mission-planner 
mission-planner: 1.3.74 -> 1.3.76
 2022-03-06 13:28:50 +08:00
github-actions[bot]
90f82a2f9a
Merge staging-next into staging 2022-03-06 00:02:44 +00:00
github-actions[bot]
9dd2a8b600
Merge master into staging-next 2022-03-06 00:02:10 +00:00
Dmitry Kalinkin
149d68268d
root: fix ROOTConfig.cmake.in patching 2022-03-04 21:04:19 -05:00
github-actions[bot]
a072933f52
Merge staging-next into staging 2022-03-05 00:02:27 +00:00
github-actions[bot]
d4bfb57f40
Merge master into staging-next 2022-03-05 00:01:54 +00:00
7c6f434c
d5058ae9e5
Merge pull request #162688 from r-ryantm/auto-update/jmol 
jmol: 14.32.24 -> 14.32.28
 2022-03-04 20:43:10 +00:00
github-actions[bot]
d3cf053b7f
Merge staging-next into staging 2022-03-04 18:01:54 +00:00
github-actions[bot]
437813752b
Merge master into staging-next 2022-03-04 18:01:19 +00:00
Bruno Bzeznik
7d62054650 angsd: init at 0.937 2022-03-04 09:17:35 -06:00
Alyssa Ross
c010a19a56
Merge remote-tracking branch 'nixpkgs/staging-next' into staging 
Conflicts:
	pkgs/development/python-modules/hypothesmith/default.nix
 2022-03-04 14:53:05 +00:00
github-actions[bot]
fc22d0d5e2
Merge master into staging-next 2022-03-04 12:01:33 +00:00
Matthew Wakefield
e85b65f986
minimap2: enable aarch64 builds (#161169) 
Co-authored-by: Bobby Rong <rjl931189261@126.com>
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-03-04 12:27:29 +01:00
R. Ryantm
f5258a7d12 jmol: 14.32.24 -> 14.32.28 2022-03-03 23:44:55 +00:00
github-actions[bot]
18a9a18e2b
Merge staging-next into staging 2022-03-02 12:10:55 +00:00
github-actions[bot]
12423e2e92
Merge master into staging-next 2022-03-02 12:05:47 +00:00
R. Ryantm
04ee1b8975 phd2: 2.6.10 -> 2.6.11 2022-03-02 03:13:28 +00:00
Justin Bedo
89eff15f31
last: 1260 -> 1268 2022-03-02 13:35:56 +11:00
Jan van Brügge
c1ef185bdb
isabelle: Use naproche from nixpkgs 2022-03-01 13:43:38 +01:00
Jan van Brügge
2b71e68503
naproche: init at 0.1.0.0 2022-03-01 13:43:37 +01:00
github-actions[bot]
fbd1c5b484
Merge staging-next into staging 2022-03-01 12:11:43 +00:00
github-actions[bot]
4ae3f9a06c
Merge master into staging-next 2022-03-01 12:05:54 +00:00
Gabriel Ebner
8934eb7c91
Merge pull request #157843 from jvanbruegge/isabelle_setup 
isabelle: Rebuild isabelle_setup.jar
 2022-03-01 12:11:25 +01:00
zowoq
64a89aac86 Merge staging-next into staging 
Conflicts:
	pkgs/development/libraries/sqlite/default.nix
 2022-03-01 16:20:52 +10:00
R. Ryantm
de0ff65232 cwltool: 3.1.20220221074232 -> 3.1.20220224085855 2022-03-01 03:46:50 +00:00
grnnja
b6c7526d3a
jflap: init at 7.1 2022-02-28 17:12:08 -08:00
github-actions[bot]
bfb0bc0461
Merge master into staging-next 2022-02-28 18:05:41 +00:00
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
github-actions[bot]
f831b62376
Merge staging-next into staging 2022-02-28 12:01:47 +00:00
github-actions[bot]
e71c1249e8
Merge master into staging-next 2022-02-28 12:01:10 +00:00
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
Jonathan Ringer
3af9faf36d
Merge pull request #133431 from Ma27/glibc-2.34 
glibc: 2.33-108 -> 2.34-115
 2022-02-27 18:07:11 -08:00
github-actions[bot]
6787116890
Merge master into staging-next 2022-02-28 00:02:07 +00:00
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
Maximilian Bosch
52bba1de8a
clingcon: fix build w/glibc-2.34 
Failing Hydra build: https://hydra.nixos.org/build/163641612
 2022-02-27 10:26:56 +01:00
AndersonTorres
ed2b1b4b90 Merge branch 'master' into staging-next 2022-02-26 21:04:25 -03:00
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
github-actions[bot]
cd6011bf17
Merge master into staging-next 2022-02-24 00:02:03 +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
github-actions[bot]
37f89e2837
Merge master into staging-next 2022-02-23 18:01:10 +00:00
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
github-actions[bot]
10c4b97b44
Merge master into staging-next 2022-02-23 12:01:11 +00:00
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
Mauricio Collares
4ba9b2d198 lean: 3.39.2 -> 3.40.0 2022-02-22 21:02:08 -03:00
github-actions[bot]
ac0e0313b5
Merge staging-next into staging 2022-02-22 06:01:53 +00:00
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
github-actions[bot]
f8210665fc
Merge staging-next into staging 2022-02-22 00:02:51 +00:00
Mauricio Collares
586b897693 sage: update test expectations for stack_data 0.2.0 2022-02-21 14:49:16 -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
Wanja Zaeske
58d5eb70e2 mission-planner: 1.3.74 -> 1.3.76 2022-02-21 09:51:16 +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
Florent C
762faa21a2 tlaps: 1.4.3 -> 1.4.5 
This updates tlaps to the most recent stable version and fixes the
template for the url from which the sources are fetched. Previously, the
tarball was fetched from the "current" remote directory from which old
versions are eventually removed. The package was therefore broken.
It also adds myself (florentc) as a maintainer.
 2022-02-16 15:19:51 +01:00
Artturi
83dc7a2714
Merge pull request #159808 from r-ryantm/auto-update/tlaplus 2022-02-16 15:53:15 +02:00
Mauricio Collares
b38b641ff3 sageWithDoc: fix Sphinx warnings which break docgen 2022-02-15 22:37:34 -03:00
Ben Siraphob
521cfab34b
Merge pull request #157626 from siraben/formula-init 2022-02-15 18:38:41 -06:00
Sandro
5c5a8df724
Merge pull request #156420 from azuwis/transfig 2022-02-16 00:49:28 +01:00
7c6f434c
16fe911917
Merge pull request #160088 from r-ryantm/auto-update/jmol 
jmol: 14.32.6 -> 14.32.21
 2022-02-15 21:39:00 +00:00
Kevin Cox
4e883afc5a
Merge pull request #159226 from lorenzleutgeb/gradle 
gradle: 7.3.3 -> 7.4
 2022-02-15 15:26:18 -05:00
Ben Siraphob
7f94906083
formula: init at 2.0 2022-02-15 14:09:16 -06:00
Lorenz Leutgeb
f7e01145af gradle: Update hashes of dependents for 7.4 2022-02-15 09:17:56 +01:00
Zhong Jianxin
507b23f0d1 chemtool: Set platforms to linux 2022-02-15 10:49:51 +08:00
R. Ryantm
099fefbceb jmol: 14.32.6 -> 14.32.21 2022-02-15 02:42:04 +00:00
Zhong Jianxin
e8f3914985 treewide: Replace transfig with fig2dev 
Reasons:

- transfig never get upstream update since it was added to nixpkgs 2006,
  according to [fig2dev Debian changelog][1], upstream maintainership
  was taken over at 2016, and renamed to fig2dev.

- [Debian][2], [ArchLinux][3], [HomeBrew][4] all use fig2dev to replace
  transfig.

- transfig builds [failed][5] on aarch64-darwin, fig2dev builds fine.

- One less package to maintain.

[1]: https://salsa.debian.org/debian/fig2dev/-/blob/debian/1%253.2.6_beta-1/debian/changelog
[2]: https://packages.debian.org/bullseye/transfig
[3]: https://archlinux.org/packages/community/x86_64/fig2dev/
[4]: https://formulae.brew.sh/formula/fig2dev
[5]: https://hydra.nixos.org/build/163404782/nixlog/2
 2022-02-15 10:13:56 +08:00
7c6f434c
a6a1e14e52
Merge pull request #159741 from r-ryantm/auto-update/polymake 
polymake: 4.5 -> 4.6
 2022-02-14 20:52:03 +00:00
7c6f434c
117fdae4b6
Merge pull request #159351 from collares/sage-ipython-8 
sage: don't test for Cython source code in tracebacks (temporarily)
 2022-02-14 17:18:21 +00:00
Jan van Brügge
75f5b1f5b2
isabelle: Rebuild isabelle_setup.jar 
This jar contained a call to /usr/bin/env bash which was causing an
error during the build of the HOL session (which could be ignored) and
caused other errors during the development of https://github.com/NixOS/nixpkgs/pull/157515
 (which could not be ignored). This commit patches the java sources to
 call `bash` directly and rebuild the jar.
 2022-02-14 15:17:58 +01:00
Bobby Rong
8617a5a336
Merge pull request #159645 from r-ryantm/auto-update/openhantek6022 
openhantek6022: 3.2.4 -> 3.2.5
 2022-02-14 19:58:50 +08:00
R. Ryantm
e1f6e33d01 workcraft: 3.3.5 -> 3.3.6 2022-02-14 09:43:01 +00:00
R. Ryantm
240262f564 messer-slim: 3.7 -> 3.7.1 2022-02-14 00:46:29 +00:00
markuskowa
e7a2652f31
Merge pull request #159311 from r-ryantm/auto-update/gmsh 
gmsh: 4.9.2 -> 4.9.4
 2022-02-13 11:48:17 +01:00
R. Ryantm
42d5cbb78e tlaplus: 1.7.1 -> 1.7.2 2022-02-13 10:33:51 +00:00
R. Ryantm
2220d35562 bada-bib: 0.3.0 -> 0.4.1 2022-02-12 22:22:46 -08:00
R. Ryantm
24b505484b cytoscape: 3.9.0 -> 3.9.1 2022-02-12 21:13:11 -08:00
R. Ryantm
ac4ec1ef75 gretl: 2021d -> 2022a 2022-02-12 21:08:09 -08:00
R. Ryantm
154d72f526 ginac: 1.8.1 -> 1.8.2 2022-02-12 20:56:29 -08:00
R. Ryantm
36800803c5 gama: 2.16 -> 2.17 2022-02-12 20:54:56 -08:00
R. Ryantm
0948b62a1f polymake: 4.5 -> 4.6 2022-02-13 04:50:20 +00:00
R. Ryantm
aa982c28cf kstars: 3.5.6 -> 3.5.7 2022-02-12 20:32:52 -08:00
Justin Bedő
2759d6f8d8
Merge pull request #159675 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.26.9 -> 2.26.10
 2022-02-13 09:53:20 +11:00
Justin Bedő
7ff9c00c4b
Merge pull request #159562 from r-ryantm/auto-update/mosdepth 
mosdepth: 0.3.2 -> 0.3.3
 2022-02-13 09:27:54 +11:00
Justin Bedő
28f5937aeb
Merge pull request #159411 from r-ryantm/auto-update/last 
last: 1256 -> 1260
 2022-02-13 09:25:49 +11:00
R. Ryantm
8a4946df2d picard-tools: 2.26.9 -> 2.26.10 2022-02-12 22:20:29 +00:00
R. Ryantm
80175b54cc openhantek6022: 3.2.4 -> 3.2.5 2022-02-12 20:37:00 +00:00
Robert Scott
83ea8999d4 gmsh: enable tests 2022-02-12 16:15:57 +00:00
Robert Scott
61dc066799 gmsh: enable for darwin 2022-02-12 16:13:53 +00:00
R. Ryantm
8bb7bc766f mosdepth: 0.3.2 -> 0.3.3 2022-02-12 14:31:47 +00:00
Mario Rodas
0ff383436d
Merge pull request #159009 from r-ryantm/auto-update/bcal 
bcal: 2.3 -> 2.4
 2022-02-12 08:39:47 -05:00
R. Ryantm
983beb2b8b marvin: 21.20.0 -> 22.3.0 2022-02-12 12:52:40 +00:00
7c6f434c
bff729efd3
Merge pull request #158992 from collares/R-stackprotector 
R: disable stack protector on aarch64-darwin
 2022-02-12 11:32:56 +00:00
Kim Lindberger
c7df3bf58c
Merge pull request #155108 from fedeinthemix/add-xyce-2 
Add Xyce 7.4 (second attempt)
 2022-02-12 11:34:10 +01:00
Federico Beffa
10b7f30936 xyce,xyce-parallel: init at 7.4 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com> and
                Kim Lindberger <kim.lindberger@gmail.com>
 2022-02-12 10:26:05 +01:00
R. Ryantm
6ca5bb6e20 last: 1256 -> 1260 2022-02-12 02:52:18 +00:00
Mauricio Collares
c763432549 sage: don't test for Cython source code in tracebacks (temporarily) 2022-02-11 19:13:34 -03:00
R. Ryantm
772c6b674c gmsh: 4.9.2 -> 4.9.4 2022-02-11 18:31:28 +00:00
R. Ryantm
1631ffae8d cwltool: 3.1.20220204090313 -> 3.1.20220210171524 2022-02-11 12:44:06 -05:00
evils
bb8a321187
kicad: 6.0.1 -> 6.0.2 (#159132) 2022-02-11 01:15:42 -05:00
Angus Trau
18592865d7 maintainers: update emilytrau 2022-02-11 04:45:03 +00:00
7c6f434c
06ff90f540
Merge pull request #159020 from collares/arb-2.22.1 
arb: 2.21.1 -> 2.22.1
 2022-02-10 23:56:18 +00:00
R. RyanTM
b6869047c5
lepton-eda: 1.9.16-20210731 -> 1.9.17-20211219 
(#152772)
 2022-02-10 21:43:31 +01:00
R. Ryantm
288ba3f85b scilab-bin: 6.0.2 -> 6.1.1 2022-02-10 11:56:08 -08:00
Mauricio Collares
b8c69782a2 sage: adapt tests to arb 2.22 2022-02-10 16:40:41 -03:00
R. Ryantm
fa133a26f3 rofi-calc: 2.0.0 -> 2.1.0 2022-02-10 11:32:09 -08:00
R. Ryantm
172ba8b474 bcal: 2.3 -> 2.4 2022-02-10 19:05:57 +00:00
Mauricio Collares
4536186f18 R: disable stack protector on aarch64-darwin 2022-02-10 14:01:08 -03:00
Mauricio Collares
58f58c8de6 lean: 3.39.0 -> 3.39.1 2022-02-08 12:24:19 -03:00
Ben Siraphob
3594565a7e
Merge pull request #156629 from siraben/coq-mainprogram 
coq: add meta.mainProgram
 2022-02-06 21:43:01 +00:00
Ben Siraphob
6ad0e10dd3
coq: add meta.mainProgram 2022-02-06 15:42:47 -06:00
Ben Siraphob
33489310eb
Merge pull request #158358 from c0bw3b/fix/homepages 
A batch of homepage (and source) updates
 2022-02-06 20:02:50 +00:00
Renaud
2ddcc2b369 hisat2: update homepage 
and use SPDX 3.0 license identifier
 2022-02-06 15:10:53 +01:00
Renaud
d968838c90 gravit: update homepage and source URLs 
and use SPDX 3.0 license identifier
 2022-02-06 15:10:47 +01:00
Renaud
3e5d286cc4 eagle7: update homepage 
www.cadsoftusa.com and www.cadsoft.de are gone
 2022-02-06 15:10:29 +01:00
R. RyanTM
1bfc1730e1
cwltool: 3.1.20220202173120 -> 3.1.20220204090313 (#158272) 2022-02-05 15:14:21 -05:00
Sandro
63a6539b76
Merge pull request #157198 from afontaine/afontaine/correct-fah-shortcuts 2022-02-04 18:26:20 +01:00
R. Ryantm
af3af2df32 cwltool: 3.1.20220124184855 -> 3.1.20220202173120 2022-02-03 20:06:12 -05:00
Timo Kaufmann
0371c7ba56
Merge pull request #157981 from collares/sage-fonttools-revert 
sage: no longer assume fonttools emits deprecation warnings
 2022-02-03 18:03:39 +01:00
Artturi
0f491bd7a3
Merge pull request #157264 from FliegendeWurst/disable-broken-parallel 2022-02-03 16:04:57 +02:00
Mauricio Collares
0ebdfab88b lean: 3.38.0 -> 3.39.0 2022-02-03 09:21:20 -03:00