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5319 Commits

Author SHA1 Message Date
github-actions[bot]
a92850904c
Merge staging-next into staging 2021-09-30 18:01:43 +00:00
Bobby Rong
8145828985
Merge pull request #134593 from r-ryantm/auto-update/star 
star: 2.7.8a -> 2.7.9a
 2021-09-30 22:39:05 +08:00
github-actions[bot]
2dfffe79b2
Merge staging-next into staging 2021-09-30 00:02:24 +00:00
Austin Seipp
d474571392 symbiyosys: 2020.08.22 -> 2021.09.13 
Signed-off-by: Austin Seipp <aseipp@pobox.com>
 2021-09-29 13:14:27 -05:00
github-actions[bot]
ce4a8ae240
Merge staging-next into staging 2021-09-29 18:01:44 +00:00
Sandro
8f7fa26a78
Merge pull request #139309 from Baltoli/bump-z3 2021-09-29 15:00:38 +02:00
Thomas Tuegel
0e87e81ee5
Merge pull request #139764 from veprbl/pr/qtwrap_ismacho 
qt: use isELF and isMachO in wrapQtAppsHook
 2021-09-28 20:37:15 -05:00
Timo Kaufmann
cb3342eec8
Merge pull request #139758 from collares/sage-threejs-path 
threejs-sage: install in expected location
 2021-09-28 20:05:18 +02:00
Mauricio Collares
a5a7c33e77 threejs-sage: install in expected location 
Co-authored-by: Timo Kaufmann <timokau@zoho.com>
 2021-09-28 19:06:48 +02:00
Dmitry Kalinkin
e0532475bc
treewide: remove darwin-only manual wrapQtApp invocations 2021-09-28 10:29:46 -04:00
Sandro
5b5fb57aed
Merge pull request #139745 from Ma27/bump-stellarium 2021-09-28 14:12:02 +02:00
Maximilian Bosch
fbdf7d2206
stellarium: 0.21.1 -> 0.21.2 
ChangeLog: https://github.com/Stellarium/stellarium/releases/tag/v0.21.2
 2021-09-28 13:49:59 +02:00
Robert Schütz
54e1db2152
Merge pull request #138479 from dotlambda/proj-8.1.1 
proj: 7.2.1 -> 8.1.1
 2021-09-27 16:46:32 -07:00
Robert Schütz
98c8fc6fd0 gplates: 2.2.0 -> 2.3.0 2021-09-26 23:11:29 -07:00
Ryan Burns
4e1586c6ad
Merge pull request #139338 from r-burns/protobuf 
treewide: fixes for protobuf 3.18+
 2021-09-25 14:54:43 -07:00
Bruce Collie
3e213b8699 z3: 4.8.10 -> 4.8.12 2021-09-24 11:46:21 +01:00
R. RyanTM
5becb56f71
star: 2.7.8a -> 2.7.9a 2021-09-24 10:37:28 +08:00
Ryan Burns
40299257cc Merge branch 'master' into staging-next 2021-09-23 18:43:00 -07:00
Naïm Favier
b2391a51d2 coq: add desktop file for coqide 2021-09-23 14:39:50 +02:00
Sandro
9f5d7fa703
Merge pull request #136526 from smancill/shogun-remove-svmlight 
shogun: remove non-distributable SVMlight code
 2021-09-23 14:11:12 +02:00
Ryan Burns
813c400edc cntk: fix build with protobuf 3.18+ 2021-09-23 02:16:17 -07:00
Bobby Rong
c25465873c
Merge pull request #138022 from natsukium/blast/update 
blast: 2.11.0 -> 2.12.0
 2021-09-23 14:48:35 +08:00
Ryan Burns
e12802213e caffe: fix build with protobuf 3.18+ 2021-09-22 21:57:13 -07:00
github-actions[bot]
796a5df129
Merge master into staging-next 2021-09-23 00:01:50 +00:00
Sandro
1d180608da
Merge pull request #138968 from hjones2199/kstars355 2021-09-22 22:32:28 +02:00
Guillaume Girol
4bc83aaffa
Merge pull request #136489 from ehmry/nimPackages 
nimpackages / buildNimPackage
 2021-09-22 18:35:38 +00:00
Hunter Jones
3ba268b73d kstars: 3.5.4 -> 3.5.5 2021-09-22 11:35:38 -05:00
markuskowa
b4f1a1338f
Merge pull request #138512 from r-burns/csdp 
[staging-next] Revert "csdp: move gfortran to nativeBuildInputs"
 2021-09-20 12:18:40 +02:00
Alyssa Ross
e2bb7997c4
Merge remote-tracking branch 'nixpkgs/master' into staging-next 
Conflicts:
	nixos/doc/manual/release-notes/rl-2111.section.md
 2021-09-19 17:08:00 +00:00
Ryan Burns
b23afbb866 Revert "csdp: move gfortran to nativeBuildInputs" 
We are not using gfortran as a native binary; we are using its lib.

Fixes build on darwin.

This reverts commit eabbf45b60.
 2021-09-19 02:35:27 -07:00
Bobby Rong
0fd8cc3908
treewide: switch from pantheon.maintainers to lib.teams.pantheon 2021-09-18 23:07:00 +08:00
github-actions[bot]
263bdbdad4
Merge master into staging-next 2021-09-18 06:01:19 +00:00
figsoda
0e575a459e
Merge pull request #137974 from r-ryantm/auto-update/bowtie 
bowtie: 1.3.0 -> 1.3.1
 2021-09-17 22:52:43 -04:00
Sebastián Mancilla
e810fad47a shogun: remove non-distributable SVMlight code 
SVMlight uses a non-standard license [0] that doesn't allow distribution
without the author's permission:

> The software must not be modified and distributed without prior permission of the author.

So remove all code related to it when building the binary package.
Use upstream's own script to do it (which they use to create and
distribute their own Debian package), with a few fixes.

There is still the option of building from source with SVMlight enabled
with an override that sets the withSvmLight parameter.

If SVMlight is enabled set the license to unfree. Also fix the
deprecated gpl3 license to gpl3Plus.

[0]: https://github.com/shogun-toolbox/shogun/blob/shogun_6.1.4/doc/license/LICENSE_SVMlight.md
 2021-09-17 15:04:34 -03:00
github-actions[bot]
a21275cdae
Merge master into staging-next 2021-09-17 18:01:14 +00:00
figsoda
715d551a10
Merge pull request #136637 from L-as/alliance 
alliance: 5.1.1 -> unstable-2020-12-04
 2021-09-17 12:47:55 -04:00
Las Safin
33390f6bc7
alliance: 5.1.1 -> unstable-2021-09-15 2021-09-17 16:17:23 +00:00
github-actions[bot]
2ad7b248e6
Merge staging-next into staging 2021-09-17 00:02:15 +00:00
Robert Scott
c1dac4490e
Merge pull request #138061 from Stunkymonkey/switch-fetchFromGitLab 
quantum-espresso,postgresql11Packages.pg_ed25519: switch to fetchFromGitlab
 2021-09-16 23:53:23 +01:00
github-actions[bot]
85bd312fb6
Merge staging-next into staging 2021-09-16 12:02:04 +00:00
markuskowa
228e15e7cb
Merge pull request #138123 from markuskowa/fix-octopus 
octopus: add CPU optimization flags
 2021-09-16 13:25:47 +02:00
Markus Kowalewski
bd69f3d627
octopus: add CPU optimization flags 2021-09-16 12:53:47 +02:00
Bobby Rong
12d38c57c3
Merge pull request #134133 from Kranzes/auto-update/SPAdes 
SPAdes: 3.15.2 -> 3.15.3
 2021-09-16 17:09:24 +08:00
Bobby Rong
77f92d23c7
Merge pull request #137608 from lopsided98/qgroundcontrol-update 
qgroundcontrol: 4.1.3 -> 4.1.4
 2021-09-16 14:18:28 +08:00
Felix Buehler
64bac8e874 quantum-espresso: switch to fetchFromGitLab 2021-09-15 23:13:57 +02:00
github-actions[bot]
1c625bf844
Merge staging-next into staging 2021-09-15 18:01:59 +00:00
Dmitry Kalinkin
d8ed39b309
Merge pull request #135525 from veprbl/pr/open_memstream_fmemopen_darwin_fix 
Add implemetations of open_memstream/fmemopen to be used on BSDs
 2021-09-15 11:49:55 -04:00
Dmitry Kalinkin
84f408f206
Merge pull request #136016 from veprbl/pr/root_6_24_04 
root: 6.24.02 -> 6.24.06
 2021-09-15 11:35:07 -04:00
Tomoya Otabi
1e9bd43214 blast: 2.11.0 -> 2.12.0 2021-09-15 15:33:44 +00:00
github-actions[bot]
24a34e5706
Merge staging-next into staging 2021-09-15 12:01:34 +00:00
Michael Raskin
47eaf6727b
Merge pull request #137876 from r-ryantm/auto-update/opensmt 
opensmt: 2.1.0 -> 2.1.1
 2021-09-15 09:03:33 +00:00
R. RyanTM
7bf7c9b92b bowtie: 1.3.0 -> 1.3.1 2021-09-15 07:35:44 +00:00
github-actions[bot]
636ebe3a72
Merge staging-next into staging 2021-09-15 06:01:54 +00:00
Justin Bedő
9c4f65db4b
Merge pull request #137884 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.26.0 -> 2.26.2
 2021-09-15 04:59:06 +00:00
R. RyanTM
e676fdcb90 picard-tools: 2.26.0 -> 2.26.2 2021-09-14 19:53:25 +00:00
R. RyanTM
1c9cbe8a05 opensmt: 2.1.0 -> 2.1.1 2021-09-14 18:44:37 +00:00
github-actions[bot]
95f24a8a57
Merge staging-next into staging 2021-09-14 18:01:40 +00:00
R. RyanTM
504529d628 horizon-eda: 2.0.0 -> 2.1.0 2021-09-14 10:46:32 +00:00
github-actions[bot]
04e48fbe4f
Merge staging-next into staging 2021-09-13 18:01:51 +00:00
adisbladis
fcf5397793
Merge pull request #135905 from dukc/secondDmd2097 
D compiler update
 2021-09-13 11:36:55 -05:00
Ben Wolsieffer
03111112cc qgroundcontrol: 4.1.3 -> 4.1.4 2021-09-13 00:11:37 -04:00
github-actions[bot]
dfd1161f35
Merge staging-next into staging 2021-09-13 00:02:22 +00:00
Sandro
11e504567d
Merge pull request #137454 from r-ryantm/auto-update/MAVProxy 
mavproxy: 1.8.41 -> 1.8.42
 2021-09-13 00:26:51 +02:00
github-actions[bot]
fef6f602e6
Merge staging-next into staging 2021-09-12 18:01:50 +00:00
Daniël de Kok
6f2ce2a65e treewide: remove danieldk as maintainer from a set of packages 
I currently do not have much time to work on nixpkgs. Remove
myself as a maintainer from a bunch of packages to avoid that
people are waiting on me for a review.
 2021-09-12 14:42:12 +00:00
Sandro
83eef43893
Merge pull request #135906 from yl3dy/xoscope 
xoscope: 2.0 -> 2.3
 2021-09-12 16:15:41 +02:00
Sandro Jäckel
e4a49641ae
openems: fix eval 2021-09-12 14:45:44 +02:00
R. RyanTM
2464f7ae0a mavproxy: 1.8.41 -> 1.8.42 2021-09-12 00:36:50 +00:00
github-actions[bot]
d370d9ee99
Merge staging-next into staging 2021-09-11 18:01:51 +00:00
Sandro
22d08e62d9
Merge pull request #137382 from Xitian9/geogebra 2021-09-11 18:33:09 +02:00
Sandro
790559422e
Merge pull request #136823 from r-ryantm/auto-update/MAVProxy 2021-09-11 18:08:34 +02:00
Sandro
205c2ada66
Merge pull request #136967 from bzizou/obitools 2021-09-11 16:27:18 +02:00
Stephen Morgan
28b5133cce geogebra: 5-0-644-0 -> 5-0-662-0 2021-09-11 23:49:13 +10:00
github-actions[bot]
6188f2aeeb
Merge staging-next into staging 2021-09-11 06:01:28 +00:00
Guillaume Girol
1065a41d8d
Merge pull request #136369 from veprbl/pr/root5_gcc10_fix 
root5: fix for gcc10
 2021-09-10 19:54:29 +00:00
Hunter Jones
bc19f8dd1e kstars: 3.5.3 -> 3.5.4 2021-09-07 13:04:31 -05:00
Bruno Bzeznik
3bd1b0ed0d obitools3: 3.0.0-beta14 -> 3.0.1b11 2021-09-07 09:38:41 +02:00
R. RyanTM
a7277dd058 mavproxy: 1.8.40 -> 1.8.41 2021-09-06 00:37:54 +00:00
Emery Hemingway
323c503cba mosdepth: convert to buildNimPackage 2021-09-05 11:20:02 +02:00
Dmitry Kalinkin
0ec2acf51f
root: build with -Dimt=ON 2021-09-03 12:41:16 -04:00
Dmitry Kalinkin
95b2d74bc5
root: re-enable unvendored LLVM 2021-09-03 12:41:16 -04:00
Dmitry Kalinkin
aedfb59c87
root: 6.24.02 -> 6.24.06 2021-09-03 12:41:04 -04:00
Markus Kowalewski
25ebbde3e1
sherpa: move gfortran to nativeBuildInputs 2021-09-03 13:33:32 +02:00
Markus Kowalewski
01ba299e53
elmerfem: move gfortran to nativeBuildInputs 2021-09-03 13:33:32 +02:00
Markus Kowalewski
9259691d58
dl-poly-classic: move gfortran to nativeBuildInputs 2021-09-03 13:33:32 +02:00
Markus Kowalewski
35a17a0cfe
scilab: move gfortran to nativeBuildInputs 2021-09-03 13:33:32 +02:00
Markus Kowalewski
74443bc786
jags: move gfortran to nativeBuildInputs 2021-09-03 13:33:31 +02:00
Markus Kowalewski
eabbf45b60
csdp: move gfortran to nativeBuildInputs 2021-09-03 13:33:31 +02:00
Markus Kowalewski
d5c38a0d5c
siesta: move gfortran to nativeBuildInputs 2021-09-03 13:33:31 +02:00
Markus Kowalewski
9eb814fd96
quantum-espresso: move gfortran to nativeBuildInputs 2021-09-03 13:33:31 +02:00
Markus Kowalewski
eecadd3f3b
openmolcas: move gfortran to nativeBuildInputs 2021-09-03 13:33:31 +02:00
Dmitry Kalinkin
0a312a356c
root5: fix for gcc10 2021-09-01 07:14:56 -04:00
Ate Eskola
b2a39efa57 sambamba 0.8.0 -> 0.8.1 2021-08-31 12:37:49 +03:00
Michael Raskin
df3f3ccc6d
Merge pull request #136250 from collares/sage-networkx 
sage: adapt tests for networkx 2.6
 2021-08-31 07:52:29 +00:00
Mauricio Collares
7194273c77 sage: adapt tests for networkx 2.6 2021-08-30 22:43:24 -03:00
schotts-fired
9ec4fb0cd1 R: add memory profiling compile option 2021-08-30 18:24:42 +02:00
davidak
fe2d3b56e7
Merge pull request #136014 from veprbl/pr/snakemake_6_7_0 
snakemake: 6.6.1 -> 6.7.0
 2021-08-29 10:54:01 +02:00
Dmitry Kalinkin
b8c5c06aab
snakemake: 6.6.1 -> 6.7.0 2021-08-28 02:18:38 -04:00
Diep Pham
ac0b44b1ee
dcmtk: support darwin platform (#136005) 2021-08-28 02:00:18 -04:00
Alexander Kiselyov
accd81c1b6 xoscope: fixed buildInputs 2021-08-27 17:49:54 +03:00
Alexander Kiselyov
27dcb4bd31 xoscope: 2.0 -> 2.3 2021-08-26 22:21:17 +03:00
davidak
1b78608c69
Merge pull request #135516 from bzizou/stacks 
stacks: Changed license to gpl3Plus
 2021-08-26 03:50:48 +02:00
Justin Bedo
b1b57ec04e
fastp: 0.20.1 -> 0.22.0 2021-08-25 09:52:07 +10:00
Sandro
73ad08e512
Merge pull request #135481 from kzvi/lean-update 
lean: 3.31.0 -> 3.32.1
 2021-08-25 00:43:28 +02:00
Dmitry Kalinkin
9c8f6efc55
xfitter: enable WITH_YAML support on darwin 2021-08-24 18:21:41 -04:00
Ryan Mulligan
8c2e2ffe95
Merge pull request #135212 from r-ryantm/auto-update/stacks 
stacks: 2.55 -> 2.59
 2021-08-24 09:03:17 -07:00
Bruno Bzeznik
a240cd9f4f stacks: Changed license to gpl3Plus 2021-08-24 09:47:24 +02:00
Ryan Mulligan
997f4452a4
Merge pull request #135255 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.7 -> 2.26.0
 2021-08-23 20:56:38 -07:00
kzvi
befe89f3d7 lean: 3.31.0 -> 3.32.1 2021-08-23 15:43:00 -07:00
davidak
d18866b1c2 nasc: 0.7.5 -> 0.8.0 2021-08-23 23:23:52 +02:00
Artturi
f2f1718aae
Merge pull request #135404 from r-ryantm/auto-update/workcraft 2021-08-23 17:28:09 +03:00
Artturi
55fdaafe15
Merge pull request #135398 from r-ryantm/auto-update/verifast 
verifast: 19.12 -> 21.04
 2021-08-23 17:25:35 +03:00
R. RyanTM
6b086631c6 workcraft: 3.3.2 -> 3.3.5 2021-08-23 08:01:40 +00:00
R. RyanTM
a73fc504b7 verifast: 19.12 -> 21.04 2021-08-23 07:29:27 +00:00
Sandro
00f31216e0
Merge pull request #130396 from collares/sage-9.4 
sage: 9.3 -> 9.4
 2021-08-22 21:26:12 +02:00
Sandro
607fea187f
Merge pull request #135262 from shnarazk/cadical-141 
cadical: 1.3.0 -> 1.4.1
 2021-08-22 20:01:59 +02:00
Sandro
354afc6ecd
Merge pull request #135285 from Mic92/fix-homepages 2021-08-22 18:30:31 +02:00
Bjørn Forsman
7f6cb5a226 eagle: put the desktop icon where it can be found 
Apparently $out/share/icons/ doesn't work anymore, but
$out/share/pixmaps/ do.
 2021-08-22 17:12:24 +02:00
Jörg Thalheim
11e5c3ac4b bowtie: fix homepage 2021-08-22 16:08:28 +02:00
Mauricio Collares
46c3703ec1 sage: 9.3 -> 9.4 2021-08-22 09:53:12 -03:00
Mauricio Collares
9be264795c pynac: import segfault fix 2021-08-22 09:53:12 -03:00
Mauricio Collares
b565d30c47 maxima: 5.44.0 -> 5.45.0 2021-08-22 09:53:08 -03:00
Narazaki, Shuji
960ddb6f8f cadical: 1.3.0 -> 1.4.1 2021-08-22 20:46:34 +09:00
R. RyanTM
742cd80071 picard-tools: 2.25.7 -> 2.26.0 2021-08-22 10:47:38 +00:00
Michael Raskin
fbfc876625
Merge pull request #135241 from r-ryantm/auto-update/opensmt 
opensmt: 2.0.1 -> 2.1.0
 2021-08-22 10:03:57 +00:00
R. RyanTM
3760bcfd58 opensmt: 2.0.1 -> 2.1.0 2021-08-22 09:30:15 +00:00
R. RyanTM
67c1256ddd stacks: 2.55 -> 2.59 2021-08-22 07:08:39 +00:00
R. RyanTM
0fb51f3bf1 emuflight-configurator: 0.3.6 -> 0.4.0 2021-08-21 22:59:43 +00:00
Sandro
b2573f352e
Merge pull request #134578 from smancill/phase-hooks-use-strings 
treewide: ensure pre/post phase hooks are strings
 2021-08-21 14:49:30 +02:00
Sandro Jäckel
026fb18487
ginac: switch to pname + version, cleanup 2021-08-21 11:20:15 +02:00
Sebastián Mancilla
8f94a33b38 treewide: ensure pre/post phase hooks are strings 
Some derivations use lib.optional or lib.optionals when setting pre/post
phase hooks. Ensure the proper lib.optionalString is used.
 2021-08-20 19:08:42 -04:00
Sandro
a9f66e941d
Merge pull request #134390 from smancill/colpack-darwin 
colpack: refactor builder and build on darwin
 2021-08-20 23:58:11 +02:00
Tom Repetti
1387ce732d openroad: init at 2.0 2021-08-20 10:16:03 -04:00
Sebastián Mancilla
50062cc371 colpack: refactor builder and build on darwin 
- Use autoreconfHook and set flags with configureFlags.
- Only enable OpenMP on Linux, so it can be built on Darwin.
- Do not install .la file. Other distros also remove them.
- Do not build examples.
- Install example sources into a proper location.
- Fixed license.
 2021-08-19 15:51:23 -04:00
Sandro
ac9f41a782
Merge pull request #134393 from smancill/bump-lp-solve 
lp_solve: 5.5.2.5 -> 5.5.2.11
 2021-08-19 21:36:59 +02:00
Sandro
33a0810405
Merge pull request #134720 from cab404/pymole-2.5.0 
pymol: 2.3.0 -> 2.5.0
 2021-08-19 19:51:09 +02:00
Zhenya Vinogradov
6714723bfa sage: fix icon location in the kernel definition 
The icon location is incorrect, `doc` directory exists inside `src`
directory, but not on the top level.
 2021-08-19 12:20:35 +03:00
Vladimir Serov
8992ae0cff
pymol: 2.3.0 -> 2.5.0 2021-08-19 10:16:38 +03:00
davidak
f2b906617d
Merge pull request #134361 from Stunkymonkey/why3-phases 
why3: deprecate phases
 2021-08-19 04:06:56 +02:00
Sebastián Mancilla
514c8569aa lp_solve: 5.5.2.5 -> 5.5.2.11 
- Use the generic builder and override build and install phases instead
  of using buildCommand and missing phases and hooks, like fixup.

- Fix build on Darwin by using the proper build script (ccc.osx).

  - Add cctools to build inputs because ccc.osx uses the libtool
    command.

  - The install_name of the library is not set so fix it with
    fixDarwinDylibNames.

- Install headers into the expected location $out/include/lpsolve
  instead of $out/include. This follows what other distro do.
 2021-08-17 23:20:47 -04:00
Ryan Mulligan
ad59a67ec0
Merge pull request #134444 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.1 -> 2.25.7
 2021-08-17 16:47:31 -07:00
Artturi
8ba3c63144
Merge pull request #133998 from r-ryantm/auto-update/wxmaxima 
wxmaxima: 21.02.0 -> 21.05.2
 2021-08-17 23:00:21 +03:00
Gabriel Ebner
65cafb6030
Merge pull request #134474 from r-ryantm/auto-update/qalculate-gtk 
qalculate-gtk: 3.19.0 -> 3.20.1
 2021-08-17 21:32:08 +02:00
Artturi
4f36420d07
Merge pull request #134045 from r-ryantm/auto-update/minimap2 
minimap2: 2.17 -> 2.22
 2021-08-17 22:22:47 +03:00
Ryan Mulligan
6cae9fd0c5
Merge pull request #134472 from r-ryantm/auto-update/vowpal-wabbit 
vowpal-wabbit: 8.10.0 -> 8.11.0
 2021-08-17 11:18:02 -07:00
R. RyanTM
73b3e147ea openhantek6022: 3.2.3 -> 3.2.4 2021-08-17 10:33:56 -07:00
R. RyanTM
cbd7e0dec1 qalculate-gtk: 3.19.0 -> 3.20.1 2021-08-17 16:04:54 +00:00
R. RyanTM
6d139ed34f vowpal-wabbit: 8.10.0 -> 8.11.0 2021-08-17 15:59:33 +00:00
R. RyanTM
1a23a8bb9e picard-tools: 2.25.1 -> 2.25.7 2021-08-17 13:50:42 +00:00
Gabriel Ebner
f267d39257
Merge pull request #134394 from r-ryantm/auto-update/elan 
elan: 1.0.6 -> 1.0.7
 2021-08-17 10:03:05 +02:00
R. RyanTM
b1868a8296 elan: 1.0.6 -> 1.0.7 2021-08-17 03:53:13 +00:00
Felix Buehler
c849ada0c5 why3: deprecate phases 2021-08-16 22:50:19 +02:00
Felix Buehler
8a8a949ffd tlaplusToolbox: deprecate phases 2021-08-16 21:54:44 +02:00
Felix Buehler
8ad1a7859a tlaps: deprecate phases 2021-08-16 21:54:22 +02:00
Ilan Joselevich
9f5b3fafa0 SPAdes: 3.15.2 -> 3.15.3 2021-08-15 11:12:42 +03:00
R. RyanTM
5caebbb040 verilator: 4.202 -> 4.210 2021-08-14 17:01:17 -05:00
R. RyanTM
5693a554e2 minimap2: 2.17 -> 2.22 2021-08-14 15:55:35 +00:00
R. RyanTM
0ba50b681e wxmaxima: 21.02.0 -> 21.05.2 2021-08-14 11:51:36 +00:00
Michael Raskin
1350415b52
Merge pull request #127798 from PhDyellow/r_bump_version 
R: 4.0.4 -> 4.1.0
 2021-08-13 13:41:07 +00:00
Phil Dyer
a21caa7f19 Remove unused fetchpatch from inputs 2021-08-13 10:19:31 +10:00
Phil Dyer
7f07184a8e Add Patch for aarch64 2021-08-13 10:16:59 +10:00
Sandro
7d75a19c60
Merge pull request #131463 from angustrau/logisim-evolution 2021-08-12 12:22:42 +02:00
Artturi
8ebdf7ec6b
Merge pull request #133322 from r-ryantm/auto-update/ginac 
ginac: 1.8.0 -> 1.8.1
 2021-08-11 23:01:14 +03:00
Phil Dyer
d37edcd3d5 R: 4.1.0 -> 4.1.1 2021-08-11 16:41:53 +10:00
R. RyanTM
e36200fc36 ginac: 1.8.0 -> 1.8.1 2021-08-10 07:09:09 +00:00
Artturi
5a587da43c
Merge pull request #133187 from Stunkymonkey/plm-fix 
plm: fix old link & deprecate phases
 2021-08-10 04:39:14 +03:00
Artturi
ae50676a71
Merge pull request #133235 from r-ryantm/auto-update/jmol 
jmol: 14.31.46 -> 14.31.49
 2021-08-10 03:36:07 +03:00
R. RyanTM
72a522e795 jmol: 14.31.46 -> 14.31.49 2021-08-09 07:27:37 +00:00
R. RyanTM
323134240a gama: 2.12 -> 2.14 2021-08-09 00:26:53 +00:00
Felix Buehler
d62ab96698 plm: fix old link & deprecate phases 2021-08-08 23:53:53 +02:00
Dmitry Kalinkin
e51edc1e64
Merge pull request #130903 from veprbl/pr/cwltool 
cwltool: init at 3.1.20210628163208
 2021-08-08 11:15:33 -04:00
Sandro
93ead26f57
Merge pull request #130359 from sheepforce/avogadro2 2021-08-08 13:07:33 +02:00
Sandro
fd26f351b5
Merge pull request #131493 from collares/polymake-4.4 
polymake: 3.2.rc4 -> 4.4
 2021-08-08 12:30:59 +02:00
Jörg Thalheim
5ec2eafb18
Merge pull request #125133 from sophrosyne97/fix_vhd2vl 
vhd2vl: fix build error
 2021-08-08 11:12:45 +01:00
Sandro
bfd533061e
Merge pull request #132881 from r-ryantm/auto-update/lepton-eda 2021-08-07 12:11:38 +02:00
Artturi
e69c8ea78e
Merge pull request #111691 from jbedo/bowtie2 
bowtie2: resolve missing runtime dependencies
 2021-08-07 04:03:47 +03:00
R. RyanTM
d06fec649b lepton-eda: 1.9.13-20201211 -> 1.9.16-20210731 2021-08-06 09:59:50 +00:00
Sandro
cfdee1710c
Merge pull request #109552 from tesq0/merge-request-lepton-eda 2021-08-05 15:35:14 +02:00
Mikolaj Galkowski
629e1d384d lepton-eda: init at 1.9.13-20201211 2021-08-05 14:18:10 +02:00
Markus Kowalewski
d26039d43b
openmolcas: 21.02 -> 21.06 2021-08-05 13:18:28 +02:00
Sandro
04b5e62d8d
Merge pull request #132468 from Stunkymonkey/applications-phases1 2021-08-05 09:37:57 +02:00
Markus Kowalewski
7d3b20253f
ergoscf: init at 3.8 2021-08-04 00:29:52 +02:00
Stig
c464dc811b
Merge pull request #132237 from Artturin/perlmagikupdate 
perlPackages.ImageMagick: 7.0.10 -> 7.0.11
 2021-08-03 00:16:14 +02:00
Felix Buehler
be219752d2 picard-tools: deprecate phases 2021-08-03 00:04:29 +02:00
Felix Buehler
4b883542fe varscan: deprecate phases 2021-08-03 00:04:16 +02:00
Felix Buehler
e3dd43360e eagle7: deprecate phases 2021-08-03 00:03:58 +02:00
Felix Buehler
f67a0a37f0 saw-tools: remove phases 2021-08-03 00:03:41 +02:00
Felix Buehler
7b20eb9e37 scilab-bin: remove phases 2021-08-03 00:03:12 +02:00
Felix Buehler
44cb64dba6 quantomatic: deprecate phases 2021-08-03 00:02:58 +02:00
Artturin
f173c77476 perlPackages.ImageMagick: rename from perlPackages.PerlMagick 2021-08-02 20:05:00 +03:00
Ben Wolsieffer
e8b00e9eeb mavproxy: 1.8.39 -> 1.8.40 2021-07-31 18:40:30 -04:00
Ben Siraphob
2f94991628 treewide: fix redirected URLs 
Using the script in maintainers/scripts/update-redirected-urls.sh
 2021-08-01 00:01:50 +07:00
Ben Siraphob
72d0a639ce
Merge pull request #131755 from r-ryantm/auto-update/libpoly 
libpoly: 0.1.9 -> 0.1.10
 2021-07-31 15:49:23 +07:00
Sandro
1524f36b3e
Merge pull request #131627 from jbedo/mosdepth 
mosdepth: 0.3.1 -> 0.3.2
 2021-07-29 13:56:24 +00:00
Frederik Rietdijk
8dcfe523f7
Merge pull request #131719 from FRidh/python2-to-3 
Python: further migrate packages from 2 to 3
 2021-07-29 10:49:00 +02:00
R. RyanTM
1d4ae0cfb7 libpoly: 0.1.9 -> 0.1.10 2021-07-28 00:31:53 +00:00
Frederik Rietdijk
8f6b07c223 maxima: use strictDeps and python3 2021-07-27 20:37:06 +02:00
github-actions[bot]
db6a26db02
Merge master into staging-next 2021-07-27 18:01:01 +00:00
Phillip Seeber
9504a98c32 avogadro2: init at 1.94.0 
avogadro2: code-review suggestions


avogadro2: review comments
 2021-07-27 18:43:15 +02:00
Sandro Jäckel
cebfbdff37
mrbayes: 3.2.7 -> 3.2.7a 2021-07-27 14:30:23 +02:00
github-actions[bot]
2692c2e427
Merge master into staging-next 2021-07-27 12:01:20 +00:00
Sandro
28d58fb25f
Merge pull request #131531 from SuperSandro2000/mrbayes 
mrbayes: modernize
 2021-07-27 10:57:14 +00:00
Sandro Jäckel
108ad942fb
mrbayes: modernize 2021-07-27 11:53:51 +02:00
Phil Dyer
9a88197fe7 R: 4.0.4 -> 4.1.0 
Co-authored-by: Mauricio Collares <244239+collares@users.noreply.github.com>
 2021-07-27 12:32:00 +10:00
github-actions[bot]
737604e550
Merge master into staging-next 2021-07-27 00:01:35 +00:00
Justin Bedo
d885373469
mosdepth: 0.3.1 -> 0.3.2 2021-07-27 09:52:22 +10:00
Guillaume Girol
455712841c
Merge pull request #130663 from symphorien/bitwuzla 
bitwuzla: init at unstable-2021-07-01
 2021-07-26 19:45:46 +00:00
Frederik Rietdijk
62370fb59a Merge remote-tracking branch 'upstream/master' into staging-next 2021-07-26 09:19:44 +02:00
Ryan Mulligan
cec4b2a274
Merge pull request #131319 from r-ryantm/auto-update/jmol 
jmol: 14.31.44 -> 14.31.46
 2021-07-25 19:41:51 -07:00
Mauricio Collares
045d6f35d9 polymake: 3.2.rc4 -> 4.4 2021-07-25 20:12:21 -03:00
Angus Trau
351b7d24e2
logisim: create desktop entry (#131450) 2021-07-25 17:46:34 -04:00
Guillaume Girol
1894e8d945 bitwuzla: init at unstable-2021-07-01 2021-07-25 15:52:25 +02:00
Angus Trau
92cced04c6 logisim-evolution: init at 3.5.0 2021-07-25 19:52:24 +10:00
github-actions[bot]
6a5e4f2c3d
Merge master into staging-next 2021-07-25 06:01:27 +00:00
Ben Siraphob
0f34985134
Merge pull request #122828 from balodja/openmodelica 2021-07-25 09:24:25 +07:00
github-actions[bot]
a37fbac53b
Merge master into staging-next 2021-07-25 00:01:35 +00:00
Sandro
224159802c
Merge pull request #131152 from r-ryantm/auto-update/bedops 
bedops: 2.4.39 -> 2.4.40
 2021-07-24 22:53:05 +00:00
github-actions[bot]
859acbc1bc
Merge master into staging-next 2021-07-24 18:01:04 +00:00
Vladimir Korolev
5c8561f11a openmodelica: 1.9.3 -> 1.17.0 with lots of changes 
Co-authored-by: Jaakko Luttinen <jaakko.luttinen@iki.fi>

Most of changes are:
* separate packages for different openmodelica components,
* qt4 -> qt5,
* patches to instruct the OMEdit wrapper with stdenv executables
  location,
* adoption of #89731 and #109595,
* openblas -> blas, lapack according to #83888,
* parallel building,
* getting rid of spurious build phases,
* correct the license,
* cross-compilation,
* forcing compiler to clang++ according to OM build recommendations,
* drop of pangox_compat according to #75909 and #76412,
* better dependencies, and more.
 2021-07-24 20:29:26 +03:00
Daniël de Kok
8cb9eabf96
Merge pull request #131177 from r-ryantm/auto-update/finalfusion-utils 
finalfusion-utils: 0.12.0 -> 0.13.0
 2021-07-24 14:47:49 +02:00
R. RyanTM
4e5b3b49e4 jmol: 14.31.44 -> 14.31.46 2021-07-24 09:22:42 +00:00
Guillaume Girol
0708fe494b cadical: install library 2021-07-23 21:19:27 +02:00
github-actions[bot]
cb1426e30a
Merge staging-next into staging 2021-07-23 18:01:46 +00:00
arjix
ebabecfd2a
nengo-gui: init at 0.4.8 (#130015) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-07-23 14:06:09 +02:00
R. RyanTM
934002f7a4 finalfusion-utils: 0.12.0 -> 0.13.0 2021-07-23 06:08:46 +00:00
R. RyanTM
d943e6aa12 bedops: 2.4.39 -> 2.4.40 2021-07-23 01:02:40 +00:00
github-actions[bot]
2e00ed4420
Merge staging-next into staging 2021-07-22 06:01:44 +00:00
Ben Siraphob
a5049e8caa
Merge pull request #130971 from siraben/parallel-coq 
coq: enable parallel building
 2021-07-22 10:00:42 +07:00
Dmitry Kalinkin
3f24366cda
cwltool: init at 3.1.20210628163208 2021-07-21 22:11:17 -04:00
Sandro
d06f7e07a6
Merge pull request #130925 from SuperSandro2000/python-aliases 2021-07-22 03:21:11 +02:00
Ben Siraphob
7c1d4d8255 coq: enable parallel building 2021-07-22 02:04:47 +07:00
github-actions[bot]
7a1e77336a
Merge staging-next into staging 2021-07-21 18:01:41 +00:00
Sandro Jäckel
b4099137b1
pythonPackages: deprecate ConfigArgParse alias 2021-07-21 13:32:54 +02:00
Sandro
aee461ddb4
toil: update homepage 2021-07-21 13:28:37 +02:00
Dmitry Kalinkin
866fe59150
toil: init at 5.4.0 2021-07-20 22:18:08 -04:00
github-actions[bot]
23c6d36ba0
Merge staging-next into staging 2021-07-20 18:01:42 +00:00
Sandro
8472d44b82
Merge pull request #130812 from SuperSandro2000/SuperSandro2000-patch-4 
logisim: cleanup
 2021-07-20 19:48:37 +02:00
Sandro
fd1ab319b7
logisim: cleanup 2021-07-20 18:33:48 +02:00
Sandro
c401885fe1
Merge pull request #130192 from Stunkymonkey/logisim-phases 
logisim: deprecate phases
 2021-07-20 18:32:40 +02:00
github-actions[bot]
0e13cd9f49
Merge staging-next into staging 2021-07-20 12:02:50 +00:00
Sandro
4a340627aa
Merge pull request #130661 from veprbl/pr/snakemake_6_6_1 2021-07-20 11:05:53 +02:00
Ben Siraphob
e8599765f5
Merge pull request #130638 from siraben/par-treewide 
treewide: remove unnecessary enableParallelBuilding when using cmake, meson, qmake
 2021-07-20 12:10:21 +07:00
Ben Siraphob
4ce8c34049 treewide: remove unnecessary enableParallelBuilding when using qmake 2021-07-20 10:32:58 +07:00
github-actions[bot]
e86ff5c2b2
Merge staging-next into staging 2021-07-20 00:02:21 +00:00
Guillaume Girol
6554384a70 boolector: 3.2.1 -> 3.2.2 2021-07-19 16:11:01 -07:00
Dmitry Kalinkin
3a79b1fece
snakemake: 6.5.3 -> 6.6.1 2021-07-19 16:22:36 -04:00
Dmitry Kalinkin
a93f2af20b
snakemake: add missing optional dependenices 
These are needed to generate reports
 2021-07-19 16:19:27 -04:00
github-actions[bot]
c455b1a657
Merge staging-next into staging 2021-07-19 18:01:44 +00:00
Ben Siraphob
d53846e29e
Merge pull request #130583 from jvanbruegge/isabelle2021 
Isabelle: 2020 -> 2021
 2021-07-19 20:56:48 +07:00
Millian Poquet
c6f34aeaef simgrid: compile tests in parallel 2021-07-19 14:05:17 +02:00
Millian Poquet
c4ec6ffb78 simgrid: fix paths in smpicc/smpicxx 2021-07-19 14:04:57 +02:00
Millian Poquet
33f915f241 simgrid: propagate boost 
Since SimGrid include files directly include boost files,
most SimGrid users need boost as well.
 2021-07-19 14:03:50 +02:00
Millian Poquet
2d05c2d535 simgrid: 3.27 -> 3.28 2021-07-19 14:01:30 +02:00
Jan van Brügge
e32da890c9
isabelle: Add desktop entry 2021-07-19 12:04:30 +02:00
github-actions[bot]
dde34afc63
Merge staging-next into staging 2021-07-19 00:02:18 +00:00
Jan van Brügge
9111bd40b2
isabelle: 2020 -> 2021 2021-07-18 23:51:36 +02:00
Sandro
d5bd34ebf2
treewide: convert phases that contain ":" to dont* = true (#130500) 2021-07-18 23:42:48 +02:00
github-actions[bot]
09be4e7750
Merge staging-next into staging 2021-07-18 12:01:50 +00:00
Jörg Thalheim
d4b8356ce2 pcalc: 20141224 -> 20181202 2021-07-18 08:40:09 +02:00
github-actions[bot]
08a8809bfe
Merge staging-next into staging 2021-07-18 00:02:06 +00:00
Sandro
24debc24c6
Merge pull request #130194 from Stunkymonkey/fdr-phases 
fdr: deprecate phases
 2021-07-18 00:41:56 +02:00
Felix Buehler
82cb33a0ae treewide: remove meta.version 2021-07-18 00:07:38 +02:00
github-actions[bot]
11332e9137
Merge staging-next into staging 2021-07-17 18:01:28 +00:00
Robert Scott
681821fefe
Merge pull request #129834 from r-ryantm/auto-update/bcftools 
bcftools: 1.11 -> 1.13
 2021-07-17 18:26:47 +01:00
github-actions[bot]
732bd85cf5
Merge staging-next into staging 2021-07-17 12:01:55 +00:00
Guillaume Girol
cb7e11dcb3
Merge pull request #130404 from collares/pynac-0.7.29 
pynac: 0.7.27 -> 0.7.29
 2021-07-17 09:08:46 +00:00
(cdep)illabout
299082636c
cedille: set no hydra platforms 2021-07-17 11:17:09 +09:00
(cdep)illabout
ff0c051daf
cedille: mark broken 2021-07-17 11:10:26 +09:00
Mauricio Collares
183071d282 pynac: 0.7.27 -> 0.7.29 2021-07-16 19:30:11 -03:00
github-actions[bot]
ed4094a728
Merge staging-next into staging 2021-07-16 00:02:18 +00:00
Sandro
9b8e8b2047
Merge pull request #130193 from Stunkymonkey/verifast-phases 
verifast: deprecate phases
 2021-07-15 23:40:17 +02:00
Sandro
daa42d5347
Merge pull request #130210 from veprbl/pr/root_6_24_02 2021-07-15 22:52:29 +02:00
Sandro
025cab89d9
Merge pull request #130187 from Stunkymonkey/workcraft-phases 
workcraft: deeprecate phases
 2021-07-15 21:59:16 +02:00
github-actions[bot]
2165de1758
Merge staging-next into staging 2021-07-15 18:02:07 +00:00
FliegendeWurst
5a1b72a6b1 mathematica: 12.3.0 -> 12.3.1 2021-07-15 15:29:33 +02:00
github-actions[bot]
0db5cea36d
Merge staging-next into staging 2021-07-15 06:01:32 +00:00
Vincent Laporte
e57571bdb6 gappa: 1.3.5 → 1.4.0 2021-07-15 07:55:52 +02:00
Dmitry Kalinkin
1cbb9c64d1
root,root5: apply nixpkgs-fmt 2021-07-14 16:23:09 -04:00
Dmitry Kalinkin
62ab958fb0
root: 6.24.00 -> 6.24.02 2021-07-14 14:58:15 -04:00
github-actions[bot]
6630d8e9bb
Merge staging-next into staging 2021-07-14 18:01:45 +00:00
Felix Buehler
7ab67cfa4c fdr: deprecate phases 2021-07-14 16:42:23 +02:00
Felix Buehler
b6fb4cedaf verifast: deprecate phases 2021-07-14 16:41:30 +02:00
Felix Buehler
ac75afe239 logisim: deprecate phases 2021-07-14 16:40:28 +02:00
Felix Buehler
cdf9e86ad1 leo3-bin: deprecate phases 2021-07-14 16:38:38 +02:00
Felix Buehler
3680a85bcb workcraft: deeprecate phases 2021-07-14 16:33:41 +02:00
Sandro Jäckel
388a4ef423
treewide: convert all links git.archlinux.org to github.com/archlinux/svntogit-* 2021-07-14 03:35:21 +02:00
Dmitry Kalinkin
43ae777382
Merge pull request #130090 from evils/kicad 
kicad-unstable: update; now requires python
 2021-07-13 14:20:39 -04:00
Evils
0e6d186906 kicad-unstable: needs python 
needed since upstream merge request 796 got merged on 2021-06-01
 2021-07-13 12:47:26 +02:00
Evils
428d2a2f51 kicad-unstable: 2021-05-16 -> 2021-07-12 2021-07-13 12:46:17 +02:00
github-actions[bot]
5779c9a1dd
Merge staging-next into staging 2021-07-12 18:01:40 +00:00
markuskowa
cd55326158
Merge pull request #129662 from sheepforce/cp2k 
CP2K: init at 8.1.0
 2021-07-12 19:28:33 +02:00
Ryan Mulligan
3c82ddb28c
Merge pull request #130016 from r-ryantm/auto-update/engauge-digitizer 
engauge-digitizer: 12.1 -> 12.2.2
 2021-07-12 11:08:24 -05:00
R. RyanTM
d342554ec5 engauge-digitizer: 12.1 -> 12.2.2 2021-07-12 14:06:35 +00:00
Markus Kowalewski
77be900d67
octopus: cleanup derivation 2021-07-12 14:15:05 +02:00
Markus Kowalewski
0a1167fd0b
octopus: 10.3 -> 10.5 2021-07-12 13:31:28 +02:00
markuskowa
13b3e91794
Merge pull request #128856 from cburstedde/package-petsc-p4est 
petsc: refactor using mpi and p4est
 2021-07-12 11:46:44 +02:00
Sandro
9afe59f2e6
Merge pull request #129938 from eduardosm/diylc 2021-07-11 22:40:33 +02:00
Dmitry Kalinkin
45bed6d99f
snakemake: 6.5.0 -> 6.5.3 2021-07-11 10:40:09 -04:00
Eduardo Sánchez Muñoz
8f66191e32 diylc: 4.17.0 -> 4.18.0 2021-07-11 15:45:23 +02:00
R. RyanTM
7177212409 bcftools: 1.11 -> 1.13 2021-07-10 10:15:10 +00:00