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Author SHA1 Message Date
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