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4969 commits

Author SHA1 Message Date
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
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