1
0
Fork 1
mirror of https://github.com/NixOS/nixpkgs.git synced 2024-12-08 13:34:14 +00:00
Commit graph

2260 commits

Author SHA1 Message Date
Vladimír Čunát 1428d00aa4
Merge branch 'master' into staging-next
Hydra: ?compare=1477053
2018-09-04 13:06:45 +02:00
Daniël de Kok 93a5947158 mxnet: 1.1.0 -> 1.2.1 (#46026)
Update and fix the build:

- Perl is a build-time requirement.
- Fix hardcoded /bin/bash invocation.
2018-09-04 11:37:54 +02:00
Ryan Mulligan 7b54a50e97
Merge pull request #45730 from Helkafen/snakemake
snakemake: init at 5.2.2
2018-09-02 07:54:13 -07:00
Timo Kaufmann 46e653673e sage: 8.4.beta2 -> 8.4.beta3 2018-09-02 12:42:44 +02:00
Frederik Rietdijk b910b697f6 Merge master into staging 2018-09-02 12:10:33 +02:00
xeji a3434cf4e5
Merge pull request #45921 from markuskowa/homepages
Cleanup homepage links
2018-09-02 08:39:30 +02:00
Markus Kowalewski ee54f1f817
plm: remove dead homepage link, mark as broken 2018-09-02 01:46:25 +02:00
Markus Kowalewski 5cf25dded7
symmetrica: update homepage 2018-09-02 01:46:25 +02:00
Markus Kowalewski c184150a22
jags: update homepage + fix license 2018-09-02 01:46:18 +02:00
Markus Kowalewski e5974ddaec
jonprl: update homepage 2018-09-02 00:36:01 +02:00
Vladimír Čunát 2d6179d1e8
Merge branch 'master' into staging
A few trivial conflicts due to *Platforms mass replace.
2018-09-01 17:38:18 +02:00
Vladimír Čunát 342d3db703
Merge branch 'staging-next'
The failure diff seems good-enough on Hydra now.
2018-09-01 17:02:15 +02:00
Sebastian Meric de Bellefon 93ce77af40 python.pkgs.snakemake: init at 5.2.2 2018-09-01 09:18:19 -04:00
Gabriel Ebner da3326902a vampire: fix nondeterministic hash
Probably related to #8567
2018-09-01 15:03:31 +02:00
R. RyanTM 7fdaf76869 verilator: 3.924 -> 3.926 (#45797)
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
verilator
2018-09-01 12:14:00 +02:00
Robert Schütz 93550cbddf Merge branch 'master' into staging-next 2018-08-31 17:32:48 +02:00
John Ericson 2c2f1e37d4 reewide: Purge all uses stdenv.system and top-level system
It is deprecated and will be removed after 18.09.
2018-08-30 17:20:32 -04:00
Vladimír Čunát 8fc6472ace
gnome-documents, tlaplus: fix glib references 2018-08-30 19:47:41 +02:00
Vladimír Čunát b71b222b4c
Merge #44910: cmake: 3.11.2 -> 3.12.1 2018-08-30 16:04:52 +02:00
Vladimír Čunát 19c68fe28c
Merge branch 'master' into staging 2018-08-30 12:25:43 +02:00
Frederik Rietdijk 6038628ea5 Merge master into staging-next 2018-08-29 20:54:55 +02:00
R. RyanTM e301589013 gmsh: 3.0.6 -> 4.0.0 (#45592)
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/gmsh/versions.
2018-08-27 16:06:28 +02:00
Frederik Rietdijk 7945295410 Merge master into staging 2018-08-27 08:21:50 +02:00
Timo Kaufmann c614c15f93
Merge pull request #45257 from timokau/openblas-pc
openblas: add pkg-config aliases
2018-08-26 20:13:19 +02:00
Timo Kaufmann 0e4160a3a1 pythonPackages.sympy: 1.1.1 -> 1.2 2018-08-26 19:56:44 +02:00
Timo Kaufmann 1b42a1ba1e sage: 8.4.beta1 -> 8.4.beta2 2018-08-26 13:09:22 +02:00
Frederik Rietdijk c71942eb7e
Merge pull request #44752 from costrouc/costrouc/lammps-update
material science packages (init and update): lammps, python - ase, pymatgen-lammps, lammps-cython, dftfit
2018-08-25 19:03:36 +02:00
wucke13 b7e695461e apmplanner2: fixed wrong path in .desktop file
The `apmplanner2.desktop` file defaults to `/usr/share/...` regardless which out
prefix is given to make. So I chose to fix it manually.
2018-08-25 00:39:58 +02:00
Vladimír Čunát 7db611f2af
Merge branch 'staging'
Includes libX11 security update.
2018-08-24 09:19:43 +02:00
Bignaux Ronan 70d5f16898 astrolabe-generator: init at 3.3 (#45429) 2018-08-23 22:35:05 +02:00
Joachim F 0d80f9659c
Merge pull request #45305 from wucke13/apmplanner2
apmplanner2: init at 2.0.26
2018-08-23 14:07:45 +00:00
Matthew Bauer f7bc33abf0 Revert "treewide: fixup breakage due to absolute compiler path"
This reverts commit d0888d1503.
2018-08-22 01:14:53 +02:00
xeji 6216f5da04
Merge pull request #45263 from r-ryantm/auto-update/bowtie2
bowtie2: 2.3.4.1 -> 2.3.4.2
2018-08-21 19:51:36 +02:00
Uli Baum c47aafde87 bowtie2: broken on aarch64
never built as far back as hydra logs go.
2018-08-21 19:11:37 +02:00
Timo Kaufmann 26d5d030fe openblas: add pkg-config aliases 2018-08-21 16:39:57 +02:00
Vladimír Čunát 765d695b89
Merge branch 'staging-next'
Security fixes for a few packages are included.
2018-08-21 15:36:02 +02:00
Vladimír Čunát d0888d1503
treewide: fixup breakage due to absolute compiler path
Some packages just can't handle them #44767.  It was tempting to try
to abstract this in some way, but I didn't do that ATM.
2018-08-21 12:34:33 +02:00
xeji 54ff14b6f3
Merge pull request #45399 from markuskowa/license-8
Add licenses
2018-08-21 12:05:10 +02:00
Jörg Thalheim 736db8db10
Merge pull request #44951 from rittelle/eagle
eagle: 7.7 -> 9.1.2
2018-08-21 10:51:13 +01:00
wucke13 b4531605c3 apmplanner2: init at 2.0.26
I would like to see more Ground Control Stations in the nixpkgs.
2018-08-21 02:02:51 +02:00
Markus Kowalewski a1129ef9cb
glsurf: add license 2018-08-20 21:15:16 +02:00
Markus Kowalewski 3c1819fcce
ginac: add license 2018-08-20 21:02:45 +02:00
Joachim F 6755ab8b34
Merge pull request #44250 from jbedo/strelka
strelka: init 2.9.5
2018-08-20 06:24:15 +00:00
Justin Bedo 27960b6acf
strelka: init 2.9.5 2018-08-20 08:58:22 +10:00
rittelle 9e4d2d723a
eagle: 7.7 -> 9.1.2
Updated eagle to version to 9.1.2 while keeping version 7.7 as eagle7.
2018-08-19 15:36:08 +02:00
Jörg Thalheim 4609e3abf2
Merge pull request #45303 from markuskowa/molden-up
molden: 5.7 -> 5.8.2
2018-08-19 13:32:28 +01:00
Markus Kowalewski 04d283ecda
molden: patch to deactivate extension installer script 2018-08-19 11:29:31 +02:00
Orivej Desh 65663f883c msgpack: rename from libmsgpack
The project does not use the name "libmsgpack". It variously uses "msgpack" and
"msgpack-c", and "msgpackc" for the name of the library.
2018-08-18 23:19:54 +00:00
Markus Kowalewski 79bf57ca23
molden: 5.7 -> 5.8.2 2018-08-18 14:24:39 +02:00
Vladimír Čunát 209730208a
Merge branch 'staging-next' 2018-08-17 20:51:31 +02:00
Jörg Thalheim 5cb9703a8f
Merge pull request #45173 from r-ryantm/auto-update/octopus
octopus: 8.1 -> 8.2
2018-08-17 16:10:43 +01:00
R. RyanTM 73f1448a1f bowtie2: 2.3.4.1 -> 2.3.4.2
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/bowtie2/versions.
2018-08-17 06:50:10 -07:00
Justin Bedo 9bd7a4f520
hisat2: init 2.1.0 2018-08-17 23:03:42 +10:00
Vladimír Čunát cbabebcc2e
Merge branch 'master' into staging-next
Hydra: ?compare=1473892
2018-08-17 13:45:21 +02:00
Jörg Thalheim 3dd311bde9
Merge pull request #45220 from r-ryantm/auto-update/gtkwave
gtkwave: 3.3.92 -> 3.3.93
2018-08-17 11:58:27 +01:00
Jörg Thalheim 0359c5eb65
Merge pull request #45217 from r-ryantm/auto-update/igv
igv: 2.4.13 -> 2.4.14
2018-08-17 11:56:26 +01:00
Peter Simons a721bc4bf3
Merge pull request #45134 from r-ryantm/auto-update/stellarium
stellarium: 0.18.1 -> 0.18.2
2018-08-17 11:55:31 +02:00
R. RyanTM 190bd05de2 gtkwave: 3.3.92 -> 3.3.93
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/gtkwave/versions.
2018-08-17 02:05:58 -07:00
R. RyanTM 33ebfbfcf8 igv: 2.4.13 -> 2.4.14
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/igv/versions.
2018-08-17 01:23:03 -07:00
R. RyanTM ae846c0c03 octopus: 8.1 -> 8.2
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/octopus/versions.
2018-08-16 20:04:53 -07:00
Jörg Thalheim 4e9b4a9ca7
Merge pull request #45158 from r-ryantm/auto-update/picard-tools
picard-tools: 2.18.10 -> 2.18.11
2018-08-17 00:36:56 +02:00
R. RyanTM ff7d82d405 picard-tools: 2.18.10 -> 2.18.11
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/picard-tools/versions.
2018-08-16 14:33:38 -07:00
R. RyanTM c274490146 stellarium: 0.18.1 -> 0.18.2
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/stellarium/versions.
2018-08-16 12:03:22 -07:00
zimbatm b7e50d52f0
caffe: add darwin support (#44616) 2018-08-16 12:46:51 +01:00
Gabriel Ebner f207998d79 qalculate-gtk: 2.6.1 -> 2.6.2 2018-08-16 11:56:27 +02:00
Austin Seipp d5e496a2bb boolector: 2.4.1 -> 3.0.0, relicensed to MIT
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-08-15 20:44:05 -05:00
Austin Seipp 9b64100add btor2tools: init at pre55_8c150b39
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-08-15 20:44:05 -05:00
Austin Seipp 68cc845295 lingeling: init at pre1_03b4860d
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-08-15 20:44:05 -05:00
Austin Seipp 6e910b2b3d aiger: clean up configurePhase, install multi-output objects/headers
The library and header files are useful for other tools, such as
the upcoming 'lingeling'.

Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-08-15 20:44:05 -05:00
Michael Mercier b8566965df Update simgrid 3.19.1 -> 3.20 + parallel tests + enable darwin (#42721)
* simgrid: 3.19.1 -> 3.20

Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/simgrid/versions.

These checks were done:

- built on NixOS
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/smpicc passed the binary check.
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/smpicxx passed the binary check.
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/smpirun passed the binary check.
- Warning: no invocation of /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/tesh had a zero exit code or showed the expected version
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/simgrid-colorizer passed the binary check.
- Warning: no invocation of /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/simgrid_update_xml had a zero exit code or showed the expected version
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/simgrid_convert_TI_traces passed the binary check.
- Warning: no invocation of /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/smpimain had a zero exit code or showed the expected version
- /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20/bin/graphicator passed the binary check.
- 6 of 9 passed binary check by having a zero exit code.
- 4 of 9 passed binary check by having the new version present in output.
- found 3.20 with grep in /nix/store/cvyi6hvgc9rvgrnp7c028xrlzbl7jzb9-simgrid-3.20
- directory tree listing: https://gist.github.com/edefc2f1a2e81412484edc2e45986e03
- du listing: https://gist.github.com/a44f7d57537e93152a8e6c569f8ed1ae

* simgrid: 3.19.1 -> 3.20 + add darwin

- Fix dependencies to enable build on darwin
- Add ctest flag to enable parallel testing

* Use simpler parallel testing logic

because it is already done in nixpkgs/pkgs/stdenv/generic/setup.sh
2018-08-15 19:54:41 -05:00
Bernard Fortz 22c15abe20 cplex: init at 12.8 (#44029)
* cplex: init at 12.8

* Removed bundled java from bin directory

* Refactored

* More refactoring

* Added config option for releasePath

* Minor cleanup
2018-08-15 19:46:09 -05:00
Timo Kaufmann 52b9217b50 sage: 8.4.beta0 -> 8.4.beta1 2018-08-16 00:17:14 +02:00
Timo Kaufmann df97127114 Merge remote-tracking branch 'upstream/master' into sage-8.4 2018-08-15 13:51:07 +02:00
adisbladis 2937e7367f
Merge pull request #45009 from jbaum98/ratpoints-darwin
ratpoints: 2.1.3 -> 2.1.3.p4; add darwin support
2018-08-15 15:28:39 +08:00
Jörg Thalheim 0ee6d7e3ab
Merge pull request #45011 from jbaum98/symmetrica-darwin
symmetrica: Add darwin support
2018-08-15 07:54:56 +02:00
Jake Waksbaum 47aa6abe96 ratpoints: 2.1.3 -> 2.1.3.p4; add darwin support 2018-08-14 11:27:59 -04:00
Jake Waksbaum 8ae47fa81a symmetrica: Add darwin support 2018-08-14 11:23:21 -04:00
Jake Waksbaum be81e1e29c gfan: Add darwin support 2018-08-14 00:16:46 -04:00
Vladimír Čunát 5b0398dc36
Merge branch 'master' into staging-next
Conflicts: gobby and libinfinity - I took the hand-edited versions
instead of those resuting from the mass-replacement.

Hydra: ?compare=1473190
2018-08-13 20:43:59 +02:00
Sebastien Maret b4599987e3 gildas: 20180701_a -> 20180801_a 2018-08-13 15:17:15 +02:00
Gabriel Ebner 7478da5e84
Merge pull request #42885 from smaret/gildas
gildas: 20180601_a -> 20180701_a
2018-08-13 10:55:18 +02:00
Andrew Childs 07bd1d8737 kicad: use default cmake 2018-08-13 11:05:54 +09:00
Samuel Dionne-Riel c9035c6e12
Merge pull request #44681 from r-ryantm/auto-update/vcftools
vcftools: 0.1.15 -> 0.1.16
2018-08-12 19:26:38 -04:00
Vladimír Čunát 00df25ee57
Merge branch 'master' into staging-next
Hydra: ?compare=1472947
2018-08-12 10:33:41 +02:00
Chris Ostrouchov 9745611ed6
lammps: 16Feb16 -> patch_2Aug2018
Major changes and update to lammps build

 - using fetchFromGitHub to get source instead of lammps mirror
 - configurable lammps packages included and includes for compilation
 - cleaner build script
 - preserving the executable, shared library names, and include headers
2018-08-10 16:35:54 -04:00
Sebastien Maret e3b42396c6 gildas: update source url 2018-08-10 10:13:31 +02:00
Sebastien Maret 170426510e gildas: patch perl interpreter path 2018-08-10 10:04:27 +02:00
Silvan Mosberger 68d3350433
Merge pull request #44837 from Infinisil/fix/sad
sad: fix build
2018-08-09 22:36:14 +02:00
Jake Waksbaum 3babbaaa47 palp: Add darwin support (#44829) 2018-08-09 22:28:27 +02:00
Silvan Mosberger e710f80018
sad: fix build 2018-08-09 22:13:44 +02:00
Frederik Rietdijk d9fa74ba78 Merge master into staging 2018-08-09 18:28:15 +02:00
Austin Seipp 752284680b symbiyosys: 2018.05.03 -> 2018.07.26
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-08-08 19:49:42 -05:00
R. RyanTM f5f55e4727 vcftools: 0.1.15 -> 0.1.16
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/vcftools/versions.
2018-08-08 00:48:04 -07:00
Timo Kaufmann 291018b34e arb: 2.13.0 -> 2.14.0 (#44600) 2018-08-07 16:38:34 +02:00
symphorien 0ca40a51c7 gwyddion, ripser: fix derivation name (#44577) 2018-08-07 01:21:53 +02:00
Timo Kaufmann a8b048c686 sage: 8.3 -> 8.4.beta0 2018-08-05 21:09:56 +02:00
Michael Raskin 75cb04672f
Merge pull request #44508 from timokau/cddlib-0.94j
cddlib: 0.94i -> 0.94j
2018-08-05 19:03:47 +00:00
Timo Kaufmann 0a44ff7676 cddlib: 0.94i -> 0.94j
cddlib was autotoolized, incorporated equivalents to the sage patches
and moved to GitHub.
2018-08-05 19:02:45 +02:00
Michael Raskin 6b0234942b
Merge pull request #44501 from timokau/sage-native-pari
sage: don't override pari
2018-08-05 15:14:00 +00:00
Timo Kaufmann 30c822189d sage: don't override pari
Sage assumes that pari does not use threads. However instead of
disabling them at compile time, we can diable them at runtime instead.
As a result, sage doesn't need its own version of pari anymore. That
means less rebuilds, less complexity and easier debugging.
2018-08-05 13:48:14 +02:00
Michael Raskin 58384b1dd0 scilab-bin: 5.5.2 -> 6.0.1 2018-08-05 11:27:35 +03:00
Michael Raskin b79dbfe482
Merge pull request #43281 from timokau/sage-8.3
sage: 8.2 -> 8.3
2018-08-04 13:02:06 +00:00
Timo Kaufmann 834a24e0ff sage: don't pin ntl
Now possible because of the lcalc c++11 patch.
2018-08-04 14:22:58 +02:00
Timo Kaufmann e550e5d0c7 lcalc: apply c++11 patch 2018-08-04 14:22:29 +02:00
Timo Kaufmann fa34f6d41c sage: don't pin pari 2018-08-04 14:22:28 +02:00
Timo Kaufmann e82c26af9b sage: don't pin singular 2018-08-04 14:22:28 +02:00
Timo Kaufmann 289173366b singular: backport ntl error handling patch 2018-08-04 14:22:27 +02:00
Timo Kaufmann 840b64fdb8 sage: 8.2 -> 8.3 2018-08-04 14:22:21 +02:00
Tuomas Tynkkynen 008fd5fcf5 Merge remote-tracking branch 'upstream/master' into staging 2018-08-04 15:17:42 +03:00
John Ericson db965063b3 treewide: Make configureFlags lists 2018-08-03 17:06:03 -04:00
John Ericson 85a9913edd treewide: Make more complicated configureFlags lists 2018-08-03 17:06:03 -04:00
John Ericson 632d24f11f scilab: Make configureFlags a list 2018-08-03 17:05:58 -04:00
Robert Schütz ae3bbf2958 almonds: use python3 2018-08-03 18:04:46 +02:00
Johannes Frankenau 79cd841713 bcal: 1.8 -> 1.9 2018-08-03 09:08:26 +02:00
Uli Baum 052e4baf0a somatic-sniper: disable parallel building
to fix non-deterministic failure
2018-08-03 08:27:41 +02:00
xeji 9e52696649
Merge pull request #44325 from markuskowa/molcas
openmolcas: init at 20180529
2018-08-02 10:32:04 +02:00
Markus Kowalewski 484473b184
openmolcas: init at 20180529 2018-08-02 10:18:17 +02:00
Justin Bedő 51fc0ef8d2 somatic-sniper: init 1.0.5.0 (#43403) 2018-08-01 22:11:13 +02:00
Jörg Thalheim 9cff865230
Merge pull request #44122 from bgamari/kicad-0.5
kicad: 4.0.7 -> 5.0.0
2018-07-31 15:12:27 +01:00
Jörg Thalheim 71b579f9d4 kicad: remove scripting flag for simplicity 2018-07-31 14:44:49 +01:00
Jörg Thalheim 611f0ed188 kicad: properly wrap wxPython 2018-07-31 14:37:59 +01:00
R. RyanTM 38c8be3726 gp2c: 0.0.10pl1 -> 0.0.11 (#43941)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/gp2c/versions.
2018-07-31 00:30:21 +02:00
R. RyanTM d7c3926352 bcftools: 1.8 -> 1.9 (#43950)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/bcftools/versions.
2018-07-30 22:36:27 +02:00
Timo Kaufmann ae821e09e7 glpk: adopt error recovery patch (#44201)
This makes it possible to use "vanilla" glpk for sage and shouldn't
affect anything else.
2018-07-29 20:53:56 +02:00
Frederik Rietdijk e46e7f44c2
Merge staging-next into master 2018-07-29 09:13:54 +02:00
Lluís Batlle i Rossell f54b387b63 Merge remote-tracking branch 'central/master' into viric_clean 2018-07-28 19:25:14 +02:00
Frederik Rietdijk 8db716d9f3 Merge master into staging-next 2018-07-28 12:31:35 +02:00
Frederik Rietdijk 1fe2a0f81e
Merge pull request #44129 from timokau/pari-2.11.0
pari: 2.9.5 -> 2.11.0
2018-07-27 11:57:57 +02:00
Timo Kaufmann 330c501be0 pari: 2.9.5 -> 2.11.0
The pari update makes it necessary to disable a giac test that only
fails because it directly tests the pari interface.
2018-07-26 18:42:17 +02:00
Ben Gamari a4c932fa51 kicad: 4.0.7 -> 5.0.0 2018-07-26 12:27:27 -04:00
Frederik Rietdijk f59e6f4037 Merge master into staging 2018-07-26 16:18:53 +02:00
Robert Schütz daabcc3b9a spyder: use python3
Dependency pylint is no longer supported on Python 2.
2018-07-26 12:43:18 +02:00
Matthew Bauer 6d880d2d5b
Merge pull request #42149 from timjrd/openspace-rebase
openspace: init at 0.11.1
2018-07-23 11:38:06 -04:00
Timo Kaufmann 024c23503c singular: 4.1.1p1 -> 4.1.1p2 2018-07-23 12:17:25 +02:00
Lluís Batlle i Rossell 66d7126255 Take me (viric) out of most maintenance
Since years I'm not maintaining anything of the list below other
than some updates when I needed them for some reason. Other people
is doing that maintenance on my behalf so I better take me out but
for very few packages. Finally!
2018-07-22 21:50:19 +02:00
Frederik Rietdijk f3088832df
Merge pull request #43899 from r-ryantm/auto-update/tla-toolbox
tlaplusToolbox: 1.5.6 -> 1.5.7
2018-07-22 08:44:58 +02:00
Frederik Rietdijk 5dcb1febac
Merge pull request #43913 from r-ryantm/auto-update/picard-tools
picard-tools: 2.18.9 -> 2.18.10
2018-07-22 08:42:32 +02:00
Frederik Rietdijk 935a54f300
Merge pull request #43940 from r-ryantm/auto-update/gtkwave
gtkwave: 3.3.91 -> 3.3.92
2018-07-22 08:23:25 +02:00
R. RyanTM a7a3526f71 gtkwave: 3.3.91 -> 3.3.92
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/gtkwave/versions.
2018-07-21 17:57:51 -07:00
Ricardo M. Correia 0cf09556eb
why3: 0.88.3 -> 1.0.0 2018-07-21 22:53:44 +00:00
R. RyanTM 668047ca55 picard-tools: 2.18.9 -> 2.18.10
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/picard-tools/versions.
2018-07-21 12:28:41 -07:00
R. RyanTM 9882d5635c tlaplusToolbox: 1.5.6 -> 1.5.7
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/tla-toolbox/versions.
2018-07-21 08:39:53 -07:00
Jörg Thalheim 218298b30f
Merge branch 'master' into unused5 2018-07-21 15:41:22 +01:00
Sebastien Maret 9092083e9e gildas: fix architecture detection for aarch64 2018-07-21 13:21:06 +02:00
volth 52f53c69ce pkgs/*: remove unreferenced function arguments 2018-07-21 02:48:04 +00:00
volth 6d2857a311 [bot] treewide: remove unused 'inherit' in let blocks 2018-07-20 19:38:19 +00:00
Frederik Rietdijk 1a6af9f88e
Merge pull request #43857 from volth/unused
[bot] treewide: remove unreferenced code
2018-07-20 21:06:32 +02:00
volth 87f5930c3f [bot]: remove unreferenced code 2018-07-20 18:48:37 +00:00
Matthew Bauer fddd90e9ea
Merge pull request #43538 from timokau/fetchpatch-fix
fetchpatch: quote excludes
2018-07-19 00:35:09 -04:00
Matthew Bauer 76999cc40e treewide: remove aliases in nixpkgs
This makes the command ‘nix-env -qa -f. --arg config '{skipAliases =
true;}'’ work in Nixpkgs.

Misc...

- qtikz: use libsForQt5.callPackage

  This ensures we get the right poppler.

- rewrites:

  docbook5_xsl -> docbook_xsl_ns
  docbook_xml_xslt -> docbook_xsl

diffpdf: fixup
2018-07-18 23:25:20 -04:00
Michael Raskin 877899fdb9
Merge pull request #43679 from timokau/ntl-11.2.1
ntl: 9.11.0 -> 11.2.1
2018-07-18 15:08:43 +00:00
Jan Tojnar a4443ef859
nasc: 0.4.6 → 0.4.7 2018-07-18 15:38:52 +02:00
Timo Kaufmann cad446513e ntl: 9.11.0 -> 11.2.1
ntl hasn't been updated in a while. So I'm doing that and adding myself
as the maintainer. I'm also adding some options and pinning the sage
dependency, since it is unfortunately not compatible with the latest ntl
yet.

I've also enabled the tests, since they don't take terribly long and are
worth the time in my opinion.
2018-07-18 14:58:38 +02:00
Timo Kaufmann 3058513941 fetchpatch: add option to revert a patch 2018-07-16 22:46:54 +02:00
Jan Malakhovski e80ca2182c clp: cleanup expression 2018-07-16 16:33:14 +00:00
Gabriel Ebner 862e4e4fdb cvc4: fix homepage url 2018-07-16 15:58:22 +01:00
fragamus 794a60a2fb bliss: fix header location (#43170) 2018-07-16 04:12:07 +00:00
Shea Levy ed23255c5a
Merge branch 'init-gurobi' of git://github.com/jfrankenau/nixpkgs 2018-07-15 18:25:07 -04:00
Timo Kaufmann c77d1e5b31 eclib: 20171219 -> 20180710
Also includes the necessary sage compatibility patch, borrowed from
ArchLinux.
2018-07-15 14:59:28 +02:00
Johannes Frankenau d6874a7e1e gurobi: init at 8.0.1 2018-07-14 23:52:48 +02:00
Mario Rodas 1c88d0c6bd z3: fix darwin build (#43526) 2018-07-14 21:49:47 +02:00
markuskowa 7f1bcb1ebf octopus: 7.2 -> 8.1 (libxc 3.0.1 -> 4.2.3) (#43484) 2018-07-14 00:37:30 +02:00
Timo Kaufmann 85f7fa93bc pythonPackages.cypari2: 1.1.4 -> 1.2.1 (#43496) 2018-07-14 00:17:55 +02:00
Frederik Rietdijk d0446a5c76
Merge pull request #43436 from timokau/sage-new-flask
sage: replace flask-babel version pin by patch
2018-07-13 18:52:26 +02:00
Frederik Rietdijk 59163c9c1c
Merge pull request #43471 from r-ryantm/auto-update/igv
igv: 2.4.11 -> 2.4.13
2018-07-13 18:47:57 +02:00
Michael Raskin 9932071581
Merge pull request #43472 from r-ryantm/auto-update/golly
golly: 3.1 -> 3.2
2018-07-13 15:51:31 +00:00
Will Dietz efdf4711d8
Merge pull request #43445 from dtzWill/fix/yices-symlink
yices: fix symlink created to match version
2018-07-13 10:11:49 -05:00
R. RyanTM d25ec8df03 golly: 3.1 -> 3.2
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/golly/versions.
2018-07-13 03:02:59 -07:00
R. RyanTM ab535c2757 igv: 2.4.11 -> 2.4.13
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/igv/versions.
2018-07-13 02:49:22 -07:00
Will Dietz f731c99e7d abc-verifier: 20160818 -> 2018-07-08
Now hosted on github.
2018-07-12 21:44:56 -05:00
Will Dietz 946a65ca5c yices: use lib.splitString, not everyone has builtins.splitVersion 2018-07-12 19:11:06 -05:00
Will Dietz 237c8f4148 yices: simplify ln command 2018-07-12 18:52:10 -05:00
Will Dietz 6ff8685057 yices: fix symlink to match version of package
To help avoid this happening again, derive the string to use
from the version directly instead of embedding it in installPhase.
2018-07-12 18:46:28 -05:00
Will Dietz d3a595f190 libpoly: 0.1.5 -> 0.1.7 (noop), cleanup a bit to modern style 2018-07-12 17:06:57 -05:00
Timo Kaufmann 35896e3506 sage: replace flask-babel version pin by patch 2018-07-12 22:55:16 +02:00
Austin Seipp 54e9f7dcbe z3: move to multiple output packages
The Z3 source code is effectively compiled into two completely separate
objects: the z3 binary file, and the libz3.so library -- but the binary is not
linked against the shared library, it simply incorporates all of the object
files. The Z3 code base results in an ~25MB object on x86_64-linux. As a
result, splitting bin/ and lib/ results in a 50% reduction in closure size.

(The include/ directory is also surprisingly large at .5MB...)

This also splits the python API into a completely separate .python attribute,
as well.

Signed-off-by: Austin Seipp <aseipp@pobox.com>
2018-07-12 15:48:48 -05:00
Timo Kaufmann d37c23c699 jmol: 14.29.12 -> 14.29.17 (#43429) 2018-07-12 22:31:52 +02:00
Frederik Rietdijk 04cae0e5fb
Merge pull request #43333 from r-ryantm/auto-update/libpoly
libpoly: 0.1.4 -> 0.1.5
2018-07-11 19:01:02 +02:00
R. RyanTM 40e648b7ab yices: 2.5.4 -> 2.6.0
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/yices/versions.
2018-07-11 08:45:45 -05:00
R. RyanTM a89b538f0b libpoly: 0.1.4 -> 0.1.5
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/libpoly/versions.
2018-07-11 02:29:13 -07:00
R. RyanTM ade3e571a1 qalculate-gtk: 2.6.0 -> 2.6.1
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools. This update was made based on information from https://repology.org/metapackage/qalculate-gtk/versions.
2018-07-11 00:45:08 -07:00
R. RyanTM 99cb9de551 fricas: 1.3.3 -> 1.3.4 (#43023)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/fricas/versions.

These checks were done:

- built on NixOS
- /nix/store/zbmbsjm8mg6i7s6fm3zas1bndg24w91x-fricas-1.3.4/bin/fricas passed the binary check.
- /nix/store/zbmbsjm8mg6i7s6fm3zas1bndg24w91x-fricas-1.3.4/bin/efricas passed the binary check.
- 2 of 2 passed binary check by having a zero exit code.
- 0 of 2 passed binary check by having the new version present in output.
- found 1.3.4 with grep in /nix/store/zbmbsjm8mg6i7s6fm3zas1bndg24w91x-fricas-1.3.4
- directory tree listing: https://gist.github.com/75d751d9733f6b0a7b582ab838a71963
- du listing: https://gist.github.com/4c6fe5f342430a2b36568da3229d3dc4
2018-07-09 16:02:58 +02:00
R. RyanTM 6ec4be7ec5 igv: 2.4.10 -> 2.4.11 (#43003)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/igv/versions.

These checks were done:

- built on NixOS
- Warning: no invocation of /nix/store/yc18a4s9rs8m6wjbsmi1lax5v0kkyl2i-igv-2.4.11/bin/igv had a zero exit code or showed the expected version
- 0 of 1 passed binary check by having a zero exit code.
- 0 of 1 passed binary check by having the new version present in output.
- found 2.4.11 with grep in /nix/store/yc18a4s9rs8m6wjbsmi1lax5v0kkyl2i-igv-2.4.11
- directory tree listing: https://gist.github.com/ca4cf484aab1c1590806c47c4fdde1d7
- du listing: https://gist.github.com/f7ff80a2429cf0a942195db4944659b1
2018-07-09 16:02:34 +02:00
Silvan Mosberger 8e2c3b93ba
Merge pull request #43096 from jbedo/mosdepth
mosdepth: init 0.2.3
2018-07-09 04:55:24 +02:00
Dan Peebles 1dd7bc7dfc monosat: update build to use handy new environment variable 2018-07-08 22:04:05 -04:00
Dan Peebles 0372c87481 monosat: cbaf79cf -> 2deeadef
Upstream fixed a few things I needed to work around
2018-07-08 21:57:00 -04:00
Justin Bedo 59141de608
mosdepth: init 0.2.3 2018-07-09 08:51:49 +10:00
Dan Peebles 631dd7a4e9 monosat: init at 1nx3wh34
Also includes the python and java bindings (although java is only
currently enabled on Linux)
2018-07-08 12:43:29 -04:00
R. RyanTM cb85999b6b picard-tools: 2.18.7 -> 2.18.9 (#42967)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/picard-tools/versions.

These checks were done:

- built on NixOS
- Warning: no invocation of /nix/store/ah3v1x61gmj9lan8a3qvy3824lqvjdgi-picard-tools-2.18.9/bin/picard had a zero exit code or showed the expected version
- 0 of 1 passed binary check by having a zero exit code.
- 0 of 1 passed binary check by having the new version present in output.
- found 2.18.9 with grep in /nix/store/ah3v1x61gmj9lan8a3qvy3824lqvjdgi-picard-tools-2.18.9
- directory tree listing: https://gist.github.com/0972acdc51fe8a1cde470e4ab5e87993
- du listing: https://gist.github.com/6a66b6723ce4887cd108678369b87360
2018-07-06 20:24:57 +02:00
Sebastien Maret 8ae9e7ef10 gildas: apply upstream fix and restore parallel building 2018-07-06 14:02:37 +02:00
Sebastien Maret 72dc6fdf47 gildas: disable parallel building 2018-07-06 10:35:53 +02:00
John Wiegley 56afc551f2
verilator: Allow building on Darwin as well as Linux 2018-07-05 15:17:17 -07:00
Matthew Bauer bb0febf575
Merge pull request #43079 from matthewbauer/rework-extra-pkgs
Rework stage.nix's extraPkgs
2018-07-05 18:05:57 -04:00
Matthew Bauer c491a99362 treewide: remove callPackage_i686
This has been replaced with pkgsi686Linux.callPackage
2018-07-05 14:04:52 -04:00
Will Dietz 67986382e4
Merge pull request #43071 from dtzWill/fix/vampire-portability
vampire: portability fixes
2018-07-05 11:13:42 -05:00
Gabriel Ebner bec83a2b9e cvc4: 1.5 -> 1.6 2018-07-05 17:57:06 +02:00
Will Dietz 7353d8396d vampire: enable parallel building 2018-07-05 10:13:40 -05:00
Will Dietz 600abbedc9 vampire: portability fixes
These have been submitted upstream,
but seconds before writing this message
so naturally no upstream response "yet" :).

Regardless of response, fetch patches
from the corresponding PR's for context
and of course hopefully they'll
be included in next version.
2018-07-05 10:13:32 -05:00
Will Dietz 8e6db30bb7 vampire: use CC/CXX from env, instead of always g++ 2018-07-05 10:11:32 -05:00
Gabriel Ebner 887b6fd793 qalculate-gtk: 2.5.0 -> 2.6.0 2018-07-05 12:33:27 +02:00
Gabriel Ebner 7c63a9cac2 eprover: 2.0 -> 2.1 2018-07-05 12:26:43 +02:00
Gabriel Ebner 57ae4e8d8e vampire: init at 4.2.2 2018-07-05 09:34:28 +02:00
R. RyanTM 5a859d9b10 stellarium: 0.18.0 -> 0.18.1 (#42949)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/stellarium/versions.

These checks were done:

- built on NixOS
- Warning: no invocation of /nix/store/2c607ylvxs69nbr99ly1bgcb0bbk47xf-stellarium-0.18.1/bin/stellarium had a zero exit code or showed the expected version
- Warning: no invocation of /nix/store/2c607ylvxs69nbr99ly1bgcb0bbk47xf-stellarium-0.18.1/bin/.stellarium-wrapped had a zero exit code or showed the expected version
- 0 of 2 passed binary check by having a zero exit code.
- 0 of 2 passed binary check by having the new version present in output.
- found 0.18.1 with grep in /nix/store/2c607ylvxs69nbr99ly1bgcb0bbk47xf-stellarium-0.18.1
- directory tree listing: https://gist.github.com/dd98359fb1214ae24bd70e291c1bc33d
- du listing: https://gist.github.com/67baedda5ffc1ad0aa064239cb503c2b
2018-07-05 00:24:22 +02:00
Michael Raskin 04bd737062
Merge pull request #43026 from r-ryantm/auto-update/clingo
clingo: 5.2.2 -> 5.3.0
2018-07-04 21:01:39 +00:00
R. RyanTM a431e4f207 clingo: 5.2.2 -> 5.3.0
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/clingo/versions.

Version release notes (from GitHub):
# Packages

- The easiest way to obtain Python enabled clingo packages is using [Anaconda][ana]. Packages are available in the [Potassco channel][pch]. First [install either Anaconda or Miniconda][ins] and then run: `conda install -c potassco clingo`.
- Packages for clingo are available in the Linux distributions [Debian][deb], [Ubuntu][ubu], and [Arch Linux (AUR)][aur].
- For Mac OS X, clingo packages are available in [homebrew][hbr] and [macports][mac].

# Changes

* change C API to use numeric instead of symbolic literals
  * affects assumptions and assigning/releasing externals (breaks backward compatibility)
  * added overloads to C++, python and lua API to support both numeric and symbolic version (preserves backward compatibility for most code)
* the python, C and C++ APIs now allow for customizing clingo by implementing a custom main function but reusing the rest of the application including the standard output
* add API function to detect conflicting programs
* add message logger to python and lua interface
* add support for primes in the beginning of identifiers and variable names
* add per solver registration of watches during propagator initialization
* add a directive to selectivel suppress undefined atom warnings
* add support for user defined statistics
* add _to_c functions for python API to be able to call C functions from python
* only create ground representations for requested program parts when grounding (#71)
* improve program observer (#19)
* support for binary, octal, and hexadecimal numbers (#65)
* the backend has to be opened/closed now
* release python's GIL while grounding (#82)
* TruthValue.{True,False} becomes TruthValue.{\_True,\_False} in python API
* improve API and it's documentation

[deb]: https://www.debian.org/
[ubu]: https://www.ubuntu.com/
[aur]: https://aur.archlinux.org/
[hbr]: https://brew.sh/
[mac]: https://www.macports.org/
[ana]: https://conda.io
[pch]: https://anaconda.org/potassco/clingo
[ins]: https://conda.io/docs/user-guide/install/index.html

These checks were done:

- built on NixOS
- /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0/bin/lpconvert passed the binary check.
- /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0/bin/clasp passed the binary check.
- /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0/bin/reify passed the binary check.
- /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0/bin/gringo passed the binary check.
- /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0/bin/clingo passed the binary check.
- 5 of 5 passed binary check by having a zero exit code.
- 0 of 5 passed binary check by having the new version present in output.
- found 5.3.0 with grep in /nix/store/484fg7w1fr5xh2avc4g7811mxq3v3p9x-clingo-5.3.0
- directory tree listing: https://gist.github.com/bba2eaf1d132fbdd88a2710a6030c419
- du listing: https://gist.github.com/230340bfa02557290a60cfc6d2e7e977
2018-07-04 11:23:33 -07:00
Silvan Mosberger fac943fc81
Merge pull request #42897 from fragamus/master
add bliss package
2018-07-04 13:59:41 +02:00
Michael Gough e3ea685957 bliss: init at 0.73 2018-07-04 11:33:10 +00:00
Timo Kaufmann dcc1013f6b pythonPackages.backports_shutil_get_terminal_size: 1.0 -> 2016-02-21 (#42840) 2018-07-02 18:03:05 +02:00
Sebastien Maret d46fde9eb1 gildas: 20180601_a -> 20180701_a 2018-07-02 17:16:25 +02:00
Sarah Brofeldt f06ce58323
Merge pull request #42843 from fragamus/master
hmetis: init at 1.5
2018-07-02 11:40:41 +02:00
Peter Simons cbc1a03ab8 R: update to version 3.5.1
(cherry picked from commit 7e2f2037ea6d6533492d407696f260e7b11df49d)
2018-07-02 11:33:50 +02:00
Michael Gough f180facaa0 hmetis: init at 1.5 2018-07-01 18:29:55 +00:00
Michael Raskin 055a29c4a1
Merge pull request #39981 from timokau/sage-on-nixos
Sage on nixos
2018-07-01 07:37:42 +00:00
Timo Kaufmann 70ba695777 sage: replace JUPYTER_PATH patch by upstream patch
The patch was replaced by a better upstream patch that doesn't mvoe the
jupyter dir to the user's home.
2018-06-30 22:30:30 +02:00
Timo Kaufmann 398dad270a sage, arb: update sage dependencies arb and pynac
Removes the version pinning for arb and pynac by backporting the
upstream (sage) package upgrades. This necessitates a new patch for arb,
which was however already proposed and accepted upstream.
2018-06-30 17:05:56 +02:00
Luz f6a2869031 librepcb-unstable: 2017-12-29 -> 2018-06-28 (#42786)
* Update: 2017-12-29 -> 2018-06-28

* Update libs also to qt5.9

* Add required default font file

* Switch back to default Qt version
2018-06-30 13:56:12 +02:00
Ryan Mulligan 1d54dc6841 treewide: http -> https 2018-06-29 17:18:27 -07:00
Timo Kaufmann 17e6b391eb sage: 8.1 -> 8.2, use system packages 2018-06-30 01:21:31 +02:00
Timo Kaufmann 424835acc8 symmetrica: add patches 2018-06-30 01:20:46 +02:00
Théo Zimmermann 314eb884ec
coq_8_8: 8.8.0 -> 8.8.1 2018-06-29 11:10:31 +02:00
Matthew Bauer 2171fc4d55
Merge pull request #42590 from TimPut/openmvsbuildfix
openmvs: build with CGAL 4.12
2018-06-28 22:33:40 -04:00
Matthew Bauer e714f85b2f
Merge pull request #41929 from smaret/gildas
gildas: init at 201806_a
2018-06-28 22:17:07 -04:00
Matthew Bauer 574883f665
Merge pull request #42571 from iimog/hmmer
hmmer: init at 3.1b2
2018-06-28 22:00:09 -04:00
Silvan Mosberger 57bccb3cb8 treewide: http -> https sources (#42676)
* treewide: http -> https sources

This updates the source urls of all top-level packages from http to
https where possible.

* buildtorrent: fix url and tab -> spaces
2018-06-28 20:43:35 +02:00
Ryan Mulligan fce8f26af6 treewide: http -> https (#42665) 2018-06-27 22:12:57 +02:00
R. RyanTM d4f62f651f gromacs: 2018.1 -> 2018.2 (#42504)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/gromacs/versions.

These checks were done:

- built on NixOS
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/GMXRC had a zero exit code or showed the expected version
- /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/GMXRC.bash passed the binary check.
- /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/GMXRC.zsh passed the binary check.
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/GMXRC.csh had a zero exit code or showed the expected version
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/demux.pl had a zero exit code or showed the expected version
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/xplor2gmx.pl had a zero exit code or showed the expected version
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/gmx-completion.bash had a zero exit code or showed the expected version
- Warning: no invocation of /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/gmx-completion-gmx.bash had a zero exit code or showed the expected version
- /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2/bin/gmx passed the binary check.
- 3 of 9 passed binary check by having a zero exit code.
- 0 of 9 passed binary check by having the new version present in output.
- found 2018.2 with grep in /nix/store/illh3rp28ipz35z0wipsfc18z4m03sah-gromacs-2018.2
- directory tree listing: https://gist.github.com/1679f0362dfcc7299a6d5b8d9e76c14e
- du listing: https://gist.github.com/2f848bb0fe181676c17b61a9d5a94953
2018-06-27 19:02:19 +02:00
Timo Kaufmann 9ce041a8c7 pynac: 0.7.21 -> 0.7.22 (#42650) 2018-06-27 15:41:29 +02:00
Timo Kaufmann 2b22ecf01e palp: restrict platforms to linux (#42651) 2018-06-27 15:28:39 +02:00
Timo Kaufmann 08a59bb10d palp: fix runtime error introduced by #28029 (#42633)
After #28029 it is necessary to add "strictoverflow" to the disabled
hardening flags. That probably has something to do with the `-O3` option
in palps makefile.

This commit also adds a test to check for this regression (as it only
occured at runtime).
2018-06-27 09:42:26 +02:00
tim put 385114da68 openmvs: fix CGAL 4.12 dependency
patch executables with openMVS library path
2018-06-26 21:55:15 -06:00
Sebastien Maret 7b01e2b7d6 gildas: use internal LAPACK instead of OpenBLAS
Gildas' uv_fit task segfaults when it uses OpenBLAS. Use internal
LAPACK version instead.
2018-06-26 17:15:51 +02:00
Sebastien Maret ba2f45c182 gildas: use the standard installPhase 2018-06-26 11:09:45 +02:00
Sebastien Maret 8603f343a3 gildas: init at 201806_a 2018-06-26 11:09:45 +02:00
tim put a47a16a887 openmvg: 1.1 -> 1.3 2018-06-25 16:12:26 -06:00
Markus Ankenbrand 851ab7f323 hmmer: init at 3.1b2 2018-06-25 16:56:21 +02:00
xeji c51ac5eb33
Merge pull request #42423 from ryantm/repology-problems
treewide: http -> https
2018-06-24 20:44:50 +02:00
Maximilian Bosch 8cf8c4bac2 stellarium: 0.16.1 -> 0.18.0 (#42357) 2018-06-24 20:26:58 +02:00
Matthew Justin Bauer e09861f11f
gravit: fix eval 2018-06-23 17:35:31 -04:00
Matthew Justin Bauer 9bfd3ade2e
gravit: only build on linux 2018-06-23 17:33:25 -04:00
Ryan Mulligan 0d5eb901ad treewide: http -> https 2018-06-23 04:34:55 -07:00
R. RyanTM b75e083c69 verilator: 3.922 -> 3.924
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/verilator/versions.

These checks were done:

- built on NixOS
- /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator_bin passed the binary check.
- /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator_bin_dbg passed the binary check.
- /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator_coverage_bin_dbg passed the binary check.
- /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator passed the binary check.
- /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator_coverage passed the binary check.
- Warning: no invocation of /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924/bin/verilator_profcfunc had a zero exit code or showed the expected version
- 5 of 6 passed binary check by having a zero exit code.
- 0 of 6 passed binary check by having the new version present in output.
- found 3.924 with grep in /nix/store/gnmapahqvab762fi885bwhlfhxvpfs81-verilator-3.924
- directory tree listing: https://gist.github.com/eebd214973454154b716fc6a9556b922
- du listing: https://gist.github.com/cb78abec038b5abdae8004ea1edcefc0
2018-06-19 10:14:47 -05:00
Timothée Jourde cb597c229b openspace: init at 0.11.1
This adds a new package: OpenSpace, an open source astrovisualization
project, and one of its dependencies: SOIL (Simple OpenGL Image
Library).

This kind of works for me, but please note that this build is not very
usable for now. This is a first attempt. Also, Linux doesn't seem to
be well supported upstream, hence the various patches (I will open an
issue upstream to discuss them).

Squashed commits:
openspace: fetch upstream glm "patch"
openspace: add missing dependency (libXxf86vm)
soil: mesa -> mesa_noglu
2018-06-19 02:59:23 +02:00
R. RyanTM b3052440f6 picard-tools: 2.18.5 -> 2.18.7 (#41975)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/picard-tools/versions.

These checks were done:

- built on NixOS
- Warning: no invocation of /nix/store/siklhy9pl9xl9cq3nlqhln038554h72g-picard-tools-2.18.7/bin/picard had a zero exit code or showed the expected version
- 0 of 1 passed binary check by having a zero exit code.
- 0 of 1 passed binary check by having the new version present in output.
- found 2.18.7 with grep in /nix/store/siklhy9pl9xl9cq3nlqhln038554h72g-picard-tools-2.18.7
- directory tree listing: https://gist.github.com/a49ed5f2ff312ce6180174183901e38f
- du listing: https://gist.github.com/243f4d89d2100ef27d332e3562d5f173
2018-06-18 22:41:49 +02:00
R. RyanTM d97f7d3b89 raxml: 8.2.11 -> 8.2.12 (#41964)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/RAxML/versions.

These checks were done:

- built on NixOS
- /nix/store/w8iy7fvdwhjw7zx1dkga3v56fz59s7r8-RAxML-8.2.12/bin/raxmlHPC-PTHREADS-SSE3 passed the binary check.
- 1 of 1 passed binary check by having a zero exit code.
- 0 of 1 passed binary check by having the new version present in output.
- found 8.2.12 with grep in /nix/store/w8iy7fvdwhjw7zx1dkga3v56fz59s7r8-RAxML-8.2.12
- directory tree listing: https://gist.github.com/8a2b70b299e53bfee9f18d2ab8cd5f9f
- du listing: https://gist.github.com/02803409663f19671adc6be233a327fd
2018-06-18 22:40:49 +02:00
Maximilian Bosch 0dbfa47ed1 geogebra: 5-0-444-0 -> 5-0-472-0 (#41990)
Bumped to the latest version available.

Also tested the `web.archive.org` backup to avoid broken downloads when
the tarball is removed from the official download mirror.
2018-06-17 18:04:14 +02:00
spacefrogg 0b475d300c ngspice: Fix regression due to missing X libs (#41890) 2018-06-13 13:48:15 +02:00
spacefrogg 0cc4396818 xcircuit: init at 3.9.73 (#41891) 2018-06-13 13:21:34 +02:00
Ben Gamari f4d4f5e65a kicad-unstable: 2018-03-10 -> 2018-06-12 2018-06-12 20:15:51 -04:00
Matthew Justin Bauer cc42186614
Merge pull request #41668 from r-ryantm/auto-update/ngspice
ngspice: 27 -> 28
2018-06-10 19:08:30 -04:00
R. RyanTM d50e65b346 pynac: 0.7.19 -> 0.7.21 (#41662)
Semi-automatic update generated by https://github.com/ryantm/nixpkgs-update tools.

This update was made based on information from https://repology.org/metapackage/pynac/versions.

These checks were done:

- built on NixOS

- 0 of 0 passed binary check by having a zero exit code.
- 0 of 0 passed binary check by having the new version present in output.
- found 0.7.21 with grep in /nix/store/883yhmfc1k4vz1dd37l73v7clvnyaa3v-pynac-0.7.21
- directory tree listing: https://gist.github.com/a0f53cebb1c4cae07c81edef938ac632
- du listing: https://gist.github.com/78800724710d0766e4add7ed1847c3fc
2018-06-08 19:02:38 +02:00