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Author SHA1 Message Date
Symphorien Gibol
8b4f885264 giac: add missing optional dependencies 2018-12-09 23:18:53 +01:00
Symphorien Gibol
e7801461e0 giac: don't split in multiple outputs for when gui enabled 
This breaks the Phys and Turtle menu, among other things.
 2018-12-09 23:18:53 +01:00
Symphorien Gibol
b5435d0551 giac: 1.4.9 -> 1.5.0 2018-12-09 23:18:46 +01:00
Frederik Rietdijk
e0950ae9ad Merge master into staging-next 2018-12-08 12:40:13 +01:00
Sebastien Maret
da314a44ea gildas: 20181101_a -> 20181201_a 2018-12-06 12:02:05 +01:00
Justin Bedo
8c5251e3c0
bowtie2: fix missing dependencies 2018-12-05 10:51:30 +11:00
Frederik Rietdijk
a510aa2672 Merge master into staging-next 2018-12-03 12:18:43 +01:00
Timo Kaufmann
5f2b8de75c
Revert "pythonPackages.cypari2: 1.3.1 -> 2.0.1 (#49446)" (#51414) 
This reverts commit d9b650f4cc.

The update is causing segfaults. See
https://trac.sagemath.org/ticket/26442.
 2018-12-03 00:44:33 +01:00
markuskowa
506d4c7e44
Merge pull request #51329 from c0bw3b/cleanup/gnu-https 
Favor HTTPS URLs - the GNU edition
 2018-12-02 16:52:33 +01:00
c0bw3b
0498ccd076 Treewide: use HTTPS on GNU domains 
HTTP -> HTTPS for :
- http://gnu.org/
- http://www.gnu.org/
- http://elpa.gnu.org/
- http://lists.gnu.org/
- http://gcc.gnu.org/
- http://ftp.gnu.org/ (except in fetchurl mirrors)
- http://bugs.gnu.org/
 2018-12-02 15:51:59 +01:00
c0bw3b
0f868d8116 Treewide: use HTTPS on SourceForge 2018-12-02 15:33:08 +01:00
Jan Tojnar
a51a99c690
gobject-introspection: rename package 
camelCase package name was a huge inconsistency in GNOME package set.
 2018-12-02 12:42:29 +01:00
Brenton Horne
10f40f3ac6 scilab-bin: adding application launchers 
Moving the desktop configuration files from
opt/scilab-$ver/share/applications to share/applications, making the
required changes, and moving the icons in opt/scilab-$ver/share/icons to
share/icons. Moving locales, appdata and mime out of there
opt/scilab-${ver} too. Also removing unneeded scilab-${ver} and
scilab-${majorVer} symlinks from bin/.
 2018-12-02 17:53:40 +10:00
Brenton Horne
7041972128 scilab-bin: adding bin/scilab symlink (#51346) 
Should fix #51343, merely adding a scilab symlink within the bin/ directory, so that it can be detected by SageMath.
 2018-12-01 23:25:40 +01:00
Timo Kaufmann
88b69a0d40
Merge pull request #51337 from timokau/sagenb-matplotlib-fix 
sage: misc fixes
 2018-12-01 22:04:48 +01:00
Timo Kaufmann
0e570199de sage: fix jmol integration 2018-12-01 21:31:29 +01:00
Timo Kaufmann
cb73495f02 sagenb: fix matplotlib path 2018-12-01 20:41:40 +01:00
Timo Kaufmann
d9b650f4cc
pythonPackages.cypari2: 1.3.1 -> 2.0.1 (#49446) 2018-12-01 12:57:55 +01:00
Jan Tojnar
c5881ec2c9
Merge remote-tracking branch 'upstream/master' into staging 2018-11-30 20:09:45 +01:00
Frederik Rietdijk
1828a5c5ba Merge master into staging-next 2018-11-30 17:46:21 +01:00
Matthew Bauer
76c7a8bac0
Merge pull request #51205 from matthewbauer/more-setup-hooks 
Add premake & imake setup hook
 2018-11-29 19:36:25 -06:00
Frederik Rietdijk
9b81c7e455 Merge staging-next into staging 2018-11-29 09:18:35 +01:00
Frederik Rietdijk
9db2421d1f Merge master into staging-next 2018-11-29 08:12:56 +01:00
Matthew Bauer
c0a804c747 treewide: add dontUseImakeConfigure where needed 
We need to set dontUseImakeConfigure in a few places to prevent imake
from overriding the default configure phase. This packages all have a
configure script that needs to get run:

- Xaw3d
- R
- tkgate
- ssvnc
 2018-11-28 20:14:45 -06:00
Matthew Bauer
8a4da41849 xearth: use imake setup hook 2018-11-28 20:14:36 -06:00
Will Dietz
d7a0e03cfa
Merge pull request #51162 from dtzWill/update/z3-4.8.3 
z3: 4.8.1 -> 4.8.3
 2018-11-28 18:15:31 -06:00
Timo Kaufmann
aa053197de
Merge pull request #51191 from timokau/sage-fixes 
sage: fix test timeout and downgraded R tests
 2018-11-28 23:10:32 +01:00
Timo Kaufmann
d6376bca6d sage: don't test the downgraded R 
Fails transiently. See https://github.com/NixOS/nixpkgs/pull/49249. The
failures look harmless and are fixed with R 3.5 which will be used in
sage 8.5.
 2018-11-28 22:52:15 +01:00
Timo Kaufmann
359bf7f1e3 sage: disable test timeout 
Hydra build failed due to timeout:
https://hydra.nixos.org/build/84870983
 2018-11-28 22:37:24 +01:00
Timo Kaufmann
4900bbee17 sage: preload openblasCompat 2018-11-28 20:44:09 +01:00
Renaud
d209180c78
Merge pull request #51087 from Luz/librepcb 
librepcb: 20181031 -> 0.1.0
 2018-11-28 08:19:13 +01:00
Will Dietz
a034d90e3b z3: 4.8.1 -> 4.8.3 
https://github.com/Z3Prover/z3/releases/tag/z3-4.8.3
 2018-11-27 22:00:19 -06:00
Timo Kaufmann
7ca2915a50 sage: 8.5.beta4 -> 8.5.beta5 2018-11-27 18:26:16 +01:00
Timo Kaufmann
2dd9a0ed72 Merge remote-tracking branch 'upstream/master' into sage-8.5 2018-11-27 18:25:39 +01:00
R. RyanTM
36a0335d02 picard-tools: 2.18.14 -> 2.18.17 (#50647) 
* picard-tools: 2.18.14 -> 2.18.16

Changelog: https://github.com/broadinstitute/picard/releases/tag/2.18.16
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/picard-tools/versions

* picard-tools: 2.18.16 -> 2.18.17

Changelog: https://github.com/broadinstitute/picard/releases/tag/2.18.17
 2018-11-27 14:31:09 +01:00
Nick Hu
583911a0b2 quantomatic: init at 0.7 2018-11-26 21:51:58 +00:00
Luz
021b6e86fa librepcb: 20181031 -> 0.1.0 2018-11-26 22:33:39 +01:00
Vladimír Čunát
a5de78b7d7
Merge branch 'master' into staging-next 2018-11-26 10:28:00 +01:00
Timo Kaufmann
90cebaf828 sage: 8.5.beta3 -> 8.5.beta4 2018-11-25 19:39:18 +01:00
Timo Kaufmann
2a87caa892 sage: 8.5.beta2 -> 8.5.beta3 2018-11-25 19:39:17 +01:00
Timo Kaufmann
3370247f7f sage: 8.5.beta1 -> 8.5.beta2 2018-11-25 19:39:17 +01:00
Timo Kaufmann
883aa99226 sage: add short tests 2018-11-25 19:39:13 +01:00
Timo Kaufmann
8e7da1b8a4 sage: 8.5.beta0 -> 8.5.beta1 2018-11-25 19:36:21 +01:00
Timo Kaufmann
6138f5d5eb sage: 8.4 -> 8.5.beta0 2018-11-25 19:36:21 +01:00
Timo Kaufmann
2fbde72556
sage: add tkinter as matplotlib backend (#51032) 
Fixes #50959.
 2018-11-25 17:38:45 +01:00
Timo Kaufmann
98c94d3d7d sage: add jupyter notebook support 
Fixes #48544.
 2018-11-25 15:54:31 +01:00
Timo Kaufmann
0c23fa9aaf
Merge pull request #50998 from timokau/sage-refactor 
Sage refactor
 2018-11-24 23:59:28 +01:00
Timo Kaufmann
a0723f1285 sage: don't fix node version 2018-11-24 23:14:38 +01:00
Timo Kaufmann
e28a8ed287 sage: add some flexibility to the test runner 
Make it possible to run individual tests. This is very useful while
git-bisecting.
 2018-11-24 23:14:38 +01:00
Timo Kaufmann
21f9123ea6 sage: remove openblas hack 
The pc files have since been included into the openblas package.
 2018-11-24 23:14:38 +01:00
Timo Kaufmann
3832ddedb9 sage: refactor 2018-11-24 23:14:33 +01:00
c0bw3b
0ea604ac1d Treewide: use https for SourceForge 2018-11-24 19:58:03 +01:00
Timo Kaufmann
9b4a518465 sage: drop known-padics-failure patch 
The failure was not observed for a while and is probably fixed now.
 2018-11-24 19:01:57 +01:00
Timo Kaufmann
ca6475b5e8 sage: drop unused patches 2018-11-24 19:01:57 +01:00
Frederik Rietdijk
c1792242ef Merge staging-next into staging 2018-11-24 10:44:50 +01:00
Frederik Rietdijk
e41154d1ab Merge master into staging-next 2018-11-24 10:43:33 +01:00
Gabriel Ebner
4e1323a0cf vampire: fix nondeterministic hash 
Probably related to #8567
 2018-11-22 14:15:55 +01:00
Michael Raskin
6fe39605df polymake: init at 3.2r4 2018-11-22 12:29:14 +03:00
Frederik Rietdijk
2219e2578e Merge staging-next into staging 2018-11-22 10:10:40 +01:00
Frederik Rietdijk
c31cb577ae Merge master into staging-next 2018-11-22 09:57:08 +01:00
worldofpeace
2e70b40f58
Merge pull request #49376 from dpaetzel/package-netlogo 
NetLogo: init 6.0.4
 2018-11-21 21:37:01 -05:00
Frederik Rietdijk
fed881e510 Merge staging-next into staging 2018-11-21 12:39:46 +01:00
Frederik Rietdijk
701375662b Merge master into staging-next 2018-11-21 12:39:20 +01:00
Gabriel Ebner
f505340252 iprover: 2.5 -> 2018_Jul_24_11h 2018-11-21 12:15:48 +01:00
David Pätzel
fa623ad828 netlogo: init 6.0.4 2018-11-21 09:38:22 +01:00
Matthew Bauer
d492f53faf
Merge pull request #50527 from matthewbauer/ninja-check-phase 
Add check phase to ninja setup hook
 2018-11-20 16:55:12 -06:00
markuskowa
0e98312b72
Merge pull request #50734 from r-ryantm/auto-update/gromacs 
gromacs: 2018.3 -> 2018.4
 2018-11-20 22:14:05 +01:00
Frederik Rietdijk
aabf1a93bc Merge staging-next into staging 2018-11-20 11:51:11 +01:00
Frederik Rietdijk
fd26e7be2a Merge master into staging-next 2018-11-20 11:47:26 +01:00
Renaud
6550c0275e
Merge pull request #50703 from r-ryantm/auto-update/ltl2ba 
ltl2ba: 1.2b1 -> 1.2
 2018-11-19 22:21:52 +01:00
luzpaz
0ec2af3736
gmsh: 4.0.4 -> 4.0.5 
Manually updated
 2018-11-19 11:12:38 -05:00
R. RyanTM
08a0192340 gromacs: 2018.3 -> 2018.4 
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
 2018-11-19 06:47:47 -08:00
R. RyanTM
5648699f6c ltl2ba: 1.2b1 -> 1.2 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ltl2ba/versions
 2018-11-19 02:28:38 -08:00
Frederik Rietdijk
e343a85cfb Merge master into staging-next 2018-11-19 09:55:32 +01:00
Matthew Bauer
2c47a4229f treewide: remove ctest usages 
These are already in the generated makefiles!
 2018-11-18 19:31:02 -06:00
Matthew Bauer
2c1d3a9a82 Merge remote-tracking branch 'upstream/master' into staging 2018-11-18 19:02:09 -06:00
Jörg Thalheim
1282ba6ac4
Merge pull request #50554 from r-ryantm/auto-update/verilator 
verilator: 4.004 -> 4.006
 2018-11-18 12:18:45 +00:00
Frederik Rietdijk
0d0d7dcd06 Merge staging-next into staging 2018-11-18 10:41:34 +01:00
Frederik Rietdijk
63c6875f26 Merge master into staging-next 2018-11-18 10:32:12 +01:00
R. RyanTM
ee521455da verilator: 4.004 -> 4.006 
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
 2018-11-18 00:14:21 -08:00
Renaud
44f24a1b8c
Merge pull request #50474 from Pneumaticat/boinc-update 
boinc: 7.8.0 -> 7.14.2
 2018-11-17 12:03:09 +01:00
Jörg Thalheim
131f2e93b6
sage: unpin nodePackage version 2018-11-16 21:24:25 +00:00
Kevin Liu
c93b16829c
boinc: 7.8.0 -> 7.14.2 2018-11-16 15:52:22 -05:00
Ben Darwin
cb6d819b93 niftyseg: init at 1.0.0 2018-11-16 12:29:29 -05:00
Ben Darwin
6aa3deeb50 niftyreg: init at 1.3.9 2018-11-16 12:24:53 -05:00
Jörg Thalheim
218f12db70
Merge pull request #50324 from asymmetric/solc 
solc: 0.4.25 -> 0.5.0
 2018-11-15 21:26:32 +00:00
Jörg Thalheim
abb0c81190
z3: restrict to x86_64 
it uses x86-only header:

include <immintrin.h>
          ^~~~~~~~~~~~~
compilation terminated.
src/sat/sat_probing.cpp
make: *** [Makefile:182: util/mpz.o] Error 1
make: *** Waiting for unfinished jobs....
src/sat/sat_parallel.cpp
builder for '/nix/store/vd2wkhic8g77izxv659ackh6hcaamic3-z3-4.8.1.drv' failed with exit code 2
cannot build derivation '/nix/store/h5imnjsf31c45l558gw66vyzb0ickc1m-solc-0.5.0.drv': 1 dependencies couldn't be built
error: build of '/nix/store/h5imnjsf31c45l558gw66vyzb0ickc1m-solc-0.5.0.drv' failed
 2018-11-15 21:25:53 +00:00
Piotr Bogdan
5d0eeeee38 coq2html: switch to default make 2018-11-15 17:41:25 +00:00
Gabriel Ebner
b1c149d47a tptp: use urls instead of url 
nix-prefetch-url breaks if the url argument to fetchurl is a list.
 2018-11-15 15:56:18 +01:00
Gabriel Ebner
b3844d00f6 tptp: 7.1.0 -> 7.2.0 2018-11-15 15:50:48 +01:00
Renaud
650036f022
Merge pull request #50359 from jfrankenau/gurobi-java 
gurobi: install Java library files
 2018-11-15 14:13:47 +01:00
Johannes Frankenau
b4e13e6257 gurobi: install Java library files 2018-11-14 19:38:18 +01:00
Jörg Thalheim
987bd62232
Merge pull request #50232 from wucke13/master 
qgroundcontrol: fixes #49870
 2018-11-14 17:10:05 +00:00
Renaud
7ca9d67948
Merge pull request #50102 from r-ryantm/auto-update/gp2c 
gp2c: 0.0.11 -> 0.0.11pl1
 2018-11-14 16:07:49 +01:00
wucke13
c26b42be74 qgroundcontrol: fixes #49870 
The `.desktop` referenced a non existent script to run `QGroundControl`. This commits adds a `sed` command, which replaces the non existent script by the name of the `QGroundControl` binary in the relevant `.desktop` file.
 2018-11-14 13:12:20 +01:00
markuskowa
f597a88542
Merge pull request #50101 from r-ryantm/auto-update/gmsh 
gmsh: 4.0.2 -> 4.0.4
 2018-11-14 12:46:48 +01:00
Markus Kowalewski
644ab709e7
gmsh: restrict platform to x86_64-linux 2018-11-14 12:33:37 +01:00
Markus Kowalewski
ced40eabfd
gmsh: use openblas instead of atlas/lapack 
* openblas is properly recognized by cmake
* the cmake patch is no longer neccessary
 2018-11-14 11:41:46 +01:00
Matthew Bauer
2e18ba6c5a
Merge pull request #49776 from matthewbauer/atlas-remove 
atlas: remove
 2018-11-13 19:18:35 -06:00
markuskowa
2823b5e698
Merge pull request #46667 from costrouc/costrouc/lammps-update 
lammps: update, hoomd-blue, dl_poly: init
 2018-11-13 21:00:02 +01:00