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Author SHA1 Message Date
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
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
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 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
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
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 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 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 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 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
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