JakeHillion/nixpkgs
1
0
Fork 0
Code Issues Pull Requests Actions Packages Projects Releases Wiki Activity
157,766 Commits 2 Branches 0 Tags 12 GiB
f5af5b19f4
Commit Graph

2157 Commits

Author SHA1 Message Date
R. RyanTM
77f8e10fed picard-tools: 2.18.12 -> 2.18.14 (#46978) 
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
 2018-09-29 21:03:17 +02:00
R. RyanTM
7ecc7c9220 gtkwave: 3.3.93 -> 3.3.94 (#47048) 
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
 2018-09-28 23:47:58 +02:00
R. RyanTM
b65fbe8fcd gmsh: 4.0.0 -> 4.0.1 (#47060) 
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
 2018-09-28 22:17:32 +02:00
Will Dietz
eb91037e7b tree-wide: patchelf used during build -> nativeBuildInputs 
In a few cases it wasn't clear so I left them as-is.

While visiting these moved other things to nativeBuildInputs
when it was clear they were one of these cases:

* makeWrapper
* archive utilities (in order to unpack src)
  * a few of these might no longer be needed but leaving for another day
 2018-09-28 11:43:16 -05:00
Timo Kaufmann
87ca34b895
Merge pull request #47043 from r-ryantm/auto-update/jmol 
jmol: 14.29.19 -> 14.29.22
 2018-09-27 12:09:01 +02:00
Timo Kaufmann
0be6ca9e71 sage: 8.4.beta5 -> 8.4.beta6 2018-09-27 12:08:15 +02:00
Timo Kaufmann
2f6b13950e Merge remote-tracking branch 'upstream/master' into sage-8.4 2018-09-27 12:07:37 +02:00
markuskowa
6f6222c40f openmolcas: 20180529 -> 18.09 (#47410) 2018-09-27 10:47:02 +02:00
Vincent Laporte
23900febe7 coq: 8.8.1 -> 8.8.2 (#47388) 2018-09-26 22:26:39 +02:00
Sebastien Maret
1e67ff3f05 gildas: 20180801_a -> 20180901_a (#46159) 
* gildas: 20180801_a -> 20180801_b

  - Update gildas
  - Remove a patch that has been applied upstream

* gildas: 20180801_b -> 20180901_a
 2018-09-25 16:18:53 +02:00
Dmitry Kalinkin
39c85c3bf9 xfitter: init at 2.0.0 2018-09-24 14:34:49 -04:00
Dmitry Kalinkin
3187db6e8d root5: init at 5.34.36 2018-09-24 14:34:49 -04:00
Frederik Rietdijk
56853dc6d8
Merge pull request #45941 from NixOS/staging-next 
Staging next
 2018-09-23 09:31:28 +02:00
Orivej Desh
7545b7dcf3 platypus: 2017-03-07 -> 2018-07-22 2018-09-21 22:42:28 +00:00
Orivej Desh
cefd38b721 samtools: 1.8 -> 1.9 2018-09-21 22:42:28 +00:00
R. RyanTM
730eb9f5f2 jmol: 14.29.19 -> 14.29.22 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/jmol/versions
 2018-09-20 12:30:18 -07:00
Frederik Rietdijk
de419917a3 Merge master into staging-next 2018-09-18 18:44:48 +02:00
Timo Kaufmann
1217882907 sage: 8.4.beta4 -> 8.4.beta5 2018-09-15 17:23:14 +02:00
Timo Kaufmann
c3f652d5a8 Merge remote-tracking branch 'upstream/master' into sage-8.4 2018-09-15 17:22:11 +02:00
Chris Ostrouchov
a2bc529f22
siesta: init at 4.0.2 2018-09-14 15:40:25 -04:00
Chris Ostrouchov
2c7295ebe0
quantum-espresso: init at 6.3 2018-09-14 15:40:14 -04:00
Maximilian Bosch
2cfc0bb7ee tamarin-prover: fix ghc 8.4 build (#46597) 
See https://hydra.nixos.org/build/81125645

`tamarin-prover' upstream has a patch to fix GHC 8.4 compilation (and
uses stack lts-12.1 now), but it's not released yet:

a08f6e4007

The build is divided in several derivations, therefore the patch had to
be splitted and rebased for `lib/term', `lib/theory' and `lib/utils' to
ensure that the patch applies properly during the `patchPhase'.

Addresses #45960
 2018-09-13 14:11:09 +02:00
Markus J. Ankenbrand
e2df8e7c0f seaview: init at 4.7 (#46595) 2018-09-13 14:10:44 +02:00
Uli Baum
1df2560dde Merge branch 'master' into staging-next 2018-09-13 10:08:53 +02:00
R. RyanTM
e94947af0a gromacs: 2018.2 -> 2018.3 (#46275) 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
gromacs
 2018-09-12 23:07:27 +02:00
R. RyanTM
c4e8db3de0 star: 2.6.0c -> 2.6.1a (#46176) 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
star
 2018-09-12 22:49:12 +02:00
Matthew Bauer
40d19d8e7c
Merge pull request #45102 from jbedo/hisat2 
hisat2: init 2.1.0
 2018-09-10 15:11:58 -05:00
Matthew Bauer
05d379f3cf
Merge pull request #46211 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.18.11 -> 2.18.12
 2018-09-10 14:58:59 -05:00
Silvan Mosberger
10a412f251
almonds: update license 2018-09-09 02:04:34 +02:00
Markus Kowalewski
70e254d6bd
root: add license 2018-09-08 14:51:28 +02:00
Markus Kowalewski
1cff2dd135
pynac: add license 2018-09-08 14:48:19 +02:00
Markus Kowalewski
258c202565
prooftree: add license 2018-09-08 14:44:43 +02:00
Markus Kowalewski
2ed07fdb2b
drgeo: add license + homepage 2018-09-08 14:42:12 +02:00
Timo Kaufmann
db784d883c sage: re-add pkg-config aliases 
Those were removed because they were added to openblas itself. There was
an error with that however and it will take some time until the fix
makes its way through staging. For the time being, reverting this part
of 26d5d030fe will fix the sage build.
This commit should be reverted once
408eacbc89 is in master.
 2018-09-07 21:55:41 +02:00
Timo Kaufmann
770c5b8a69 sage: 8.4.beta3 -> 8.4.beta4 2018-09-07 20:56:37 +02:00
Timo Kaufmann
4ab832d6e7 Merge remote-tracking branch 'upstream/master' into sage-8.4 2018-09-07 20:54:09 +02:00
Timo Kaufmann
7521f2863d sage: fix numpy and scipy integration 2018-09-07 18:36:52 +02:00
Timo Kaufmann
759e495881
Merge pull request #46268 from r-ryantm/auto-update/jmol 
jmol: 14.29.17 -> 14.29.19
 2018-09-07 11:32:26 +02:00
R. RyanTM
baf51804f0 jmol: 14.29.17 -> 14.29.19 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
jmol
 2018-09-06 19:54:40 -07:00
R. RyanTM
f72cba212c picard-tools: 2.18.11 -> 2.18.12 
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
picard-tools
 2018-09-06 14:22:26 -07:00
Profpatsch
3e45b61a99 lib/trivial: add a few examples of usage of assertMsg/assertOneOf 2018-09-06 18:14:27 +02:00
Sebastien Maret
5b58c6ac76 gildas: add alternative url for the source code (#46145) 
For each new release, the upstream developers of Gildas move the
source code of the previous release to a different directory. Add this
directory to the list of url to avoid build failure at each new
release.
 2018-09-06 15:10:21 +01:00
Renato Garcia
318c9296fa snakemake: add maintainers (#46117) 2018-09-05 21:46:17 +02:00
xeji
bf2a90298a
Merge pull request #46053 from danieldk/mxnet-fixes 
pythonPackages.mxnet: fix build
 2018-09-05 16:07:56 +02:00
Sebastien Maret
b76cf0b54c gildas: ignore clang warnings for unused command line arguments 
See #46044
 2018-09-05 12:17:05 +02:00
Daniël de Kok
590ce7d1ae mxnet: fix library dependencies. 
- mxnet now builds the open source MKL DNN library. However, this
  was not included with the build.
- mxnet builds its own OpenMP library, even when OpenMP is provided
  by the system. This leads to problems, so remove the included
  OpenMP implementation:

  https://github.com/apache/incubator-mxnet/pull/12160
 2018-09-04 20:27:25 +02:00
Sebastien Maret
3bc898035d gildas: fix makefile rule 2018-09-04 16:05:44 +02:00
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