Commit graph

2683 commits

Author SHA1 Message Date
Austin Seipp b0fea1dc9c
verilog: 2018.12.15 -> 2019.03.27, parallel build
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2019-04-22 14:27:45 -05:00
Austin Seipp fe8eb566b5
symbiyosys: 2019.03.28 -> 2019.04.18
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2019-04-22 14:27:45 -05:00
Daniel Schaefer bac4d95aa2 treewide: Change URLs to HTTPS
Lots of URLs were HTTP redirect to HTTPS. Changed those and checked them
if there's actual content. Inspired by
https://github.com/NixOS/nixpkgs/issues/60004
2019-04-22 10:19:54 +02:00
Timo Kaufmann 512097dece
Merge pull request #59921 from timokau/gap-update
gap: 4.10.0 -> 4.10.1
2019-04-20 13:17:04 +02:00
R. RyanTM 0dc3184871 picard-tools: 2.18.27 -> 2.19.0 (#59634)
Semi-automatic update generated by
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based on information from
https://repology.org/metapackage/picard-tools/versions
2019-04-20 13:15:40 +02:00
Timo Kaufmann 9c7f774a39 gap: mark as broken on darwin
Has been failing to build for a while.
2019-04-20 12:36:11 +02:00
Timo Kaufmann af6739fdd7 gap: 4.10.0 -> 4.10.1 2019-04-20 09:54:27 +02:00
Aaron Andersen 77dbfa3a55
Merge pull request #53803 from jfrankenau/init-groove
groove: init at 5.7.4
2019-04-19 20:27:18 -04:00
Aaron Andersen 11cf1a282d
Merge pull request #58377 from bzizou/exonerate
exonerate: init at 2.4.0
2019-04-19 13:25:49 -04:00
Mario Rodas f84a7b3828
Merge pull request #59834 from luispedro/add_prodigal
Prodigal: init at 2.6.3
2019-04-19 09:50:03 -05:00
Bruno Bzeznik 6a8c9bff8f exonerate: init at 2.4.0 2019-04-19 14:58:57 +02:00
Bruno Bzeznik 90b4796c60 sumatools: init at 1.0.34 2019-04-19 14:43:40 +02:00
Johannes Frankenau e7f021ca93 groove: init at 5.7.4 2019-04-19 13:34:30 +02:00
Luis Pedro Coelho 3fc55eec05 Prodigal: init at 2.6.3 2019-04-19 08:38:14 +02:00
Timo Kaufmann 49b8efcb84 sage: 8.6 -> 8.7
https://groups.google.com/forum/#!topic/sage-release/3m8PV9JkFro
2019-04-17 22:44:32 +02:00
Timo Kaufmann e0e5445667 sage: fix another transient sig_on bug
Caused a test failure on hydra, backporting upstream fix.
2019-04-17 19:58:07 +02:00
R. RyanTM d11731130d star: 2.7.0c -> 2.7.0f
Semi-automatic update generated by
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based on information from
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2019-04-16 18:30:49 +02:00
Michael Raskin 3d3a415f24 petrinizer: init at 0.9.1.1 2019-04-16 15:11:03 +02:00
Austin Seipp bb27856a5c
Merge pull request #59522 from r-ryantm/auto-update/gtkwave
gtkwave: 3.3.99 -> 3.3.100
2019-04-16 02:12:25 -05:00
Matthew Bauer f475aeaf29
Merge pull request #59535 from matthewbauer/homepage-fixes
treewide: update homepages to https where available
2019-04-15 20:47:30 -04:00
Matthew Bauer 290a5d916e treewide: update homepages to https where available
Based on "problems" from repology:

https://repology.org/repository/nix_unstable/problems

Mostly simple changes to reflect redirects.
2019-04-15 10:10:05 -04:00
R. RyanTM c906798997 jmol: 14.29.32 -> 14.29.36 (#59546)
Semi-automatic update generated by
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2019-04-15 12:02:41 +02:00
Austin Seipp a5add1e623
symbiyosys: 2018.12.09 -> 2019.03.28
Signed-off-by: Austin Seipp <aseipp@pobox.com>
2019-04-15 00:17:54 -05:00
Luis Pedro Coelho 13a1f2c296 eggnog-mapper: init at 1.0.3 (#58905) 2019-04-14 17:22:47 -07:00
R. RyanTM 8a4ad20ed0 gtkwave: 3.3.99 -> 3.3.100
Semi-automatic update generated by
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2019-04-14 14:47:32 -07:00
R. RyanTM 00d17e36ea gmsh: 4.2.2 -> 4.2.3
Semi-automatic update generated by
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based on information from
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2019-04-14 13:15:32 -07:00
Timo Kaufmann 62c288ec20
python.pkgs.sympy: 1.3 -> 1.4 (#59482) 2019-04-14 17:52:03 +02:00
Michael Raskin 796050fedd openmvs: mark as broken 2019-04-14 17:45:21 +02:00
R. RyanTM c3a9b4e1fd eagle: 9.3.1 -> 9.3.2
Semi-automatic update generated by
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based on information from
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2019-04-14 07:47:26 -07:00
markuskowa 87f595a1f0
Merge pull request #56615 from r-ryantm/auto-update/clp
clp: 1.16.11 -> 1.17.0
2019-04-14 12:05:32 +02:00
Markus Kowalewski 19dfffff3c
clp: restrict to x86_64-linux + darwin 2019-04-14 00:17:25 +02:00
Markus Kowalewski e879991e1b
clp: 1.17.0 -> 1.17.11 2019-04-14 00:04:06 +02:00
Joe Hermaszewski 0e2d27f5af fped: init at 2017-05-11 2019-04-13 13:36:46 +08:00
Julien Dehos a13f5d0da1 mxnet: fix cuda support enabled build (#48781) 2019-04-12 10:31:22 +00:00
Frederik Rietdijk 993e2b4ec2
Merge pull request #59098 from NixOS/staging-next
Staging next
2019-04-11 18:23:14 +02:00
Frederik Rietdijk 230c67f43b Merge master into staging-next 2019-04-11 07:50:23 +02:00
Dmitry Kalinkin c321b64b3f
snakemake: 5.2.2 -> 5.4.4 2019-04-10 14:18:26 -04:00
xeji cc118b4426
Merge pull request #58676 from smaret/gildas-update
gildas: update to 20190401_a
2019-04-10 14:30:50 +02:00
Frederik Rietdijk d108b49168 Merge master into staging-next 2019-04-09 16:38:35 +02:00
Vladimír Čunát f7ddff5c6d
R: fix regression from commit cbade453 #58989
Normally the directory is created in fixup phase.
2019-04-07 17:38:45 +02:00
Frederik Rietdijk 7f7da0a16f Merge master into staging-next 2019-04-07 15:14:52 +02:00
rhokue cbade453ac R: explicitly declare which as a run-time dependency
Fixes https://github.com/NixOS/nixpkgs/issues/58963.
Closes https://github.com/NixOS/nixpkgs/pull/58989.
2019-04-07 11:12:43 +02:00
Frederik Rietdijk 4a125f6b20 Merge master into staging-next 2019-04-07 08:33:41 +02:00
Timo Kaufmann ceede33ddf
python.pkgs.cypari2: 2.0.3 -> 2.1.0 (#59085) 2019-04-06 21:46:13 +00:00
Pascal Wittmann cfb6ade58c
Merge pull request #58931 from bzizou/migrate
migrate: init at 3.7.2
2019-04-06 14:23:50 +02:00
Vincent Laporte 50a03f8632 hol_light: 2018-09-30 -> 2019-03-27 2019-04-06 11:03:29 +02:00
Timo Kaufmann 6662fbc822
Merge pull request #58961 from timokau/nauty-features
nauty: disable cpu feature detection
2019-04-05 13:12:05 +00:00
Jan Tojnar cb1a20499a
Merge branch 'master' into staging 2019-04-05 11:37:15 +02:00
Bruno Bzeznik 0b03f44c2f migrate: init at 3.7.2 2019-04-05 09:01:36 +02:00
Timo Kaufmann 7f22a42976 nauty: disable cpu feature detection 2019-04-04 14:54:55 +02:00
Timo Kaufmann 15045e6233 nauty: add timokau as a maintainer
I'm interested in this package as a sage dependency.
2019-04-04 14:54:31 +02:00
Timo Kaufmann 5880c449dd nauty: small refactoring 2019-04-04 14:54:05 +02:00
R. RyanTM 9f68f2a7dc verilator: 4.010 -> 4.012
Semi-automatic update generated by
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based on information from
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2019-04-03 13:43:11 -05:00
markuskowa e2ce5fd7fe
Merge pull request #58860 from r-ryantm/auto-update/quantum-espresso
quantum-espresso: 6.3 -> 6.4
2019-04-03 15:42:40 +02:00
Markus Kowalewski c109aaa5cb
quantum-espresso: remove outdated makefile fix 2019-04-03 15:00:17 +02:00
markuskowa 126e1f8fd0
Merge pull request #58538 from bzizou/stacks
stacks: init at 2.3e
2019-04-03 14:41:00 +02:00
Bruno Bzeznik e7899d2a00 stacks: init at 2.3e 2019-04-03 14:01:32 +02:00
R. RyanTM 882247fc3f quantum-espresso: 6.3 -> 6.4
Semi-automatic update generated by
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based on information from
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2019-04-02 15:30:36 -07:00
Timo Kaufmann 69555825f8
eclib: 20180815 -> 20190226 (#58801)
Needs a sage patch, see
https://trac.sagemath.org/ticket/27360.
2019-04-02 15:39:20 +00:00
Sébastien Maret 806a3fa2e6
gildas: 20190301_b -> 20190401_a 2019-04-02 09:04:39 +02:00
R. RyanTM 5f4e5553bc jmol: 14.29.31 -> 14.29.32 (#58698)
Semi-automatic update generated by
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based on information from
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2019-04-01 20:12:53 +00:00
John Ericson 4ccb74011f Merge commit '18aa59b0f26fc707e7313f8467e67159e61600c2' from master into staging
There was one conflict in the NixOS manual; I checked that it still
built after resolving it.
2019-04-01 00:40:03 -04:00
markuskowa c637aeff19
Merge pull request #58541 from luispedro/add_megahit
megahit: init at 1.1.4
2019-03-31 12:51:59 +02:00
Luis Pedro Coelho bf48451959 megahit: init at 1.1.4
This is widely used in bioinformatics for assembling genomes &
metagenomes
2019-03-31 05:56:14 +02:00
Dmitry Kalinkin ea757ac59f
Merge pull request #58108 from veprbl/pr/root5_fix
root5: fix build
2019-03-30 22:36:23 -04:00
R. RyanTM 893abe12e8 bowtie2: 2.3.4.3 -> 2.3.5 (#58014)
Semi-automatic update generated by
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based on information from
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2019-03-31 00:37:38 +01:00
Silvan Mosberger aadb1cbe26
Merge pull request #58494 from markuskowa/upd-octopus
octopus: 8.3 -> 8.4
2019-03-29 20:43:28 +01:00
markuskowa 7701fd7603
Merge pull request #58097 from r-ryantm/auto-update/ginac
ginac: 1.7.4 -> 1.7.5
2019-03-29 20:27:39 +01:00
Silvan Mosberger 030b845413
Merge pull request #58492 from markuskowa/upd-molden
molden: 5.9.3 -> 5.9.5
2019-03-29 20:16:08 +01:00
geistesk 5e6273df68 stellarium: 0.18.3 -> 0.19.0 2019-03-28 21:21:54 +01:00
markuskowa 403aa2dfed
Merge pull request #58180 from luzpaz/gmsh4.2.2
gmsh 4.2.1->4.2.2
2019-03-28 18:11:58 +01:00
Markus Kowalewski 3c19324e2a
octopus: 8.3 -> 8.4 2019-03-28 18:00:41 +01:00
Markus Kowalewski 6ea9c0243b
molden: 5.9.3 -> 5.9.5 2019-03-28 17:39:15 +01:00
R. RyanTM 2ce544a8b1 minimap2: 2.15 -> 2.16 (#57319)
Semi-automatic update generated by
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based on information from
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2019-03-27 23:25:52 +01:00
R. RyanTM 1b73fd1954 paml: 4.9h -> 4.9i (#57354)
Semi-automatic update generated by
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based on information from
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2019-03-27 15:44:21 +01:00
Bruno Bzeznik 00431493c0 itsx: init at 1.1.1 2019-03-26 15:52:35 +01:00
Joachim F c9cd1356ea
Merge pull request #56522 from bzizou/messer-slim
messer-slim: init at 3.2.1
2019-03-26 00:42:58 +00:00
Dmitry Kalinkin 9ba406ff1c
kicad: replace with3DPackages option with an override 2019-03-24 01:37:47 -04:00
Dmitry Kalinkin d0fc807347
kicad: make module list overridable
This moves module definition into passthru. Otherwise building kicad
would still require all modules to be built first even if they are not
used.

Also this drops preferLocalBuild from packages3d. hydraPlatforms should
do what we need to. preferLocalBuild would addtitionaly disable remote
builders, which is probably not what we want.
2019-03-24 01:37:46 -04:00
Gabriel Ebner 4446452347
Merge pull request #58163 from dtzWill/update/qalculate-3
libqalculate,qalculate-gtk: 2.9.0 -> 3.0.0
2019-03-23 18:50:24 +01:00
luz.paz 13158c692c gmsh 4.2.1->4.2.2 2019-03-23 12:51:12 -04:00
markuskowa b10799905c
Merge pull request #58162 from r-ryantm/auto-update/gromacs
gromacs: 2019 -> 2019.1
2019-03-23 12:29:48 +01:00
Frederik Rietdijk 23e431387b Merge staging-next into staging 2019-03-23 09:20:09 +01:00
Will Dietz 24484b216a qalculate-gtk: 2.9.0 -> 3.0.0
http://qalculate.github.io/news.html
2019-03-23 01:09:17 -05:00
R. RyanTM c70807aa13 gromacs: 2019 -> 2019.1
Semi-automatic update generated by
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based on information from
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2019-03-22 22:05:26 -07:00
Gabriel Ebner 11318d1ba2 elan: 0.7.4 -> 0.7.5 2019-03-22 11:16:44 +01:00
Jörg Thalheim 70d6db9097
Merge pull request #58065 from r-ryantm/auto-update/eagle
eagle: 9.1.2 -> 9.3.1
2019-03-22 07:22:58 +00:00
Wael M. Nasreddine 5af0780492
Merge remote-tracking branch 'origin/master' into staging
* origin/master: (693 commits)
  buildGoModule: use go_1_12 instead of go_1_11 (#58103)
  gitAndTools.lab: 0.15.2 -> 0.15.3 (#58091)
  signal-desktop: 1.22.0 -> 1.23.0
  added missing semicolon to documentation
  terminus_font_ttf: 4.46.0 -> 4.47.0
  buildGoModule: remove SSL env vars in favor of cacert in buildInputs (#58071)
  dav1d: init at 0.2.1
  dropbox-cli: 2018.11.28 -> 2019.02.14
  atlassian-confluence: 6.14.1 -> 6.14.2
  maintainers: update email for dywedir
  python.pkgs.hglib: use patch to specify hg path (#57926)
  chkrootkit: 0.52 -> 0.53
  radare2-cutter: 1.7.2 -> 1.8.0
  autorandr: 1.7 -> 1.8
  pythonPackages.pyhepmc: fix build
  llvm-polly/clang-polly: use latest llvm
  apulse: 0.1.11.1 -> 0.1.12, cleanup
  factorio: experimental 0.17.14 → 0.17.16 (#58000)
  sequeler: 0.6.7 -> 0.6.8
  nasc: 0.5.1 -> 0.5.2
  ...
2019-03-21 21:01:25 -07:00
R. RyanTM 34cba0b001 ginac: 1.7.4 -> 1.7.5
Semi-automatic update generated by
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based on information from
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2019-03-21 17:54:31 -07:00
R. RyanTM 6c14a2f3f8 eagle: 9.1.2 -> 9.3.1
Semi-automatic update generated by
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based on information from
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2019-03-21 10:40:06 -07:00
worldofpeace 0353967957 nasc: 0.5.1 -> 0.5.2
Main improvment is that libqalculatenasc.so is now properly linked

Changelog: https://github.com/parnold-x/nasc/compare/0.5.1...0.5.2
2019-03-20 23:10:33 -04:00
Gabriel Ebner 52c3ee6c4d elan: 0.7.2 -> 0.7.4 2019-03-20 13:33:24 +01:00
Dmitry Kalinkin c36f841ec7
root5: fix build 2019-03-20 00:26:13 -04:00
Timo Kaufmann 5fc5881221
sage: backport bugfix (#57794) 2019-03-17 14:36:01 +00:00
Timo Kaufmann 8fc3c033cb
pynac: 0.7.23 -> 0.7.24 (#57791)
Apparently some python3 related fixes: https://trac.sagemath.org/ticket/27241

Also switch to using pname.
2019-03-17 14:35:28 +00:00
Stephen a14a7d958f labelimg: fix build (#57714)
for #56826 see https://hydra.nixos.org/build/90477186/nixlog/2
2019-03-15 20:50:03 +01:00
Thibaut Marty 2f5439a950 kicad: fix #49089 by adding libraries files
This splits the KiCad package in several derivations:
- original package (main KiCad package)
- internationalization package
- templates
- schematic symbols libraries
- PCB footprints libraries
- 3D models libraries

From these derivations, 2 packages are exposed in top level:
- `kicad` (main KiCad package + all libraries except 3D models)
- `kicad-with-3dpackages` (kicad + all libraries)

The 3D models can also be installed separately with `kicad.packages3d`.
This prevents a new compilation of KiCad, but the user must set the
`KISYS3DMOD` environment variable or option accordingly.
2019-03-14 21:07:38 +01:00
Dmitry Kalinkin d5f97ae600
Merge pull request #57650 from stephengroat/patch-4
apmplanner2: fix build
2019-03-14 15:28:57 -04:00
Alex Branham 1e354a7e40 R: 3.5.2 -> 3.5.3
Closes https://github.com/NixOS/nixpkgs/pull/57400.
2019-03-14 19:50:37 +01:00
Stephen 08e4d7cf69 apmplanner2: fix build
see ArduPilot/apm_planner#1166
2019-03-14 11:23:20 -07:00