Timo Kaufmann
ce013bb430
Merge pull request #75613 from timokau/brial-1.2.6
...
brial: 1.2.5 -> 1.2.6, pybrial: use brial src
2019-12-13 21:47:50 +01:00
Timo Kaufmann
6a800927bb
pybrial: 1.2.3 -> 1.2.5, directly use the brial src
...
The pybrial package is a bit awkward. It doesn't have its own top-level
attribute, since it has a cyclic dependency with sage. That's one of the
reasons why it rarely gets updated. Its distributed along with brial, so
its best to keep the versions synchronized. The easiest way to do this
is to just re-use the source of brial.
2019-12-13 20:29:16 +01:00
Robert Scott
c676063047
btor2tools: correct meta information
2019-12-12 10:37:02 -06:00
Robert Scott
b9185a96be
boolector: add patch for CVE-2019-7560
2019-12-12 10:37:02 -06:00
markuskowa
3922a30090
Merge pull request #75416 from jbedo/bedtools
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bedtools: 2.29.0 -> 2.29.1
2019-12-10 23:58:03 +01:00
Justin Bedo
50fbca4bfc
bedtools: fix clang builds
2019-12-11 09:27:57 +11:00
Gabriel Ebner
5f1790101f
Merge branch 'auto-update/libqalculate'
2019-12-10 17:38:25 +01:00
Gabriel Ebner
12d9b6929c
qalculate-gtk: 3.5.0 -> 3.6.0
2019-12-10 17:34:29 +01:00
Justin Bedo
592d288aa2
bedtools: 2.29.0 -> 2.29.1
2019-12-10 13:24:27 +11:00
R. RyanTM
13c757e69c
snakemake: 5.7.4 -> 5.8.1 ( #74637 )
2019-12-09 20:47:24 +01:00
Robert Scott
2611887c2e
lingeling: enable for darwin
2019-12-08 18:32:04 +00:00
Robert Scott
dc6233b972
aiger: enable for darwin
2019-12-08 18:31:49 +00:00
Renato Alves
e18fb092f1
kssd: init at 1.0
2019-12-08 16:48:59 +01:00
R. RyanTM
b3262d2284
eagle: 9.5.0 -> 9.5.1
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/eagle/versions
2019-12-08 15:16:53 +01:00
scalavision
3dfabd6eff
svaba: init at 1.1.0
2019-12-08 14:51:05 +01:00
markuskowa
444256039c
Merge pull request #75245 from r-ryantm/auto-update/jmol
...
jmol: 14.29.55 -> 14.30.0
2019-12-08 14:19:56 +01:00
R. RyanTM
b40940e9d6
jmol: 14.29.55 -> 14.30.0
2019-12-08 04:52:52 -08:00
Maximilian Bosch
e16df73d30
geogebra: 5-0-560-0 -> 5-0-569-0
2019-12-08 03:50:02 +01:00
Jonathan Ringer
9dc8e77e4e
giac-with-xcas: fix build
...
remove libGLU_combined package and replace with libGL and libGLU
2019-12-07 16:58:50 -08:00
Calvin Pritchard
1850d616ac
NetLogo: 6.0.4 -> 6.1.1
2019-12-07 22:24:26 +01:00
R. RyanTM
8582e5a759
marvin: 19.1.0 -> 19.23.0
2019-12-07 20:41:41 +01:00
Mario Rodas
835705d11b
Merge pull request #75095 from tbenst/bftools
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bftools: 5.9.2 -> 6.3.0
2019-12-07 03:06:00 -05:00
Vincent Laporte
2942490c2c
coq_8_11: init at 8.11+β1
2019-12-07 07:58:00 +00:00
Tyler Benster
2700559bdc
bftools: 5.9.2 -> 6.3.0
2019-12-06 02:11:00 -08:00
Mateusz Kowalczyk
1451a52a38
Remove myself (fuuzetsu) from maintainer lists
...
I haven't been doing any maintenance for a long time now and not only
do I get notified, it also creates a fake impression that all these
packages had at least one maintainer when in practice they had none.
2019-12-05 16:29:48 +09:00
Matt Huszagh
9c7cd63b3d
symbiyosys: add yices dependency
...
Symbioyosys requires at least smt solver backend
to work out of the box.
2019-12-04 14:29:31 -06:00
Sébastien Maret
c108acaaaf
gildas: 20191001_a -> 20191201_a ( #73041 )
...
* gildas: 20191001_a -> 20191101_a
* gildas: 20191101_a -> 20191201_a
2019-12-04 20:18:39 +01:00
Timo Kaufmann
5c9000014e
Merge pull request #74945 from timokau/sage-no-timeout
...
sage: disable test timeout
2019-12-04 09:55:34 +01:00
Vincent Laporte
3806eff9ca
coq_8_10: 8.10.1 → 8.10.2
2019-12-03 13:51:52 +00:00
R. RyanTM
605e88517b
paml: 4.9i -> 4.9j
2019-12-01 18:43:58 +01:00
Timo Kaufmann
e371a02b6c
sage: disable test timeout
...
I already did that once in 359bf7f1e3
.
That change mysteriously got lost somehow (presumably in some merge
commit).
Nix has its own timeout settings, so there is no risk in running
forever. At the same time, some tests can exceed the default timeout
(30minutes per file for --long tests) when run on many weak cores (like
the aarch64 community builder or some hydra builders).
2019-12-01 13:23:54 +01:00
Jan Tojnar
8cbc862b83
dconf: move to top-level
2019-12-01 01:01:40 +01:00
R. RyanTM
9e52523747
verilator: 4.020 -> 4.022
2019-11-30 18:27:06 -05:00
R. RyanTM
c41deafba3
gtkwave: 3.3.102 -> 3.3.103
2019-12-01 00:21:13 +01:00
R. RyanTM
da09e1e772
kallisto: 0.46.0 -> 0.46.1 ( #74430 )
2019-11-30 21:12:54 +01:00
Jan Tojnar
a69ad18da9
Merge branch 'master' into staging-next
2019-11-30 19:44:51 +01:00
R. RyanTM
98e0ead3ba
picard-tools: 2.21.1 -> 2.21.3 ( #74528 )
2019-11-30 16:24:44 +01:00
Frederik Rietdijk
d14baf7747
Merge master into staging-next
2019-11-30 08:57:28 +01:00
Ryan Mulligan
bc6b377a86
Merge pull request #74412 from r-ryantm/auto-update/hmmer
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hmmer: 3.2.1 -> 3.3
2019-11-28 06:14:56 -08:00
Jonathan Ringer
0c1c18ca44
Merge branch 'master' into staging-next
2019-11-27 22:57:50 -08:00
R. RyanTM
6563dd3351
hmmer: 3.2.1 -> 3.3
2019-11-27 18:40:23 -08:00
Matthew Bauer
e010c1b031
Merge pull request #74092 from veprbl/pr/applgrid_fix
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applgrid: fix build
2019-11-25 22:22:48 -06:00
John Ericson
d60532bc71
coq: Fix setup hook
2019-11-25 14:20:10 +00:00
Dmitry Kalinkin
bd0c4dd6ab
root: fix setupHook to work with "set -u"
2019-11-24 17:51:46 -05:00
Frederik Rietdijk
1d18c5a0fe
Merge staging-next into staging
2019-11-24 10:13:31 +01:00
Michael Raskin
c5e3aec122
golly: fix build
2019-11-22 17:41:46 +01:00
Kai Wohlfahrt
6b2504f9f2
freebayes: 2017-08-23 -> 1.3.1 (2019-06-03)
2019-11-20 09:10:31 -08:00
Frederik Rietdijk
5f8b0d7d99
Merge staging-next into staging
2019-11-19 14:53:29 +01:00
adisbladis
c9d8624ccd
treewide: Get rid of libGLU_combined
2019-11-18 20:10:43 +00:00
Mario Rodas
9f9720a567
Merge pull request #73447 from yrashk/streamlit-0.50.2
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streamlit: 0.49.0 -> 0.50.2
2019-11-16 14:51:06 -05:00
c0bw3b
9367367dfd
Treewide: fix URL permanent redirects
...
Permanent redirects on homepages and/or source URLs
as reported by Repology
2019-11-16 01:41:23 +01:00
Jörg Thalheim
d729fdcd6e
nifticlib and niftseg: change platform from linux to unix sinc… ( #73442 )
...
nifticlib and niftseg: change platform from linux to unix since these…
2019-11-15 11:57:17 +00:00
Yurii Rashkovskii
a1a2d8d4c0
streamlit: 0.49.0 -> 0.50.2
2019-11-15 08:35:43 +01:00
Ben Darwin
736860d34b
nifticlib and niftseg: change platform from linux to unix since these build on OSX
2019-11-14 21:25:10 -05:00
Guanpeng Xu
66d5277375
mathematica: fix version issue with zlib ( #73425 )
2019-11-14 17:19:30 -05:00
Dmitry Kalinkin
93ee8095b0
snakemake: 5.4.4 -> 5.7.4 ( #72929 )
...
(#72929 )
2019-11-13 00:46:56 +01:00
Renaud
630380651d
Merge pull request #73215 from vbgl/why3-1.2.1
...
why3: 1.2.0 → 1.2.1
2019-11-13 00:12:05 +01:00
Dmitry Kalinkin
a84607a0e9
eagle: use mkDerivation provided by qt5
2019-11-12 11:21:06 -05:00
Vincent Laporte
a61354f262
why3: 1.2.0 → 1.2.1
2019-11-11 11:30:52 +00:00
Matthew Bauer
5ebd36403e
Merge pull request #70641 from maggesi/rename-z77z-into-maggesi
...
Rename z77z into maggesi
2019-11-07 17:18:20 -05:00
Matthew Bauer
551d9f632d
Merge pull request #72954 from nkpart/nkpart/R-darwin-enable-tcltk
...
R: enable tcltk on darwin
2019-11-07 16:49:46 -05:00
Yurii Rashkovskii
2e52f98ddb
streamlit: init at 0.49.0
2019-11-06 11:01:06 -08:00
Timo Kaufmann
afb9887dbd
sage: backport fix for threejs r109
2019-11-06 14:40:16 +01:00
Timo Kaufmann
f64885b9ca
sage: fix pkgconfig errors in tests
...
python.pkgs.pkgconfig raises an exception on missing packages since
version 1.5.0. Previously those errors were just silently ignored. That
worked fine, since the packages are only missing at runtime (when they
are not really needed) but present at buildtime.
Since this fails the tests now, we just add the packages to
PKG_CONFIG_PATH at runtime. This does not add additional runtime
dependencies. Still, it would be nicer if the sage testssuite would not
test the buildsystem at runtime in the first place.
The breakage was originally caused by the pkgconfig update in
1efa71616f
.
2019-11-06 14:40:13 +01:00
Timo Kaufmann
da7ec1c139
sage: ignore werkzeug immutable dict deprecation
2019-11-06 14:40:13 +01:00
Timo Kaufmann
f85ce834ce
sage: ignore deprecation warnings in rst2sws
...
Needs to be fixed upstream (by werkzeug, twisted). Doesn't impact the
functionality and the tests are soon to be removed with the py3 update
anyway.
2019-11-06 14:40:13 +01:00
Timo Kaufmann
af480796c9
sage: ignore cmp deprecation in sagenb
2019-11-06 14:40:13 +01:00
Nick Partridge
22d0ccbd2d
R: enable tcltk on darwin
2019-11-06 13:14:11 +10:00
R. RyanTM
b7f151df70
yacas: 1.6.1 -> 1.8.0
2019-11-04 23:49:42 -08:00
Franz Pletz
18ab125e83
minisatUnstable: fix build with gcc9
2019-11-05 02:01:18 +01:00
Franz Pletz
8dca8b9ccb
Merge remote-tracking branch 'origin/master' into gcc-9
2019-11-05 01:07:22 +01:00
Franz Pletz
6c3f824540
minisat: fix build with gcc9
2019-11-04 23:07:58 +01:00
scalavision
d9b40f6397
deeptools: init at 3.3.1
2019-11-04 02:42:36 -08:00
Franz Pletz
6b10b78872
Merge remote-tracking branch 'origin/master' into gcc-9
2019-11-03 14:44:12 +01:00
Franz Pletz
8e63a6cd13
niftyreg: fix build with gcc9
2019-11-03 14:43:37 +01:00
Franz Pletz
dffcb87383
colmap: fix build with gcc9
2019-11-03 14:43:33 +01:00
R. RyanTM
28b0a6a9e0
star: 2.7.2b -> 2.7.3a
2019-11-03 10:23:05 +01:00
R. RyanTM
1faee87692
dcmtk: 3.6.4 -> 3.6.5
2019-11-02 11:12:28 -07:00
Franz Pletz
e39773fe5b
megahit: 1.1.4 -> 1.2.9
2019-11-02 15:53:57 +01:00
Gabriel Ebner
ac24901d17
libqalculate: 3.4.0 -> 3.5.0 ( #72550 )
...
libqalculate: 3.4.0 -> 3.5.0
2019-11-02 10:59:06 +01:00
Gabriel Ebner
a4f0bfdc87
qalculate-gtk: 3.4.0 -> 3.5.0
2019-11-02 10:54:10 +01:00
Jörg Thalheim
04a079082c
Merge pull request #72539 from r-ryantm/auto-update/jmol
...
jmol: 14.29.54 -> 14.29.55
2019-11-02 07:49:50 +00:00
R. RyanTM
b3799c5627
jmol: 14.29.54 -> 14.29.55
2019-11-02 00:16:58 -07:00
R. RyanTM
7f919914bf
eprover: 2.3 -> 2.4
2019-11-01 14:00:31 -07:00
Timo Kaufmann
f7c1e8f274
Merge pull request #72328 from timokau/sage-ignore-cmp-deprecation
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sage: ignore attrs deprecation warning
2019-10-30 23:14:07 +01:00
Timo Kaufmann
32827e35d8
sage: ignore attrs deprecation warning
...
cmp is deprecated since attrs 19.2.0:
http://www.attrs.org/en/19.2.0/changelog.html
The deprecation warning breaks the doctests. Fortunately they have a
rather long deprecation window, so we can just wait until upstream(s)
fix this.
2019-10-30 22:27:00 +01:00
Peter Simons
3bc76218a3
Merge pull request #72058 from nh2/r-static-library
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R: Add enableShared/enableStatic arguments
2019-10-30 13:31:52 +01:00
Niklas Hambüchen
edbe2d8145
R: Add static argument.
...
R's autoconf does not use the normal configure flags for that.
2019-10-30 11:44:02 +01:00
Ben Darwin
ddc2955ad9
EZminc: 2017-08-29 -> 2019-07-25; mark unbroken
2019-10-26 09:55:30 -07:00
Alexey Shmalko
140d402cb5
Merge pull request #71991 from iimog/dcmtk
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DCMTK: init at 3.6.4
2019-10-26 15:15:50 +03:00
Markus Ankenbrand
905245b32c
dcmtk: init at 3.6.4
2019-10-26 13:02:50 +02:00
Vincent Laporte
a8892b0d76
coq_8_10: 8.10.0 → 8.10.1
2019-10-25 07:58:47 +00:00
Vincent Laporte
d56582eb2b
coq_8_10: enable CoqIDE
2019-10-25 07:58:02 +00:00
scalavision
535a7006ea
truvari: init at 1.3.2 ( #70877 )
...
pythonPackages.pyvcf: init at 0.6.8
2019-10-24 17:06:42 -04:00
R. RyanTM
c6af1f6e03
verilator: 4.018 -> 4.020
...
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
2019-10-24 14:02:00 -05:00
R. RyanTM
c300055e11
ott: 0.28 -> 0.29
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ott/versions
2019-10-23 11:44:13 -07:00
R. RyanTM
b8acb48b24
picard-tools: 2.20.8 -> 2.21.1 ( #71748 )
...
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
2019-10-23 09:34:40 +02:00
R. RyanTM
a9551de99a
dcm2niix: 1.0.20190410 -> 1.0.20190902
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/dcm2niix/versions
2019-10-22 16:31:19 -07:00
Timo Kaufmann
ed145e8f22
Merge pull request #71694 from r-ryantm/auto-update/nauty
...
nauty: 26r11 -> 26r12
2019-10-22 23:33:48 +02:00
R. RyanTM
d93659ffa0
nauty: 26r11 -> 26r12
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/nauty/versions
2019-10-22 10:14:36 -07:00
R. RyanTM
dbab6b7994
jmol: 14.29.53 -> 14.29.54
...
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
2019-10-22 10:06:52 +02:00
Mario Rodas
e8e1f42499
Merge pull request #71590 from r-ryantm/auto-update/ginac
...
ginac: 1.7.7 -> 1.7.8
2019-10-21 20:21:31 -05:00
R. RyanTM
bf30d5d6f6
ginac: 1.7.7 -> 1.7.8
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ginac/versions
2019-10-21 15:21:33 -07:00
Michael Raskin
a35022aa80
Merge pull request #71566 from r-ryantm/auto-update/golly
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golly: 3.2 -> 3.3
2019-10-21 19:41:50 +00:00
R. RyanTM
b73b9399ba
golly: 3.2 -> 3.3
...
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
2019-10-21 11:24:52 -07:00
Renaud
410d794f05
Merge pull request #71073 from nyanloutre/betaflight_configurator_10_6_0
...
betaflight-configurator: 10.5.1 -> 10.6.0
2019-10-20 20:01:00 +02:00
Ben Wolsieffer
8d04355d87
qgroundcontrol: 3.3.0 -> 3.5.5, fix build ( #71308 )
...
* qgroundcontrol: 3.3.0 -> 3.5.4, fix build
* qgroundcontrol: 3.5.4 -> 3.5.5
2019-10-20 19:27:23 +02:00
Emily
fecfbe18bd
symbiyosys: 2019.08.13 -> 2019.10.11
2019-10-19 12:26:49 -05:00
Daniel Frank
b4136a8f5b
kicad: 5.1.2 -> 5.1.4, fix ngspice, mark broken on aarch64 ( #69584 )
2019-10-16 02:02:49 -04:00
Vincent Laporte
b4db381443
coq_8_10: 8.10+β3 → 8.10.0
...
coqPackages.coq-elpi: master → 1.1.0
2019-10-16 02:43:46 +00:00
Vincent Laporte
0cc70b5697
coq: do not build CoqIDE for Coq 8.10
...
GTK3 at version 3.24.11 has broken pkg-config files
2019-10-16 02:43:46 +00:00
Vincent Laporte
1292f49a37
coq_8_10: do not take “camlp5” as input
2019-10-16 02:43:46 +00:00
Vincent Laporte
325f89ef19
coq_8_10: fix CoqIDE on darwin
2019-10-16 02:43:46 +00:00
worldofpeace
4bcef38f24
Merge pull request #63827 from acairncross/fix-monosat
...
monosat: Fix Linux build
2019-10-15 20:55:28 +00:00
Aiken Cairncross
15dbd8de7c
monosat: 60528a3 -> 1.8.0
...
This fixes the broken Linux build by only building the dynamic library/
executable (an option that was only added in the latest tagged version).
2019-10-15 16:52:25 -04:00
Aiken Cairncross
b4da391ade
monosat: Add self as maintainer
2019-10-15 12:20:55 +01:00
Millian Poquet
5b9cbeb75c
simgrid: 3.23 -> 3.24
2019-10-14 16:08:43 +02:00
Marco Maggesi
24d0bd37b5
Merge branch 'master' into rename-z77z-into-maggesi
2019-10-13 18:06:23 +02:00
Renaud
e6f99fa3b1
Merge pull request #69961 from r-ryantm/auto-update/star
...
star: 2.7.1a -> 2.7.2b
2019-10-13 17:10:23 +02:00
nyanloutre
d849c213ba
betaflight-configurator: 10.5.1 -> 10.6.0
2019-10-13 11:58:00 +02:00
Renaud
94500c93dc
Merge pull request #69515 from r-ryantm/auto-update/eagle
...
eagle: 9.4.2 -> 9.5.0
2019-10-12 15:09:07 +02:00
Renaud
a12f3ebee7
Merge pull request #69488 from r-ryantm/auto-update/clp
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clp: 1.17.2 -> 1.17.3
2019-10-12 14:15:31 +02:00
scalavision
3d860972ee
delly: init at 0.8.1 ( #70871 )
2019-10-10 22:08:45 -04:00
worldofpeace
dfe338e464
Merge pull request #70890 from worldofpeace/pantheon-no-lts-vala
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pantheon: use latest vala
2019-10-10 15:18:38 +00:00
Marek Mahut
19610dce34
Merge pull request #70790 from r-ryantm/auto-update/stellarium
...
stellarium: 0.19.1 -> 0.19.2
2019-10-10 11:21:55 +02:00
worldofpeace
bdb851ee2d
pantheon: use latest vala
...
elementary OS's ecosystem is curated around Ubuntu's LTS releases.
This means the development platform for their curated applications
always includes a LTS version of vala (in 18.04 it's 0.40).
Because of how vala development works it suspect some of these
applications to have serious issues if complied with the latest vala.
However in the past year or so, for Pantheon at least, I don't think
their applications will have much issues with latest vala, and if there
is I don't think they'd be difficult to fix. In this single regard they've
become more responsive since their preferred language is vala.
As for the curated applications I have less of this confidence in.
So I'd have to be accept less applications, but that's something
I'm willing to compromise on. And this is easily reversible or
could be done on a per-application basis. And nix already makes
this trivial.
2019-10-09 22:47:37 -04:00
Robin Gloster
d6d4a6b456
Merge pull request #70845 from BenBals/master
...
Geogebra: 5.0.535 -> 5.0.560
2019-10-09 17:36:35 +02:00
Luz
ec13398cdf
librepcb: 0.1.0 -> 0.1.2 ( #70538 )
...
* Update to new source
* Fix message 'xcb plugin not found'
2019-10-09 14:59:48 +02:00
Ben Justus Bals
911d5d59ec
Geogebra: 5.0.535 -> 5.0.560
2019-10-09 11:59:46 +02:00
Marco Maggesi
bf56c15695
hol_light: 2019-03-27 -> 2019-10-06
2019-10-09 06:13:48 +00:00
R. RyanTM
a174411c3c
stellarium: 0.19.1 -> 0.19.2
...
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
2019-10-08 14:17:20 -07:00
Linus Heckemann
5aa4b19946
treewide: mark some broken packages as broken
...
Refs:
e675498026
1e9cc5b984
793a2fe1e8
c19cf65261
f6544d618f
2019-10-08 17:14:26 +02:00
R. RyanTM
9ac905e03f
gtkwave: 3.3.101 -> 3.3.102
...
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
2019-10-07 12:18:42 -05:00
Marco Maggesi
ff1ed720e2
Rename z77z into maggesi
...
Make the "handle" of the maintainer match the name of the github account.
Also update the email address.
2019-10-07 17:05:25 +02:00
markuskowa
86d97bb02c
Merge pull request #70602 from r-ryantm/auto-update/gromacs
...
gromacs: 2019.3 -> 2019.4
2019-10-07 14:43:39 +02:00
Markus Kowalewski
ea45dc1053
gromacs: add perl to buildInputs
2019-10-07 13:03:13 +02:00
R. RyanTM
8c6ee4fe16
gromacs: 2019.3 -> 2019.4
...
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
2019-10-07 02:48:46 -07:00
Dmitry Kalinkin
cfd881dce0
Merge pull request #70161 from smaret/gildas-20191001_a
...
gildas: 20190901_a -> 20191001_a
2019-10-06 17:46:41 -04:00
Nikolay Amiantov
de171ba0c6
cntk: partially unbreak
...
* Use GCC 7 to unbreak the build;
* Mark CUDA build as broken due to cub incompatibility.
2019-10-05 16:18:20 +03:00
Orivej Desh
3dc70841d3
cbc: 2.10.2 -> 2.10.3
2019-10-04 05:17:48 +00:00
Bruno Bzeznik
1ba3f3f00f
SPAdes: init at 3.13.1 ( #63082 )
2019-10-03 09:18:48 +00:00
R. RyanTM
eca416c469
verilator: 4.016 -> 4.018
...
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
2019-10-01 21:09:12 -05:00
Sébastien Maret
b444b2e956
gildas: 20190901_a -> 20191001_a
2019-10-01 10:52:50 +02:00
Timo Kaufmann
7a7e9c1b27
Merge pull request #64193 from timokau/sage-8.9
...
sage: 8.8 -> 8.9
2019-09-30 11:13:46 +00:00
Timo Kaufmann
d9176bee70
sage: 8.9.rc1 -> 8.9
2019-09-30 11:10:10 +02:00
Ryan Mulligan
8519cd1aa0
Merge pull request #69735 from r-ryantm/auto-update/picard-tools
...
picard-tools: 2.20.5 -> 2.20.8
2019-09-29 15:44:33 -07:00
R. RyanTM
de95a92384
star: 2.7.1a -> 2.7.2b
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/star/versions
2019-09-28 21:09:40 -07:00
Emily
b2c482b700
verilog: extend platforms
2019-09-28 16:55:21 -05:00
Vladimír Čunát
fda4a08d4a
Merge branch 'staging-next'
...
There are several security fixes - again, as it consists mainly of the
previously reverted staging-next merge.
2019-09-28 07:43:04 +02:00
R. RyanTM
8c397c2bc2
picard-tools: 2.20.5 -> 2.20.8
...
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
2019-09-27 18:25:22 -07:00
Aaron Andersen
af5176b430
Merge pull request #63117 from bzizou/macse
...
macse: init at 2.03
2019-09-27 17:26:07 -04:00
Vladimír Čunát
217cf982c7
Merge branch 'master' into staging-next
2019-09-27 22:13:02 +02:00
Marek Mahut
5c116916d6
Merge pull request #69575 from r-ryantm/auto-update/ginac
...
ginac: 1.7.6 -> 1.7.7
2019-09-27 22:04:49 +02:00
Michael Raskin
2213e53fcf
Merge pull request #69477 from r-ryantm/auto-update/clingo
...
clingo: 5.3.0 -> 5.4.0
2019-09-27 10:12:24 +00:00
Timo Kaufmann
6181a20ab2
Merge pull request #69609 from r-ryantm/auto-update/jmol
...
jmol: 14.29.49 -> 14.29.53
2019-09-27 09:22:11 +00:00
Joachim F
ad773d31e2
Merge pull request #69345 from joachifm/feat/split-version
...
Replace uses of splitString for splitting version strings
2019-09-27 06:19:18 +00:00
R. RyanTM
0826d695de
jmol: 14.29.49 -> 14.29.53
...
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
2019-09-26 16:35:12 -07:00
R. RyanTM
b7f156625e
ginac: 1.7.6 -> 1.7.7
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/ginac/versions
2019-09-26 12:09:29 -07:00
Timo Kaufmann
4a863fa567
Merge pull request #69519 from r-ryantm/auto-update/eclib
...
eclib: 20190226 -> 20190909
2019-09-26 17:27:41 +00:00
Joachim Fasting
bad07dfac5
tree-wide: replace uses of splitString "." with lib.versions
...
Quoting from the splitString docstring:
NOTE: this function is not performant and should never be used.
This replaces trivial uses of splitString for splitting version
strings with the (potentially builtin) splitVersion.
2019-09-26 17:42:49 +02:00
R. RyanTM
faf9a73e2f
eclib: 20190226 -> 20190909
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/eclib/versions
Relevant sage upstream ticket: https://trac.sagemath.org/ticket/28472
2019-09-26 16:41:50 +02:00
R. RyanTM
24db075c5c
eagle: 9.4.2 -> 9.5.0
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/eagle/versions
2019-09-26 05:34:41 -07:00
R. RyanTM
7653ff45cb
clp: 1.17.2 -> 1.17.3
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/clp/versions
2019-09-26 01:49:26 -07:00
Jörg Thalheim
9a1b767a55
treewide: remove empty buildInputs
2019-09-26 09:17:23 +01:00
R. RyanTM
f54eb7f159
clingo: 5.3.0 -> 5.4.0
...
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
2019-09-26 01:07:35 -07:00
Dmitry Kalinkin
c455adcc42
Merge branch 'master' into staging-next
...
Fixes eval on darwin after #69072
Resolved conflict in pkgs/tools/security/thc-hydra/default.nix
Basically had to revert a1c0e10564
which
adapts #69210 to master that doesn't yet have
329a88efa7
Tested using maintainers/scripts/eval-release.sh before and after to see
that the fix works
2019-09-25 19:21:46 -04:00
Timo Kaufmann
78741fc409
sage: 8.9.rc0 -> 8.9.rc1
2019-09-25 10:19:04 +02:00
Timo Kaufmann
1797c9c295
sage: 8.9.beta9 -> 8.9.rc0
...
Sage now by default expects the lcalc library to be named Lfunction
(instead of libLfunction). This could be changed by an environment
variable (https://trac.sagemath.org/ticket/28224 ), but various distros
seem to agree on this standard
(https://groups.google.com/forum/#!topic/sage-packaging/xvh55IxHTZg ) so
it's best just to follow it. The old standard was set by sage anyway and
sage is the only consumer of lcalc in nixpkgs.
2019-09-24 17:51:09 +02:00
Kierán Meinhardt
815d940e52
tamarin-prover: mark as broken because upstream is broken
2019-09-24 15:25:43 +02:00
Bruno Bzeznik
e4108becbe
macse: init at 2.03
2019-09-24 08:24:07 +02:00
Vladimír Čunát
eab41878ac
Merge branch 'master' into staging-next
2019-09-24 08:14:34 +02:00
Timo Kaufmann
ba9e5a2785
Merge remote-tracking branch 'upstream/master' into sage-8.9
2019-09-23 23:58:37 +02:00
Timo Kaufmann
995a728684
pynac: 0.7.25 -> 0.7.26
2019-09-23 22:08:23 +02:00
Timo Kaufmann
5aba3be6f9
sage: 8.9.beta8 -> 8.9.beta9
2019-09-23 18:50:59 +02:00
Timo Kaufmann
8593d468ae
Merge remote-tracking branch 'upstream/master' into sage-8.9
2019-09-23 17:11:15 +02:00
Timo Kaufmann
cbe12344ca
sage: add pager to environment
...
Temporary fixup while waiting for an upstream fix.
2019-09-23 15:14:43 +02:00
Vladimír Čunát
22a216849b
Re-Revert "Merge branch 'staging-next'"
...
This reverts commit f8a8fc6c7c
.
2019-09-22 09:38:09 +02:00
Vladimír Čunát
f8a8fc6c7c
Revert "Merge branch 'staging-next'"
...
This reverts commit 41af38f372
, reversing
changes made to f0fec244ca
.
Let's delay this. We have some serious regressions.
2019-09-21 20:05:09 +02:00
Vladimír Čunát
41af38f372
Merge branch 'staging-next'
2019-09-21 13:14:09 +02:00
Matthew Bauer
566796ab13
Merge pull request #69038 from matthewbauer/ncurses5
...
treewide: use libtinfo.so.5 where needed
2019-09-20 23:00:04 -04:00
Bjørn Forsman
5af0d0b5da
kicad: fix build
...
Fix configure time error:
...
ImportError: No module named wx
CMake Error at CMakeModules/FindwxPython.cmake:52 (message):
wxPython/Phoenix does not appear to be installed on the system
Only build tested.
Fixes: f7e28bf5d8
("Split buildPythonPackage into setup hooks")
2019-09-20 08:17:58 +02:00
Will Dietz
6429696f43
libqalculate,qalculate-gtk: 3.3.0 -> 3.4.0
2019-09-18 17:05:59 -05:00
Matthew Bauer
4c85abae94
treewide: use libtinfo.so.5 where needed
...
This was originally added in
https://github.com/NixOS/nixpkgs/pull/21350
best to use this name for clarity.
2019-09-18 13:57:20 -04:00
Vladimír Čunát
fa4a3af5a7
Merge branch 'master' into staging-next
2019-09-16 19:24:52 +02:00
Vincent Laporte
8288301636
coq_8_10: 8.10+β2 → 8.10+β3
2019-09-16 11:41:43 -05:00
Aaron Andersen
063c82fd2f
Merge pull request #68773 from mimame/update/cytoscape-3.7.2
...
cytoscape: 3.7.1 -> 3.7.2
2019-09-15 09:43:11 -04:00
Vladimír Čunát
b6c6e1f9e8
Merge branch 'master' into staging-next
2019-09-15 13:18:54 +02:00
Vladimír Čunát
991c0e1618
treewide: mark packages as buildable on darwin (PR #45364 )
...
vcunat amended the commit a bit; see the PR for details/discussion.
2019-09-15 10:50:08 +02:00
Miguel Madrid Mencía
148c82e07e
maintainer: mimadrid: update github username and personal data
2019-09-14 12:15:46 +02:00
Miguel Madrid Mencía
40b760e07c
cytoscape: 3.7.1 -> 3.7.2
2019-09-14 10:52:46 +02:00
Linus Heckemann
f6182da2c6
ants: use itk 4.x
2019-09-13 11:54:21 +02:00
Jan Tojnar
9b6789de73
tree-wide: replace wrapProgram with wrapGApp
...
where appropriate
2019-09-10 17:54:57 +02:00
Izorkin
329a88efa7
treewide: replace mysql.connector-c to libmysqlclient
2019-09-09 15:55:34 +03:00
volth
7b8fb5c06c
treewide: remove redundant quotes
2019-09-08 23:38:31 +00:00
Frederik Rietdijk
5f4734b1dd
Merge remote-tracking branch 'upstream/gcc-8' into staging-next
...
Earlier the gcc8 branch was merged instead of the gcc-8 branch (note the dash)...
2019-09-08 20:44:26 +02:00
Michael Raskin
4149a662a7
petrinizer: fix build by pinning the neccessary library versions
2019-09-07 13:33:50 +03:00
Frederik Rietdijk
66bc7fc1b3
Merge master into staging-next
2019-09-06 22:46:05 +02:00
Justin Bedo
6beabe7d2c
bedtools: 2.28.0 -> 2.29.0
2019-09-06 21:23:15 +02:00
Dmitry Kalinkin
d6264f9094
Merge pull request #65726 from smaret/gildas-20190801_a
...
gildas: 20190701_a -> 20190901_a
2019-09-06 11:15:45 -04:00
Jan Tojnar
cdf426488b
Merge branch 'master' into staging-next
...
Fixed trivial conflicts caused by removing rec.
2019-09-06 03:20:09 +02:00
Jan Tojnar
ed54a5b51d
Merge branch 'gtk-no-plus'
2019-09-06 02:57:51 +02:00
Jan Tojnar
72e7d569a7
tree-wide: s/GTK+/GTK/g
...
GTK was renamed.
2019-09-06 02:54:53 +02:00
Aaron Andersen
11de7aa609
Merge pull request #64322 from jbedo/xenomapper
...
xenomapper: init 1.0.2
2019-09-05 12:08:10 -04:00
Justin Bedo
3f83cbf538
xenomapper: init 1.0.2
2019-09-05 20:50:22 +10:00
Sébastien Maret
4f3eacc2bf
gildas: 20190701_a -> 20190901_a
2019-09-05 12:30:46 +02:00
Vladimír Čunát
4aad2947f8
Merge branch 'master' into staging-next
2019-09-04 11:00:56 +02:00
Franz Pletz
de85797565
Merge remote-tracking branch 'origin/master' into gcc-8
2019-09-03 22:15:07 +02:00
worldofpeace
59e68d3b74
treewide: don't use single quotes with placeholder
2019-09-03 13:01:42 -04:00
Timo Kaufmann
84578046aa
sage: 8.9.beta7 -> 8.9.beta8
2019-09-03 15:34:28 +02:00
Ryan Mulligan
32f9c619f5
Merge pull request #67969 from petabyteboy/feature/remove-dobuild
...
treewide: remove uses of doBuild and doConfigure
2019-09-02 15:13:47 -07:00
Milan Pässler (work)
185fd61631
treewide: remove uses of doBuild and doConfigure
...
doBuild and doConfigure are not actually used by any builders, they were
probably added by mistake and just confuse people.
2019-09-02 23:42:12 +02:00
Vladimír Čunát
f21211ebfe
Merge branch 'master' into staging
2019-09-02 23:25:24 +02:00
Emily
d1dfaa79e3
symbiyosys: fix path to bash (again)
...
/usr/bin/env works on NixOS normally, but previously sby would fail if
used from inside the Nix sandbox.
2019-09-01 14:22:49 -05:00
Tadeo Kondrak
2aa9b655f4
kallisto: 0.43.1 -> 0.46.0
2019-08-31 14:06:31 -06:00
Frederik Rietdijk
98ef78326d
Merge staging-next into staging
2019-08-31 18:07:33 +02:00
Frederik Rietdijk
96e5474329
Merge master into staging-next
2019-08-31 18:04:31 +02:00
Alyssa Ross
1da1a7a479
pari: 2.11.1 -> 2.11.2
2019-08-31 13:33:00 +00:00
Niklas Hambüchen
9e78f76ade
treewide: Remove unnecessary --disable-static
( #66759 )
...
* freetype: Remove unnecessary `--disable-static`.
The true-by-default `dontDisableStatic` already takes care of it.
Fixes freetype not being overridable to have static libs.
* treewide: Remove unnecessary `--disable-static`.
The true-by-default `dontDisableStatic` already takes care of it.
Fixes these packages not being overridable to have static libs.
2019-08-31 08:10:53 -04:00
Alexander
35ac3344e7
colmap: init at 3.5 ( #67759 )
...
* colmap: init at 3.5
2019-08-31 08:06:46 -04:00
volth
7bb6b373ab
treewide: name -> pname ( #67513 )
2019-08-31 07:41:22 -04:00
Lassulus
a8d26fc34a
Merge pull request #63127 from bzizou/trimal
...
trimal: init at 1.4.1
2019-08-31 13:04:41 +02:00
Frederik Rietdijk
ad1d58c622
Merge staging-next into staging
2019-08-31 10:04:20 +02:00
Frederik Rietdijk
fc74ba8291
Merge master into staging-next
2019-08-31 09:50:38 +02:00
volth
08f68313a4
treewide: remove redundant rec
2019-08-28 11:07:32 +00:00
Frederik Rietdijk
5061fe0c2c
Merge staging-next into staging
2019-08-28 08:26:42 +02:00
Léo Gaspard
8a4721d606
Merge pull request #64669 from luispedro/add_sortmerna
...
sortmerna: init at 3.0.3
2019-08-27 17:19:53 +02:00
Frederik Rietdijk
98640fd482
Merge master into staging-next
2019-08-27 16:36:47 +02:00
Luis Pedro Coelho
bc22c2e07f
sortmerna: init at 3.0.3
...
This is a useful package in bioinformatics, namely in processing
short-read sequencing data from metagenomes
2019-08-27 00:37:43 +02:00
volth
35d68ef143
treewide: remove redundant quotes
2019-08-26 21:40:19 +00:00
Jonathan Ringer
6f279584fd
stp: 2.2.0 -> 2.3.3
2019-08-26 14:00:48 -07:00
Robin Gloster
616b8343c4
Merge remote-tracking branch 'upstream/master' into gcc-8
2019-08-25 18:55:46 +02:00
Vladimír Čunát
985d1ac425
Merge branch 'master' into staging-next
...
There were several more conflicts from name -> pname+version;
all auto-solved by kdiff3, hopefully OK.
Hydra nixpkgs: ?compare=1538611
2019-08-25 14:57:11 +02:00
Gabriel Ebner
440c63a38a
vampire: 4.2.2 -> 4.4
2019-08-25 14:43:51 +02:00
Nikolay Amiantov
9015d7a4f1
sumorobot-manager: init at 0.9.0
2019-08-24 19:11:27 +03:00
Vladimír Čunát
2e6bf42a22
Merge branch 'master' into staging-next
...
There ver very many conflicts, basically all due to
name -> pname+version. Fortunately, almost everything was auto-resolved
by kdiff3, and for now I just fixed up a couple evaluation problems,
as verified by the tarball job. There might be some fallback to these
conflicts, but I believe it should be minimal.
Hydra nixpkgs: ?compare=1538299
2019-08-24 08:55:37 +02:00
Emily
05c54717f8
symbiyosys: extend platforms
2019-08-23 02:14:40 -05:00
Marek Mahut
44d43368cb
Merge pull request #67155 from r-ryantm/auto-update/tulip
...
tulip: 5.1.0 -> 5.2.1
2019-08-21 21:40:06 +02:00
R. RyanTM
187ec1a8c6
tulip: 5.1.0 -> 5.2.1
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/tulip/versions
2019-08-20 19:45:43 -07:00
Marek Mahut
51980d6830
Merge pull request #67019 from r-ryantm/auto-update/picard-tools
...
picard-tools: 2.20.4 -> 2.20.5
2019-08-20 20:15:31 +02:00
R. RyanTM
41571dc81a
picard-tools: 2.20.4 -> 2.20.5
...
Semi-automatic update generated by
https://github.com/ryantm/nixpkgs-update tools. This update was made
based on information from
https://repology.org/metapackage/picard-tools/versions
2019-08-19 21:40:40 -07:00
Marek Mahut
b8a9d33bcd
Merge pull request #66884 from markuskowa/upd-octopus
...
octopus: 9.0 -> 9.1
2019-08-19 11:53:01 +02:00
Marek Mahut
22aa7eadf1
Merge pull request #66871 from peterhoeg/f/apmplanner
...
apmplanner2: fix build against qt 5.12
2019-08-19 11:43:40 +02:00
Markus Kowalewski
a81bb36249
octopus: 9.0 -> 9.1
...
* switch to GitLab download
* cleanup fftw dependence
2019-08-19 10:24:44 +02:00
Peter Hoeg
374e0ad0a8
pulseview: use mkDerivation
2019-08-19 08:14:21 +02:00
Peter Hoeg
abbac2334b
apmplanner2: fix build against qt 5.12
2019-08-19 14:01:55 +08:00
Timo Kaufmann
071a4db33e
sage: 8.9.beta6 -> 8.9.beta7
2019-08-19 00:16:06 +02:00
Timo Kaufmann
e8436f5e23
sage: 8.9.beta5 -> 8.9.beta6
2019-08-18 21:52:27 +02:00
Frederik Rietdijk
f65aa21bb2
Merge master into staging-next
2019-08-18 12:53:44 +02:00
Vladimír Čunát
8ed485c67b
Merge #65948 : tlaplusToolbox: 1.5.7 -> 1.6.0
2019-08-18 10:11:50 +02:00
Frederik Rietdijk
113dbfeb27
Merge pull request #66596 from emilazy/update-pypy-and-eda-tools
...
Update PyPy and FOSS EDA tools
2019-08-17 17:48:21 +02:00