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5552 commits

Author SHA1 Message Date
Bruno Bzeznik
77682cf879
shtns: init at 3.5.1 (#151061) 2022-01-31 21:28:05 +01:00
R. Ryantm
d44e044d84 kallisto: 0.46.2 -> 0.48.0 2022-01-31 09:53:54 -08:00
Bruno Bzeznik
b6fa4975cf
repseek: init at 9Sep2014 (#148017) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-01-31 14:59:32 +01:00
7c6f434c
9b76122d71
Merge pull request #140889 from collares/sage-9.5 
sage: 9.4 -> 9.5
 2022-01-31 13:24:26 +00:00
Robert Schütz
a13fe11c59 sasview: 4.2.0 -> 5.0.4 2022-01-30 20:47:10 +00:00
Mauricio Collares
8ec9a32829 sageWithDoc: do not autodetect optional features when testing dochtml 2022-01-30 13:15:22 -03:00
Mauricio Collares
cecbb55fb0 sage: 9.4 -> 9.5 2022-01-30 13:15:20 -03:00
Sandro
a724f8dc29
Merge pull request #155897 from FliegendeWurst/key-2.10 2022-01-30 01:21:43 +01:00
markuskowa
01f1b41a7d
Merge pull request #156381 from r-ryantm/auto-update/bowtie2 
bowtie2: 2.4.4 -> 2.4.5
 2022-01-29 14:56:23 +01:00
FliegendeWurst
48a133a066 key: add a desktop item 2022-01-29 10:14:54 +01:00
Vegard Strand Lende
41f927b433
verilator: 4.210 -> 4.218 (#157122) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-01-29 02:30:41 +01:00
Yipeng Sun
54cbee8d97
root: tweak wrapping flags for auxiliary programs, avoid forcing CMAKE_CXX_STANDARD (#157069) 2022-01-27 19:37:36 -05:00
Sandro
27cccd4e49
Merge pull request #151363 from Stunkymonkey/doc-updateWalker 2022-01-27 14:06:36 +01:00
ajs124
3638ca8be6
Merge pull request #156001 from helsinki-systems/upd/tulip 
tulip: 5.2.1 -> 5.6.1
 2022-01-26 23:33:44 +01:00
Felix Buehler
09e3b7a570 treewide: remove all updateWalker/downloadURLRegexp 2022-01-26 21:46:08 +01:00
Felix Buehler
ed7bf9452c treewide: remove *.upstream files from updateWalker 2022-01-26 21:46:07 +01:00
Gabriel Ebner
b27b115b41
Merge pull request #154272 from jvanbruegge/isabelle-build-hol 
isabelle: Prebuild HOL session
 2022-01-26 16:37:18 +01:00
Dmitry Kalinkin
f66b63a7cb
Merge pull request #156217 from smancill/shogun-fixes 
Shogun: use Python 3 and fix CMake targets
 2022-01-26 04:25:27 -05:00
R. Ryantm
6b3bf39220 cwltool: 3.1.20220119140128 -> 3.1.20220124184855 2022-01-25 21:56:09 -05:00
Vincent Laporte
8187f6500d tamarin-prover: install emacs-mode 2022-01-25 15:54:15 +01:00
Vincent Laporte
20e7213d16 coq_8_15: 8.15+rc1 → 8.15.0 2022-01-25 10:53:57 +01:00
Mauricio Collares
0aef6270cd sage: generate setup.cfg and requirements.txt for sagelib 2022-01-24 20:54:53 -03:00
Mauricio Collares
0a6b5115f6 singular: 4.2.0p2 -> 4.3.0 2022-01-24 20:54:53 -03:00
R. RyanTM
8bd7d6d6e0
star: 2.7.9a -> 2.7.10a 
(#155868)
 2022-01-24 19:51:44 +01:00
R. Ryantm
ebb9e86bf9 bowtie2: 2.4.4 -> 2.4.5 2022-01-23 22:45:59 +00:00
Mario Rodas
111d7dc831
Merge pull request #156014 from r-ryantm/auto-update/deeptools 
deeptools: 3.5.0 -> 3.5.1
 2022-01-22 23:45:09 -05:00
Justin Bedő
c24af4642c
sambamba: 0.8.1 -> 0.8.2 (#155972) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2022-01-23 04:51:46 +01:00
Alexandra
7267839e76
gprojector: init at 3.0.2 (#154932) 2022-01-23 04:04:10 +01:00
Sebastián Mancilla
c03c5c1500 shogun: fix CMake targets 
CMake uses the directory of the configuration files to calculate
the path to the installed library and headers. But now that shogun uses
multiple outputs, this results in the $dev output being used for the
location of the shared library instead of $out.

Path the targets file to use the right location for the shared library.
 2022-01-22 18:41:49 -03:00
Sebastián Mancilla
aaea9844c6 shogun: use Python 3 as build dependency 
Also default pythonSupport to false because it's broken for Python 3.

In any case the Python interface has been disabled for almost 2 years
now because the wrong CMake flag was being passed, so the build stays
the same.

But do use the proper flag now.
 2022-01-22 18:36:06 -03:00
FliegendeWurst
28b43ffd54 key: 2.6.3 -> 2.10.0 2022-01-22 15:55:25 +01:00
R. Ryantm
f888e66ad4 cwltool: 3.1.20211107152837 -> 3.1.20220119140128 2022-01-21 09:09:34 -05:00
R. Ryantm
227011af59 deeptools: 3.5.0 -> 3.5.1 2022-01-21 05:36:24 +00:00
ajs124
479ca09609 tulip: 5.2.1 -> 5.6.1 2022-01-21 03:45:21 +01:00
markuskowa
1c0f3cd8df
Merge pull request #155893 from markuskowa/fix-molden-url 
molden: fix download URL
 2022-01-20 16:55:51 +01:00
Markus Kowalewski
bb6bc8b315
molden: fix download URL 2022-01-20 15:47:46 +01:00
R. Ryantm
84930221fc sherpa: 2.2.11 -> 2.2.12 2022-01-20 08:36:02 -05:00
Armeen Mahdian
2d207146ee
mathematica: Refactor install process with autoPatchelfHook (#154295) 
- Call appropriate hooks at beginning/end of each phase

  - No longer assume current working dir in installPhase

  - Add support for udev rules installation (required for VernierLink)

  - Use -verbose with MathInstaller for detailed progress

  - Use patchShebangs or MathInstaller

  - Remove broken hostname call, root user check, and Avahi daemon
    check in MathInstaller

  - Add proper error checking after MathInstaller call

  - Skip configure phase

  - Create wrappers for relevant executables

  - Set $HOME to $TMPDIR/home temporarily so MathInstaller
    succeeds

  - Replace dd with tail for simplicity and performance
 2022-01-19 12:35:38 -05:00
Jan van Brügge
d653b33f20
maintainers: add jvanbruegge 2022-01-19 18:25:27 +01:00
Jan van Brügge
6fff929c5e
isabelle: Prebuild HOL session 
Upstream isabelle ships with this session, but the changes done for
nixpkgs invalidate it, requiring every user to build it again.
 2022-01-19 18:25:26 +01:00
evils
ba7c4fa91d
kicad: enable i18n by default (#155065) 
without i18n
/nix/store/xgs0n52djlqqmw6qlvg6j2jxpzdpsi92-kicad-6.0.1   7269408096
/nix/store/k7ra3zkx6mp0b3ivsf0ba14mbinwws0w-kicad-unstable-33a4c9b08e   7277796352
with i18n
/nix/store/2xh82r2znqipky0sny49h9cs5fbhmh4v-kicad-6.0.1   7286672288
/nix/store/532r1f3j8xjki8g87400n0gnd594pcbm-kicad-unstable-33a4c9b08e   7294795424
 2022-01-18 13:06:30 -05:00
Markus Kowalewski
17d0b66cf6
gromacs: 2021.4 -> 2021.5 2022-01-17 15:50:31 +01:00
Bobby Rong
9b59effb02
Merge pull request #154798 from collares/lean-3.38 
lean: 3.37.0 -> 3.38.0
 2022-01-17 21:40:56 +08:00
Frederik Rietdijk
afef6d0e81
Merge pull request #154687 from dotlambda/python-alias 
python,pythonPackages: make aliases
 2022-01-17 09:37:49 +01:00
R. RyanTM
4fa7c297f2
minimap2: 2.23 -> 2.24 
* minimap2: 2.23 -> 2.24 (#153189)

* minimap2: no support for aarch64

Co-authored-by: Renaud <c0bw3b@users.noreply.github.com>
 2022-01-17 08:49:35 +01:00
Robert Schütz
d5cceedbd1 python,pythonPackages: make aliases 
Since aliases are disallowed in nixpkgs, this makes usage of Python 2
which is EOL more explicit.
 2022-01-16 18:39:59 +00:00
Robert Schütz
65e959eb9a tebreak: also use python3 for tests 2022-01-16 18:00:59 +00:00
Martin Weinelt
492e5e07c9
lumpy: drop 
Removed because it requires python2 and the upstream repository looks
undermaintained.
 2022-01-16 02:36:23 +01:00
R. RyanTM
1e4664e1a0
betaflight-configurator: 10.7.1 -> 10.7.2 
(#154383)
 2022-01-15 23:12:31 +01:00
R. RyanTM
0c7342b6e7
horizon-eda: 2.1.0 -> 2.2.0 
(#154557)
 2022-01-15 22:09:09 +01:00