Jonas Heinrich
2349dd5cb2
graphia: 2.2 -> 3.0
2022-07-12 10:01:03 -04:00
github-actions[bot]
5f2ff17a45
Merge master into staging-next
2022-07-11 18:01:16 +00:00
Thomas Tuegel
e1e0d5d513
Merge pull request #108496 from knedlsepp/cmake-rpath
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cmake/setup-hook.sh: Don't skip build-RPATH
2022-07-11 10:18:47 -05:00
Claudio Bley
16a1651a4a
gephi: 0.9.2 -> 0.9.6
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Gephi now requies Java 11+.
2022-07-11 16:45:30 +02:00
Bobby Rong
06e537ad60
bada-bib: add missing libadwaita and gtksourceview5 dependency
2022-07-11 13:46:57 +08:00
R. Ryantm
58d35e01aa
nextinspace: 2.0.3 -> 2.0.5
2022-07-09 07:19:07 +00:00
R. Ryantm
4975868d54
bada-bib: 0.6.2 -> 0.7.2
2022-07-06 00:52:29 +00:00
R. RyanTM
200d8c500a
snakemake: 7.8.3 -> 7.8.5 ( #179874 )
2022-07-04 12:24:26 -04:00
Josef Kemetmüller
bcd7045998
treewide: Remove now-unneeded LD_LIBRARY_PATH in cmake derivations
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Since the setting DCMAKE_SKIP_BUILD_RPATH was disabled, we can now run
the checkPhase of cmake derivations without having to tweak the
LD_LIBRARY_PATH anymore.
2022-07-04 03:49:01 +03:00
Luflosi
6eea86625e
boinc: 7.20.0 -> 7.20.1
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https://github.com/BOINC/boinc/releases/tag/client_release%2F7.20%2F7.20.1
2022-07-02 15:56:06 +02:00
Lassulus
c58d141dcc
Merge pull request #177268 from Luflosi/update/boinc
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boinc: 7.18.1 -> 7.20.0
2022-06-23 21:14:33 +02:00
Robert Scott
070028a960
fahcontrol: remove autoPatchelfHook argument
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this is confusing as it is not used - the package .deb only contains
python (and bash)
2022-06-23 18:38:23 +01:00
Robert Scott
466c2e342a
treewide/applications: add sourceType binaryNativeCode for many packages
2022-06-23 18:38:19 +01:00
R. Ryantm
671aeb2769
snakemake: 7.8.2 -> 7.8.3
2022-06-21 19:01:53 +00:00
Luflosi
0045581c23
boinc: 7.18.1 -> 7.20.0
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https://github.com/BOINC/boinc/releases/tag/client_release%2F7.20%2F7.20.0
2022-06-11 11:26:45 +02:00
R. Ryantm
acf23020f0
snakemake: 7.8.1 -> 7.8.2
2022-06-09 19:49:56 +00:00
Robert Scott
3b6bc4b69c
treewide: set sourceProvenance for packages containing downloaded jars
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these are the easily identifiable cases and will not be comprehensive
2022-06-04 19:47:57 +01:00
R. Ryantm
e9fb739e59
snakemake: 7.8.0 -> 7.8.1
2022-06-02 01:20:40 +00:00
R. RyanTM
7a54d237e0
snakemake: 7.7.0 -> 7.8.0 ( #174592 )
2022-05-30 10:51:36 -04:00
Rick van Schijndel
433701147a
treewide: pkgs/applications: mark broken for aarch64-linux
2022-05-30 13:42:58 +02:00
Rick van Schijndel
90869787c5
boinc: mark broken for aarch64
2022-05-29 10:56:03 +02:00
Fabian Affolter
44b8ec5ccb
Merge pull request #173416 from r-ryantm/auto-update/snakemake
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snakemake: 7.6.2 -> 7.7.0
2022-05-17 20:39:48 +02:00
R. Ryantm
a52b64015a
snakemake: 7.6.2 -> 7.7.0
2022-05-17 16:18:18 +00:00
Dmitry Kalinkin
fdf0806386
root5: fix build with recent gcc
2022-05-16 11:53:42 -04:00
R. Ryantm
5b55f851ac
snakemake: 7.6.1 -> 7.6.2
2022-05-07 16:16:09 +00:00
R. Ryantm
166b1378fe
snakemake: 7.5.0 -> 7.6.1
2022-05-04 16:06:44 +00:00
Fabian Affolter
8b176291d7
snakemake: 6.15.5 -> 7.5.0
2022-05-01 13:02:10 +02:00
Serge K
1248ea16e1
colmap: fix for cuda11.6/gcc11 ( #169623 )
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* colmap: force nvcc std=c++14 after gcc11 bump
* colmap: optional -> optionals
* colmap: sha256 -> hash
* colmapWithCuda: force CUDA_ENABLED=ON safeguard
* colmapWithCuda: add opengl runpath
2022-04-27 16:09:30 -07:00
Ryan Mulligan
f05a748058
Merge pull request #169246 from r-ryantm/auto-update/bada-bib
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bada-bib: 0.6.1 -> 0.6.2
2022-04-24 13:58:11 -07:00
veprbl
2511bad8aa
Merge pull request #168973 from veprbl/pr/root5_glibc_fix
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root5: fix for glibc
2022-04-19 14:56:09 -04:00
R. Ryantm
9919952421
bada-bib: 0.6.1 -> 0.6.2
2022-04-19 00:53:01 +00:00
Dmitry Kalinkin
81f9e28844
root5: fix for glibc
2022-04-16 17:20:16 -04:00
Fabián Heredia Montiel
5275050ab0
fityk: add -std=c++11 flag for gcc11 and later
2022-04-16 11:11:46 -05:00
github-actions[bot]
bf63dd7434
Merge staging-next into staging
2022-04-10 18:01:38 +00:00
Lassulus
973fa1917c
Merge pull request #162300 from r-ryantm/auto-update/cwltool
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cwltool: 3.1.20220221074232 -> 3.1.20220224085855
2022-04-10 13:37:54 +01:00
Martin Weinelt
bf1914e12a
Merge remote-tracking branch 'origin/staging-next' into staging
2022-04-05 04:05:02 +02:00
Ryan Mulligan
b56cf0ed6a
Merge pull request #167069 from r-ryantm/auto-update/bada-bib
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bada-bib: 0.6.0 -> 0.6.1
2022-04-04 13:51:15 -07:00
Martin Weinelt
f95a3d1140
Merge remote-tracking branch 'origin/staging-next' into staging
2022-04-04 00:46:25 +02:00
R. Ryantm
2a5b81d50f
bada-bib: 0.6.0 -> 0.6.1
2022-04-03 19:11:54 +00:00
ajs124
f9ad6fb744
openmvs: remove after being marked broken for over two years
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It was marked in commit 796050fedd
2022-04-03 16:14:19 +01:00
github-actions[bot]
9aa014c46a
Merge staging-next into staging
2022-03-31 12:02:10 +00:00
R. Ryantm
53dff2f7c8
rink: 0.6.2 -> 0.6.3
2022-03-28 18:13:37 +00:00
github-actions[bot]
8357b101a5
Merge staging-next into staging
2022-03-25 12:02:05 +00:00
davidak
6ea8d5ee71
Merge pull request #165297 from Stunkymonkey/treewide-pname-version-17
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treewide: rename name to pname&version
2022-03-24 16:38:33 +01:00
Doron Behar
4a02c56a7d
Merge pull request #164746 from ncfavier/makeWrapper-chdir
2022-03-24 13:51:27 +02:00
Felix Buehler
3bc5196252
treewide: rename name to pname&version
2022-03-23 22:55:50 +01:00
Millian Poquet
9ff032c291
simgrid: 3.30 -> 3.31
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- addition of the optional eigen dependency, used by a new simulation
model (bmf) that looks very promising to take interference phenomena
into account while remaining coarse-grained.
- enabled the new dependency by default as I think this is interesting
for most users.
2022-03-22 14:52:22 +01:00
Armeen Mahdian
858e03cf1f
golly-beta: remove
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Golly is more up to date
2022-03-21 07:08:53 -05:00
Naïm Favier
9160044f5f
treewide/makeWrapper: replace --run cd with --chdir
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Lay the groundwork for switching to binary wrappers by reducing uses
of `--run` (which is not supported by `makeBinaryWrapper`).
2022-03-19 09:46:31 +01:00
Rasmus Thomsen
69895c6248
bada-bib: 0.5.1 -> 0.6.0
2022-03-15 12:50:26 +01:00
Dmitry Kalinkin
149d68268d
root: fix ROOTConfig.cmake.in patching
2022-03-04 21:04:19 -05:00
R. Ryantm
de0ff65232
cwltool: 3.1.20220221074232 -> 3.1.20220224085855
2022-03-01 03:46:50 +00:00
K900
cb2cfba6f7
treewide: switch all desktop file generators to new API
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Notably:
- remove explicit arguments that match the defaults
- convert everything to the right Nix types
2022-02-25 13:40:38 -08:00
R. Ryantm
d6a24fc108
cwltool: 3.1.20220217222804 -> 3.1.20220221074232
2022-02-24 15:52:49 -05:00
Bobby Rong
93883402a4
Merge pull request #160594 from Cogitri/bada-bib
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bada-bib: 0.4.1 -> 0.5.1
2022-02-22 12:10:40 +08:00
Rasmus Thomsen
87c1d9f92c
bada-bib: 0.4.1 -> 0.5.1
2022-02-21 16:33:50 +01:00
R. Ryantm
c35aa0a0f3
cwltool: 3.1.20220217190813 -> 3.1.20220217222804
2022-02-21 01:31:33 -05:00
Millian Poquet
bc2604732e
simgrid: mark as broken on darwin
2022-02-19 10:05:17 +01:00
Millian Poquet
3f804f68bc
simgrid: 3.28 -> 3.30 + python + clean
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- use latest SimGrid release
- enable the python binding (in new output "python")
- reviews from PR 141040 have been applied
2022-02-19 10:05:12 +01:00
R. Ryantm
b715fcd9d9
cwltool: 3.1.20220210171524 -> 3.1.20220217190813
2022-02-18 00:36:37 -05:00
R. RyanTM
ac1c96ecec
colmap: 3.6 -> 3.7
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* colmap: 3.6 -> 3.7 (#159198 )
* colmap: license is BSD-3-Clause
Co-authored-by: Renaud <c0bw3b@users.noreply.github.com>
2022-02-18 00:29:14 +01:00
Daniel Wheeler
4befe7a89f
snakemake: 6.10.0 -> 6.15.5 ( #159026 )
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Fetch from GitHub rather than PyPI so tests are included.
2022-02-17 18:06:23 -05:00
Zhong Jianxin
e8f3914985
treewide: Replace transfig with fig2dev
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Reasons:
- transfig never get upstream update since it was added to nixpkgs 2006,
according to [fig2dev Debian changelog][1], upstream maintainership
was taken over at 2016, and renamed to fig2dev.
- [Debian][2], [ArchLinux][3], [HomeBrew][4] all use fig2dev to replace
transfig.
- transfig builds [failed][5] on aarch64-darwin, fig2dev builds fine.
- One less package to maintain.
[1]: https://salsa.debian.org/debian/fig2dev/-/blob/debian/1%253.2.6_beta-1/debian/changelog
[2]: https://packages.debian.org/bullseye/transfig
[3]: https://archlinux.org/packages/community/x86_64/fig2dev/
[4]: https://formulae.brew.sh/formula/fig2dev
[5]: https://hydra.nixos.org/build/163404782/nixlog/2
2022-02-15 10:13:56 +08:00
R. Ryantm
2220d35562
bada-bib: 0.3.0 -> 0.4.1
2022-02-12 22:22:46 -08:00
R. Ryantm
24b505484b
cytoscape: 3.9.0 -> 3.9.1
2022-02-12 21:13:11 -08:00
R. Ryantm
1631ffae8d
cwltool: 3.1.20220204090313 -> 3.1.20220210171524
2022-02-11 12:44:06 -05:00
R. RyanTM
1bfc1730e1
cwltool: 3.1.20220202173120 -> 3.1.20220204090313 ( #158272 )
2022-02-05 15:14:21 -05:00
Sandro
63a6539b76
Merge pull request #157198 from afontaine/afontaine/correct-fah-shortcuts
2022-02-04 18:26:20 +01:00
R. Ryantm
af3af2df32
cwltool: 3.1.20220124184855 -> 3.1.20220202173120
2022-02-03 20:06:12 -05:00
markuskowa
65bc2de0ef
Merge pull request #152447 from Cogitri/bada-bib
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bada-bib: init at 0.3.0
2022-02-01 22:26:26 +01:00
Robert Schütz
a13fe11c59
sasview: 4.2.0 -> 5.0.4
2022-01-30 20:47:10 +00:00
Andrew Fontaine
3c0680b783
fahviewer: fix variable substitution for shortcut
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Because single quotes are used in the sed command, the application
shortcut had the literal $out instead of the package path.
2022-01-28 16:47:24 -05:00
Andrew Fontaine
ba785adb28
fahcontrol: fix variable substitution for shortcut
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Because single quotes are used in the sed command, the application
shortcut had the literal $out instead of the package path.
2022-01-28 16:46:52 -05:00
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
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tulip: 5.2.1 -> 5.6.1
2022-01-26 23:33:44 +01:00
Felix Buehler
ed7bf9452c
treewide: remove *.upstream files from updateWalker
2022-01-26 21:46:07 +01:00
R. Ryantm
6b3bf39220
cwltool: 3.1.20220119140128 -> 3.1.20220124184855
2022-01-25 21:56:09 -05:00
R. Ryantm
f888e66ad4
cwltool: 3.1.20211107152837 -> 3.1.20220119140128
2022-01-21 09:09:34 -05:00
ajs124
479ca09609
tulip: 5.2.1 -> 5.6.1
2022-01-21 03:45:21 +01:00
Robert Schütz
d5cceedbd1
python,pythonPackages: make aliases
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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
Bobby Rong
cb3da55ede
Merge pull request #154988 from veprbl/pr/broken_gplates
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gplates: mark as broken on darwin
2022-01-15 13:24:14 +08:00
Bobby Rong
a6ed245599
Merge pull request #154989 from veprbl/pr/broken_graphia
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graphia: mark as broken on darwin
2022-01-15 13:23:31 +08:00
Fabian Affolter
49574fc9d5
Merge pull request #154934 from fabaff/fix-toil
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toil: 5.4.0 -> 5.6.0
2022-01-14 21:16:45 +01:00
Dmitry Kalinkin
2b9f8eb0a2
graphia: mark as broken on darwin
2022-01-14 03:38:54 -05:00
Dmitry Kalinkin
69d78f174a
gplates: mark as broken on darwin
2022-01-14 03:33:15 -05:00
Shamrock Lee
cc5ffb3de4
root: Explicit specify -Dtmva=ON
2022-01-14 14:19:33 +08:00
Shamrock Lee
336cc50b1f
root: add openblas and lapack into buildInputs for TMVA
2022-01-14 14:15:22 +08:00
Fabian Affolter
32003c3051
toil: 5.4.0 -> 5.6.0
2022-01-13 21:37:08 +01:00
Fabian Affolter
1a549598b4
cwltool: 3.1.20211104071347 -> 3.1.20211107152837
2022-01-12 18:00:43 +01:00
Fabian Affolter
b9c6bff4f0
nextinspace: 1.0.6 -> 2.0.3
2022-01-09 01:17:23 +01:00
Ben Siraphob
39a0a70d29
treewide: fix homepages with permanent redirect to https
2021-12-29 22:06:47 +07:00
Rasmus Thomsen
83e5da9238
bada-bib: init at 0.3.0
2021-12-28 12:40:39 +01:00
Dmitry Kalinkin
d5bdb7d39d
root: fix installation of bin/rootcint and bin/genreflex
2021-12-26 00:07:49 -05:00
Bobby Rong
bcaa1b4633
Merge pull request #149151 from Luflosi/update/boinc
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boinc: 7.14.2 -> 7.18.1
2021-12-18 21:32:22 +08:00
Oleksii Filonenko
a400948064
Merge pull request #149167 from r-ryantm/auto-update/rink
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rink: 0.6.1 -> 0.6.2
2021-12-13 14:40:57 +02:00
R. Ryantm
3112fe2ace
openmvg: 1.6 -> 2.0
2021-12-07 20:17:43 +00:00
R. Ryantm
5517f74759
rink: 0.6.1 -> 0.6.2
2021-12-06 23:57:17 +00:00
Luflosi
ca87168c6e
boinc: copy systemd service file to output
2021-12-06 23:56:06 +01:00
Luflosi
4e0d9003fc
boinc: 7.14.2 -> 7.18.1
2021-12-06 23:56:06 +01:00
