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Author SHA1 Message Date
Jonathan Ringer 9bb3fccb5b treewide: pkgs.pkgconfig -> pkgs.pkg-config, move pkgconfig to alias.nix 
continuation of #109595

pkgconfig was aliased in 2018, however, it remained in
all-packages.nix due to its wide usage. This cleans
up the remaining references to pkgs.pkgsconfig and
moves the entry to aliases.nix.

python3Packages.pkgconfig remained unchanged because
it's the canonical name of the upstream package
on pypi.
 2021-01-19 01:16:25 -08:00
Ben Siraphob badf51221d treewide: stdenv.lib -> lib 2021-01-16 17:58:11 +07:00
Profpatsch 4a7f99d55d treewide: with stdenv.lib; in meta -> with lib; 
Part of: https://github.com/NixOS/nixpkgs/issues/108938

meta = with stdenv.lib;

is a widely used pattern. We want to slowly remove
the `stdenv.lib` indirection and encourage people
to use `lib` directly. Thus let’s start with the meta
field.

This used a rewriting script to mostly automatically
replace all occurances of this pattern, and add the
`lib` argument to the package header if it doesn’t
exist yet.

The script in its current form is available at
https://cs.tvl.fyi/depot@2f807d7f141068d2d60676a89213eaa5353ca6e0/-/blob/users/Profpatsch/nixpkgs-rewriter/default.nix
 2021-01-11 10:38:22 +01:00
Frederik Rietdijk b20838eb4a Merge staging-next into staging 2021-01-04 20:51:32 +01:00
Sandro 6ac4c2d1f6
Merge pull request #107962 from flyfloh/colmap-36 2021-01-04 14:25:21 +01:00
Ben Siraphob 3ae5e6ce03 treewide: remove enableParallelBuilding = true if using cmake 2021-01-03 18:37:40 +07:00
github-actions[bot] 0eb369d907
Merge staging-next into staging 2021-01-01 18:39:12 +00:00
Dmitry Kalinkin 8bee208bf8
Merge pull request #107335 from veprbl/pr/root_6_20_08 
root: 6.18.04 -> 6.22.06, don't build vendored LLVM
 2021-01-01 12:28:37 -05:00
Ben Siraphob b04fc593e7 treewide: cmake buildInputs to nativeBuildInputs, minor cleanups 2021-01-01 11:52:33 +07:00
Florian Pester b740afa546 colmap: 3.5 -> 3.6 2020-12-31 09:56:07 +01:00
Florian Pester 75eef96f08 colmapWithCuda: fix build 2020-12-31 09:56:07 +01:00
Dmitry Kalinkin a30bff21e8
root: use llvm_5 from nixpkgs 2020-12-21 18:24:25 -05:00
Dmitry Kalinkin b7e70092c5
root: 6.20.08 -> 6.22.06 2020-12-21 16:43:09 -05:00
Dmitry Kalinkin 7d6e0d5324
root: 6.18.04 -> 6.20.08 2020-12-20 23:49:54 -05:00
Millian Poquet 15ab96d5a7 simgrid: 3.25 -> 3.26 2020-12-19 14:03:33 +01:00
Sandro b2219a326b
Merge pull request #101922 from penguwin/nextinspace 
nextinspace: init at 1.0.6
 2020-11-23 20:09:09 +01:00
Dmitry Kalinkin 68e06c19d6
snakemake: 5.19.3 -> 5.28.0 2020-11-17 17:37:35 -05:00
Nicolas Martin 9af958340a
nextinspace: init at 1.0.6 2020-11-17 15:41:53 +01:00
Oleksii Filonenko 512c3c0a05 maintainers: rename filalex77 -> Br1ght0ne 2020-11-17 13:09:31 +02:00
R. RyanTM e3cf6e12bc
fahcontrol: 7.6.13 -> 7.6.21 (#103677) 2020-11-14 16:39:37 +00:00
R. RyanTM 68f44d990d
fahviewer: 7.6.13 -> 7.6.21 (#103688) 2020-11-14 16:39:20 +00:00
Orivej Desh 0c75dfb732
convertall: init at 0.8.0 (#103108) 2020-11-09 01:45:09 +00:00
R. RyanTM 41e1c236bf cytoscape: 3.8.1 -> 3.8.2 2020-11-02 08:20:13 -08:00
Ben Siraphob db74029e3e treewide: remove package names from prefix of descriptions 2020-10-27 09:15:07 -07:00
evils b8a03a66b3
fahclient: 7.6.9 -> 7.6.13 (#99595) 2020-10-05 14:40:10 +02:00
R. RyanTM e66a7e2fb7 cytoscape: 3.8.0 -> 3.8.1 2020-09-25 04:38:49 +00:00
R. RyanTM f47530237d rink: 0.5.0 -> 0.5.1 2020-09-05 16:48:17 +00:00
Daniël de Kok 3ab2bf69ce
Merge pull request #85330 from chkno/openmvg 
openmvg: 1.3 -> 1.5 (unbreak)
 2020-08-16 09:39:38 +02:00
Scott Worley 05a16be9c5 openmvg: 1.3 -> 1.6 (unbreak) 2020-08-16 08:35:54 +02:00
Jonathan Ringer 23d6cd325f root: don't propagated python interpreter 2020-08-09 10:44:15 -07:00
John Ericson ef81828143
Merge pull request #94047 from kmicklas/fix-gplates 
gplates: 2.0.0 -> 2.2.0, unbreak
 2020-07-31 19:57:01 -04:00
Ken Micklas 7ae6e51bd4 gplates: 2.0.0 -> 2.2.0, unbreak 2020-07-27 20:54:18 -04:00
Vladyslav M 2076487221
rink: 0.4.5 -> 0.5.0 2020-07-18 13:30:05 +03:00
Dmitry Kalinkin eb121e0901
snakemake: 5.17.0 -> 5.19.3 2020-07-02 23:36:20 -04:00
Markus Kowalewski 187b4a2e04
root: add license 2020-06-27 00:43:21 +02:00
Dmitry Kalinkin df3a188b46
root5: 5.34.36 -> 5.34.38 
Fixes: https://nvd.nist.gov/vuln/detail/CVE-2017-1000203
 2020-06-18 16:42:02 -04:00
1000101 277bbb8efe formatting: fix missing leading whitespace 2020-06-08 09:37:17 +02:00
R. RyanTM c1b7c7e87c
snakemake: 5.16.0 -> 5.17.0 (#88766) 2020-05-24 13:32:14 -04:00
zimbatm 28357868f8
Merge pull request #88482 from r-ryantm/auto-update/fahcontrol 
fahcontrol: 7.6.9 -> 7.6.13
 2020-05-21 12:12:37 +02:00
zimbatm 1f6fcc7025
Merge pull request #88493 from r-ryantm/auto-update/fahviewer 
fahviewer: 7.6.9 -> 7.6.13
 2020-05-21 12:12:01 +02:00
R. RyanTM f52889cd38 fahviewer: 7.6.9 -> 7.6.13 2020-05-21 08:53:14 +00:00
R. RyanTM 0cc843b538 fahcontrol: 7.6.9 -> 7.6.13 2020-05-21 06:24:27 +00:00
Lancelot SIX b7c5508bfc
Merge pull request #86910 from lsix/cytoscape-3.8.0 
cytoscape: 3.7.2 -> 3.8.0
 2020-05-19 08:32:48 +01:00
Matt Huszagh e8215cd634 colmap: update boost to 1.72 to fix build 2020-05-15 09:42:36 -07:00
R. RyanTM 92d970c766
snakemake: 5.15.0 -> 5.16.0 (#87496) 2020-05-10 10:09:53 -04:00
Lancelot SIX b9d13090a8
cytoscape: 3.7.2 -> 3.8.0 
See https://cytoscape.org/release_notes_3_8_0.html for release
information
 2020-05-05 09:52:27 +01:00
evils e257a92472
foldingathome: 7.5.1 -> 7.6.9 (#86171) 2020-04-28 17:20:43 +00:00
Renato Garcia 22133c6bf3
snakemake: 5.13.0 -> 5.15.0 (#85913) 2020-04-25 09:19:54 -04:00
Konrad Borowski f527f9db3a snakemake: update homepage link to use HTTPS 2020-04-24 19:44:59 -07:00
Konrad Borowski 40dd2c27c6 rink: update homepage link to use HTTPS 2020-04-24 19:44:59 -07:00
Matthew Bauer 1c8aba8334 treewide: use blas and lapack 
This makes packages use lapack and blas, which can wrap different
BLAS/LAPACK implementations.

treewide: cleanup from blas/lapack changes

A few issues in the original treewide:

- can’t assume blas64 is a bool
- unused commented code
 2020-04-17 16:24:09 -05:00
Michael Reilly 84cf00f980
treewide: Per RFC45, remove all unquoted URLs 2020-04-10 17:54:53 +01:00
R. RyanTM cff5adc2fb
snakemake: 5.10.0 -> 5.13.0 (#83839) 2020-03-31 00:39:00 -04:00
Jörg Thalheim e841dce44a
rink: fix strict deps build 2020-03-29 12:37:25 +01:00
Claudio Bley 39767f8ae5
foldingathome: Make FAHControl be able to start the FAHViewer (#82925) 
The command to run when clicking the button is configurable, but by default it
tries to run `FAHViewer`.
 2020-03-19 13:05:54 +00:00
Dmitry Kalinkin 68db99ad97 snakemake: 5.9.1 -> 5.10.0 2020-03-14 15:58:24 -07:00
zimbatm 001be890f7 folding@home: 6.02 -> 7.5.1 
The v7 series is very different.

This commit introduces the 3 packages: fahclient, fahcontrol and
fahviewer. It also rebuilds the NixOS module to map better with the new
client.
 2020-03-14 13:01:26 -07:00
Benjamin Hipple ad30a30488 rustPlatform.fetchCargo: handle custom Cargo.lock patchfiles with validation 
Previously, we would asssert that the lockfiles are consistent during the
unpackPhase, but if the pkg has a patch for the lockfile itself then we must
wait until the patchPhase is complete to check.

This also removes an implicity dependency on the src attribute coming from
`fetchzip` / `fetchFromGitHub`, which happens to name the source directory
"source". Now we glob for it, so different fetchers will work consistently.
 2020-02-28 18:54:23 -08:00
Benjamin Hipple eb11feaa0b treewide: change fetchCargoTarball default to opt-out 
Changes the default fetcher in the Rust Platform to be the newer
`fetchCargoTarball`, and changes every application using the current default to
instead opt out.

This commit does not change any hashes or cause any rebuilds. Once integrated,
we will start deleting the opt-outs and recomputing hashes.

See #79975 for details.
 2020-02-13 22:41:37 -08:00
Millian Poquet 150f4a967c simgrid: 3.24 -> 3.25 2020-02-03 10:37:03 -08:00
R. RyanTM a94c66bc88 snakemake: 5.8.1 -> 5.9.1 2020-01-30 09:44:26 +00:00
Oleksii Filonenko bc8dc2bd0a
rink: add filalex77 to maintainers 2020-01-06 12:41:19 +02:00
Oleksii Filonenko 8d8ce109cb
rink: 0.4.4 -> 0.4.5 2020-01-06 12:39:32 +02:00
Frederik Rietdijk 6d059becd3 Merge gcc-9 into staging (#68029) 2019-12-30 16:38:38 +01:00
Merijn Broeren 133103d709
treewide: replace make/build/configure/patchFlags with nix lists 2019-12-30 12:58:11 +01:00
Robin Gloster 1065d80dd3
simgrid: *Flags are lists 2019-12-30 12:15:25 +01:00
Dmitry Kalinkin 0b28198f23
root: wrap python executables 
In normal use of ROOT the PYTHONPATH is intended to be set when user
sources the thisroot.{,s}sh. We do that in the setupHook. This covers
the case when thisroot.sh was not sourced.
 2019-12-26 11:49:12 -05:00
Franz Pletz 77b6c3cd06
Merge remote-tracking branch 'origin/master' into gcc-9 2019-12-26 14:17:36 +01:00
Jan Tojnar aee453e5c9
openmodelica: remove pangox dependency 
It was probably just a dependency of `gtkglext` since I cannot find any reference to `pangox` in the repo.

But cannot verify build since it is broken.
 2019-12-24 16:13:13 +01:00
Dmitry Kalinkin b6d8873825 root: 6.12.06 -> 6.18.04 
Also switch to python3.
 2019-12-14 01:28:27 -08:00
R. RyanTM 13c757e69c snakemake: 5.7.4 -> 5.8.1 (#74637) 2019-12-09 20:47:24 +01:00
Calvin Pritchard 1850d616ac NetLogo: 6.0.4 -> 6.1.1 2019-12-07 22:24:26 +01:00
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
Jonathan Ringer 0c1c18ca44
Merge branch 'master' into staging-next 2019-11-27 22:57:50 -08:00
Dmitry Kalinkin bd0c4dd6ab
root: fix setupHook to work with "set -u" 2019-11-24 17:51:46 -05:00
Michael Raskin c5e3aec122 golly: fix build 2019-11-22 17:41:46 +01:00
adisbladis c9d8624ccd
treewide: Get rid of libGLU_combined 2019-11-18 20:10:43 +00:00
Dmitry Kalinkin 93ee8095b0 snakemake: 5.4.4 -> 5.7.4 (#72929) 
(#72929)
 2019-11-13 00:46:56 +01:00
Franz Pletz dffcb87383
colmap: fix build with gcc9 2019-11-03 14:43:33 +01:00
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
Millian Poquet 5b9cbeb75c simgrid: 3.23 -> 3.24 2019-10-14 16:08:43 +02:00
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
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
volth 7b8fb5c06c treewide: remove redundant quotes 2019-09-08 23:38:31 +00:00
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
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
volth 08f68313a4 treewide: remove redundant rec 2019-08-28 11:07:32 +00:00
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
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
volth c814d72b51 treewide: name -> pname 2019-08-17 10:54:38 +00:00
volth 46420bbaa3 treewide: name -> pname (easy cases) (#66585) 
treewide replacement of

stdenv.mkDerivation rec {
  name = "*-${version}";
  version = "*";

to pname
 2019-08-15 13:41:18 +01:00
Lancelot SIX 2e955ca4c5
motu_client: drop 
This fork of cls-motu is unmaintained. Remove it from nixpkgs.
 2019-08-05 14:32:25 +02:00
Orivej Desh b5d1d50aa9 google-gflags: move to aliases.nix 
google-gflags were renamed to gflags in 2012:
https://github.com/gflags/gflags/#25-january-2012

gflags.name will be updated in staging.
 2019-07-25 09:18:32 +00:00
Frederik Rietdijk 79a03641d5 Merge staging-next into staging 2019-07-09 15:46:26 +02:00
Millian Poquet 0513ae77ff simgrid: 3.22.2 -> 3.23 2019-07-08 14:00:14 +02:00
Daiderd Jordan da7bcec42f
root: remove cf-private 2019-07-03 22:20:22 +02:00
Alyssa Ross 062210bdff treewide: update cargoSha256 hashes for cargo-vendor upgrade 
A recent upgrade of cargo-vendor changed its output slightly, which
broke all cargoSha256 hashes in nixpkgs.
See https://github.com/NixOS/nixpkgs/issues/60668 for more information.

Since then, a few hashes have been fixed in master by hand, but there
were a lot still to do, so I did all of the ones left over with some
scripts I wrote.

The one hash I wasn’t able to update was habitat's, because it’s
currently broken and the build doesn’t get far enough to produce a
hash anyway.
 2019-06-01 15:17:52 +00:00