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Author SHA1 Message Date
Mauricio Collares 391028eb3a pynac: add more patches, link to sage trac 2021-05-11 16:49:10 -03:00
Mauricio Collares 2a95fe1aea gap: 4.11.0 -> 4.11.1 2021-05-11 16:49:10 -03:00
Jan Tojnar 7982550ac4
Merge branch 'staging-next' into staging 2021-05-11 09:09:10 +02:00
github-actions[bot] 49b8e6f7d4
Merge master into staging-next 2021-05-11 00:48:15 +00:00
maralorn 881d2af5ee
Merge pull request #122286 from NixOS/haskell-updates 2021-05-11 02:31:06 +02:00
Malte Brandy 39c0dd99a4
tamarin-prover: Mark broken 2021-05-11 01:56:48 +02:00
Sandro 0a3c566d56
Merge pull request #122396 from jbedo/octopus 
octopus: 0.7.3 -> 0.7.4
 2021-05-11 01:19:54 +02:00
Justin Bedo 40eeb2c6d3
octopus: 0.7.3 -> 0.7.4 2021-05-11 08:46:00 +10:00
Sandro d2ea330f62
Merge pull request #122482 from hjones2199/kstars353 2021-05-11 00:22:01 +02:00
Hunter Jones d4077929d6 kstars: 3.5.2 -> 3.5.3 2021-05-10 15:16:04 -05:00
Eduardo Sánchez Muñoz 08a26e4579 pythonPackages.sip: rename to sip_4 
sip 4 is the old and unmaintained version
 2021-05-10 20:41:38 +02:00
github-actions[bot] 61fa3fdde8
Merge master into staging-next 2021-05-10 18:28:17 +00:00
Ryan Mulligan c72c9f46e2
Merge pull request #122391 from r-ryantm/auto-update/jmol 
jmol: 14.31.36 -> 14.31.38
 2021-05-10 10:17:33 -07:00
Jan Tojnar 594a885912
Merge branch 'staging-next' into staging 2021-05-10 09:45:47 +02:00
github-actions[bot] 1e3d91bd19
Merge master into staging-next 2021-05-10 00:48:32 +00:00
R. RyanTM 4ff0c782a3 jmol: 14.31.36 -> 14.31.38 2021-05-09 20:32:06 +00:00
Ben Siraphob 418a37d99c coq2html: 20170720 -> 1.2 2021-05-09 22:00:15 +02:00
Vladimír Čunát 5663b2b2d3
Merge branch 'master' into staging-next 
(a trivial conflict in transmission)
 2021-05-09 09:31:55 +02:00
R. RyanTM 2c143443f7 libpoly: 0.1.8 -> 0.1.9 2021-05-08 18:34:00 -07:00
R. RyanTM 5ab09faafb gretl: 2021a -> 2021b 2021-05-08 17:11:36 -07:00
Jan Tojnar dd78ce1c53
Merge branch 'staging-next' into staging 2021-05-08 20:59:05 +02:00
Martin Weinelt 9651084620 Merge remote-tracking branch 'origin/master' into staging-next 2021-05-08 14:43:43 +02:00
Jonathan Ringer 1d85caaa26 root: fix build 2021-05-08 01:29:18 -07:00
Jan Tojnar 468cb5980b gnome: rename from gnome3 
Since GNOME version is now 40, it no longer makes sense to use the old attribute name.
 2021-05-08 09:47:42 +02:00
Daniël de Kok 85f96822a0 treewide: fix cargoSha256/cargoHash 
Rust 1.50.0 incorporated a Cargo change (rust-lang/cargo#8937) in
which cargo vendor erroneously changed permissions of vendored
crates. This was fixed in Rust
1.51.0 (rust-lang/cargo#9131). Unfortunately, this means that all
cargoSha256/cargoHashes produced during the Rust 1.50.0 cycle are
potentially broken.

This change updates cargoSha256/cargoHash tree-wide.

Fixes #121994.
 2021-05-08 00:36:37 -07:00
github-actions[bot] b4416b52c5
Merge master into staging-next 2021-05-08 00:46:50 +00:00
Malte Brandy 2a11f1f5cc
Merge branch 'master' into haskell-updates 2021-05-07 15:03:54 +02:00
github-actions[bot] 12193913a1
Merge staging-next into staging 2021-05-07 12:23:21 +00:00
Robert Hensing aaec26af39
Merge pull request #121896 from raboof/extract-version-test-to-utility 
test-utilities: version test
 2021-05-07 11:56:01 +02:00
Arnout Engelen b68130fd2c
test-utilities: version test 
Extract 'version test' to a reusable test utility as discussed in
https://github.com/NixOS/nixpkgs/pull/119636#issuecomment-826137021 and
 2021-05-07 09:53:35 +02:00
sternenseemann eaeb69862c petrinizer: restrict platforms by sbv 
sbv has the most limited range of platforms of the dependencies.
 2021-05-06 16:24:58 +02:00
sternenseemann 73c2dd4aa6 petrinizer: fix build 
* take z3 haskell package from haskellPackages
* take sbv 7.13 from haskellPackages, apply patch fixing build
  with GHC >= 8.8.8
 2021-05-06 11:43:59 +02:00
github-actions[bot] dbc1478d23
Merge staging-next into staging 2021-05-05 06:21:29 +00:00
R. RyanTM 59cd52dc40 gmsh: 4.8.3 -> 4.8.4 2021-05-05 01:26:49 -04:00
github-actions[bot] 98d7aac597
Merge staging-next into staging 2021-05-04 00:49:43 +00:00
Dmitry Kalinkin 1cfcfccc6e
Merge pull request #121411 from veprbl/pr/xfitter_darwin_fix 
xfitter: fix for darwin
 2021-05-03 17:37:34 -04:00
github-actions[bot] 5e177b16b1
Merge staging-next into staging 2021-05-03 18:25:49 +00:00
edef 4e4c45efac
Merge pull request #121375 from deviant/bump-rink 
rink: 0.6.0 -> 0.6.1
 2021-05-03 13:57:36 +00:00
github-actions[bot] a4c3a2d732
Merge staging-next into staging 2021-05-03 12:26:48 +00:00
Gabriel Ebner 62458574e3
Merge pull request #121361 from r-ryantm/auto-update/lean 
lean: 3.29.0 -> 3.30.0
 2021-05-03 11:13:53 +02:00
github-actions[bot] a7e07bddd5
Merge staging-next into staging 2021-05-02 12:24:53 +00:00
Luke Granger-Brown 884cf29501 dcm2niix: 1.0.20201102 -> 1.0.20210317 2021-05-02 11:10:40 +00:00
R. RyanTM ad5f251230 dcm2niix: 1.0.20200331 -> 1.0.20201102 2021-05-02 03:14:11 +00:00
github-actions[bot] e6037ce5fe
Merge staging-next into staging 2021-05-02 00:58:46 +00:00
Luke Granger-Brown ebf371726d sumorobot-manager: fix compilation 2021-05-02 00:12:19 +00:00
R. RyanTM 99f8bc3e03 sumorobot-manager: 0.9.0 -> 1.0.0 2021-05-02 00:02:46 +00:00
github-actions[bot] 49721bed32
Merge staging-next into staging 2021-05-01 18:26:21 +00:00
Dmitry Kalinkin c846fa1674
xfitter: fix for darwin 
Fixes: 8984fc29 ('xfitter: fix build w/glibc-2.32')
 2021-05-01 13:15:06 -04:00
Sandro 4b2c9640e7
Merge pull request #120613 from erikbackman/master 2021-05-01 18:42:40 +02:00
V 5a835e6e92 rink: 0.6.0 -> 0.6.1 2021-05-01 10:46:51 +02:00
R. RyanTM 96e1cc0768 lean: 3.29.0 -> 3.30.0 2021-05-01 05:49:45 +00:00
John Ericson 17305d2df0
Merge pull request #111487 from Ericson2314/llvm-outputs-and-cross-compile-tools 
llvmPackages: Clean up outputs
 2021-04-30 11:28:08 -04:00
github-actions[bot] d7882499f8
Merge staging-next into staging 2021-04-30 12:26:14 +00:00
Michael Raskin ee4684f052
Merge pull request #117716 from idontgetoutmuch/master 
Fix https://github.com/NixOS/nixpkgs/issues/117715
 2021-04-30 07:28:43 +00:00
Andrew Childs 7869d16545 llvmPackages: Multuple outputs for everythting 
Also begin to start work on cross compilation, though that will have to
be finished later.

The patches are based on the first version of
https://reviews.llvm.org/D99484. It's very annoying to do the
back-porting but the review has uncovered nothing super major so I'm
fine sticking with what I've got.

Beyond making the outputs work, I also strove to re-sync the packages,
as they have been drifting pointlessly apart for some time.

----

Other misc notes, highly incomplete

- lvm-config-native and llvm-config are put in `dev` because they are
  tools just for build time.

- Clang no longer has an lld dep. That was introduced in
  db29857eb3, but if clang needs help
  finding lld when it is used we should just pass it flags / put in the
  resource dir. Providing it at build time increases critical path
  length for no good reason.

----

A note on `nativeCC`:

`stdenv` takes tools from the previous stage, so:

1. `pkgsBuildBuild`: `(?1, x, x)`
2. `pkgsBuildBuild.stdenv.cc`: `(?0, ?1, x)`

while:

1. `pkgsBuildBuild`: `(?1, x, x)`
2. `pkgsBuildBuild.targetPackages`: `(x, x, ?2)`
3. `pkgsBuildBuild.targetPackages.stdenv.cc`: `(?1, x, x)`
 2021-04-30 05:41:00 +00:00
github-actions[bot] 3ad64733d9
Merge staging-next into staging 2021-04-29 18:28:08 +00:00
Dominic Steinitz 732ab3d4e2 Incorporate suggeston by collares 2021-04-29 17:34:34 +01:00
R. RyanTM 5b7a76e2a6 jmol: 14.31.35 -> 14.31.36 2021-04-29 12:39:03 +00:00
github-actions[bot] 01105a117a
Merge staging-next into staging 2021-04-29 06:21:55 +00:00
R. RyanTM 5122077801 gmsh: 4.8.1 -> 4.8.3 2021-04-29 00:17:51 -04:00
R. RyanTM e99e9f2d47 elan: 1.0.0 -> 1.0.2 2021-04-29 00:04:34 -04:00
github-actions[bot] 655989d7b3
Merge staging-next into staging 2021-04-28 00:15:29 +00:00
Gabriel Ebner a062505e10
Merge pull request #120177 from r-ryantm/auto-update/elan 
elan: 0.11.0 -> 1.0.0
 2021-04-27 22:52:12 +02:00
R. RyanTM 32cb3382e5 elan: 0.11.0 -> 1.0.0 2021-04-27 22:32:13 +02:00
Gabriel Ebner abbc2384d7
Merge pull request #120822 from r-ryantm/auto-update/lean 
lean: 3.28.0 -> 3.29.0
 2021-04-27 22:28:19 +02:00
erikbackman 95b40e4143 (numworks-epsilon): init at 15.3.2 2021-04-27 19:07:25 +02:00
R. RyanTM 4ccb9422c7 lean: 3.28.0 -> 3.29.0 2021-04-27 05:34:13 +00:00
github-actions[bot] e30742adc3
Merge staging-next into staging 2021-04-26 12:06:35 +00:00
Vincent Laporte 35dfa0e927 alt-ergo: 2.3.3 → 2.4.0 2021-04-26 08:32:18 +02:00
github-actions[bot] 28c3da370d
Merge staging-next into staging 2021-04-26 06:05:56 +00:00
R. RyanTM 224fc21cc3 tetgen: 1.5.1 -> 1.6.0 2021-04-26 01:32:28 -04:00
github-actions[bot] 8634c6f7d1
Merge staging-next into staging 2021-04-26 00:17:03 +00:00
Mauricio Collares e1ad2f5aa4 sage: remove cypari2 override 
This reverts commit c12ef05bda.
 2021-04-25 18:21:58 -03:00
Michael Raskin 14f65f0dc5
Merge pull request #116365 from omasanori/sage-9.3 
sage: 9.2 -> 9.3
 2021-04-25 21:17:32 +00:00
github-actions[bot] 9a945aac72
Merge staging-next into staging 2021-04-25 18:14:18 +00:00
Eduardo Sánchez Muñoz 6b9e396a07 qalculate-gtk: 3.17.0 -> 3.18.0 2021-04-25 16:17:26 +02:00
github-actions[bot] 944e32775d
Merge staging-next into staging 2021-04-24 00:16:20 +00:00
Alyssa Ross 4f4d95bbc2
Merge remote-tracking branch 'nixpkgs/master' into staging-next 
Conflicts:
	pkgs/development/python-modules/pyvex/default.nix
	pkgs/top-level/python-packages.nix
 2021-04-23 13:49:12 +00:00
Michael Raskin 2a04a9ce44
Merge pull request #120168 from r-ryantm/auto-update/clingo 
clingo: 5.4.1 -> 5.5.0
 2021-04-23 08:51:33 +00:00
github-actions[bot] 0d97d9f23b
Merge staging-next into staging 2021-04-23 00:15:42 +00:00
github-actions[bot] 481a9bc47c
Merge master into staging-next 2021-04-23 00:15:39 +00:00
R. RyanTM 82bc3d6c28 clingo: 5.4.1 -> 5.5.0 2021-04-22 07:44:27 +00:00
R. RyanTM e230004975 calc: 2.12.9.1 -> 2.13.0.1 2021-04-22 06:59:52 +00:00
Masanori Ogino 090b71f627 sage: 9.2 -> 9.3.rc4 
Co-authored-by: Mauricio Collares <mauricio@collares.org>
 2021-04-22 14:06:56 +09:00
Mauricio Collares 00d2e24395 eclib: 20210223 -> 20190909 
This reverts commits 003705ef08
and ef615b5a61.
 2021-04-22 14:06:56 +09:00
Garaba Flórián a0f410646c sage: use threejs fork 2021-04-22 14:06:56 +09:00
Mauricio Collares 090165d7c1 singular: disable vspace on aarch64 2021-04-22 14:06:56 +09:00
Mauricio Collares cd7cf5942b singular: use older autoconf macro to unbreak aarch64 2021-04-22 09:01:30 +09:00
Mauricio Collares aebef1703f singular: import aarch64 support patch 2021-04-22 09:01:07 +09:00
Timo Kaufmann ceaf48fdb2 singular: 4.1.1p2 -> 4.2.0p2 
Adds proper tests. Also removes the "enableFactory" option because
singular actually enables factory by default and explicitly disabling it
breaks the build. So the option was never really available.
 2021-04-22 09:01:07 +09:00
Mauricio Collares cd215e793a pynac: 0.7.26 -> 0.7.27 2021-04-22 09:01:07 +09:00
Mauricio Collares 79046fb4f8 gap: 4.10.2 -> 4.11.0 2021-04-22 09:01:07 +09:00
github-actions[bot] a260b67879
Merge staging-next into staging 2021-04-21 12:06:26 +00:00
github-actions[bot] 9b3e698b14
Merge master into staging-next 2021-04-21 12:06:23 +00:00
Sandro 59f840f3d5
Merge pull request #119055 from eduardosm/kicad 2021-04-21 06:28:21 +02:00
Mario Rodas 8b2b6e4e11
Merge pull request #119682 from marsam/update-beluga 
beluga: 2020-03-11 -> 1.0
 2021-04-20 22:22:02 -05:00
github-actions[bot] 6929a896cf
Merge staging-next into staging 2021-04-20 12:06:48 +00:00
github-actions[bot] 960439e003
Merge master into staging-next 2021-04-20 12:06:46 +00:00
Maximilian Bosch 8389dcb67d
Merge pull request #119911 from jbedo/octopus 
octopus: 0.7.1 -> 0.7.3
 2021-04-20 10:58:42 +02:00
github-actions[bot] cf0edc0dea
Merge staging-next into staging 2021-04-20 06:06:28 +00:00
github-actions[bot] e605a07cc0
Merge master into staging-next 2021-04-20 06:06:25 +00:00
R. RyanTM 44a83a3cb6 gmsh: 4.8.0 -> 4.8.1 2021-04-19 22:37:39 -04:00
Justin Bedo def7c82f88
octopus: 0.7.1 -> 0.7.3 2021-04-20 10:13:25 +10:00
Jörg Thalheim b2a1e04eed
Merge remote-tracking branch 'upstream/staging-next' into HEAD 2021-04-17 16:37:04 +02:00
github-actions[bot] f620e30ca4
Merge master into staging-next 2021-04-17 00:15:03 +00:00
Vincent Laporte ab16ad8764 coq_8_13: 8.13.1 → 8.13.2 2021-04-16 22:32:31 +02:00
Alyssa Ross e459db3f81 glsurf: fix license 
The README says GPL 2 or any later version, not LGPL.
 2021-04-16 14:06:10 +00:00
Alyssa Ross 70e33e3ae3 glsurf: use current giflib 
This requires bumping the version of camlimages used by glsurf to a
version that supports current giflib.  The most recent versions of
camlimages (even of 4.x) don't support ocaml 4.01 any more, so I've
upgraded to 4.1.2 here, the last version that supports ocaml 4.01 (and
which happily supports current giflib).
 2021-04-16 14:06:10 +00:00
Alyssa Ross 6e3b5fd046 libungif: remove in favour of giflib 
libungif was merged into giflib in 2006, and hasn't been updated
since.  All non-broken packages still using it build fine with giflib.

See <http://giflib.sourceforge.net/history.html>.
 2021-04-16 14:06:10 +00:00
Martin Weinelt 7cf67850c0
Merge branch 'master' into staging-next 2021-04-15 01:01:26 +02:00
Sandro 28fb287d4b
Merge pull request #118610 from GregorySchwartz/init/macs2 2021-04-14 21:15:38 +02:00
Gregory W. Schwartz b7763a8287 macs2: init at 2.2.7.1 
Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Update pkgs/applications/science/biology/macs2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Renamed package, updated version, set pypi, and added import test.

Update pkgs/applications/science/biology/MACS2/default.nix

Co-authored-by: Sandro <sandro.jaeckel@gmail.com>

Add comment about error for checking.

Two spaces indent.
 2021-04-14 10:17:53 -04:00
Vladimír Čunát d2eb7a7887
Merge branch 'staging' into staging-next 
A few conflicts but relatively clear ones (I think).
 2021-04-14 10:08:25 +02:00
Dmitry Kalinkin a469a7be55
sherpa: compile with --enable-pythia flag 2021-04-13 09:34:42 -04:00
Luke Granger-Brown 08b22e605b Merge remote-tracking branch 'upstream/staging-next' into down-integrate-staging 2021-04-12 18:49:01 +00:00
hjones2199 79c3609603
celestia: 1.6.1 -> 1.6.2.2 (#117999) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-04-12 20:17:17 +02:00
Fabian Affolter e4149e6e0b
rink: specify license 2021-04-11 23:18:32 +02:00
R. RyanTM 12518ff683 rink: 0.5.1 -> 0.6.0 2021-04-11 14:49:45 +00:00
Eduardo Sánchez Muñoz b5c90bb4da kicad: fix license 
https://kicad.org/about/licenses/
 2021-04-10 20:39:02 +02:00
Eduardo Sánchez Muñoz 427edc8b5a kicad: include desktop, icon and mime files 
Fixes https://github.com/NixOS/nixpkgs/issues/106295.
 2021-04-10 18:55:04 +02:00
Jan Tojnar 625ce6c7f6 Merge branch 'staging-next' into staging 
In python-packages.nix, resolve conflict between 50d604314e and 187d0371ab.
 2021-04-08 17:14:31 +02:00
Sandro 32b567d9e6
Merge pull request #118775 from lopsided98/qgroundcontrol-update 
qgroundcontrol: 4.1.1 -> 4.1.2
 2021-04-08 09:57:15 +02:00
Ben Wolsieffer 1e52d002bb qgroundcontrol: 4.1.1 -> 4.1.2 2021-04-08 00:04:07 -04:00
github-actions[bot] 1bd1969867
Merge staging-next into staging 2021-04-06 18:15:33 +00:00
Jan Tojnar 70babe5bcf Merge branch 'staging-next' into staging 2021-04-06 16:25:41 +02:00
voidless b6c315b4fb geogebra6: 6_0_620_0 -> 6_0_631_0 2021-04-06 10:52:30 +02:00
Dmitry Kalinkin 1d93243467
root: 6.22.06 -> 6.22.08 2021-04-06 02:41:06 -04:00
Gregory Schwartz 9bf867612d
meme-suite: init at 5.1.1 (#118603) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-04-05 22:43:27 +02:00
Sandro Jäckel 3453b89f4b
lzma: deprecate alias 2021-04-04 19:49:52 +02:00
Frederik Rietdijk 1e7ed8b2f3
Merge branch 'staging' into python-unstable 2021-04-04 12:59:12 +02:00
Sandro Jäckel 33a395f195
yacc: deprecate alias 
and add a new line after the alphabetically sorting to please my inner monk
 2021-04-04 03:18:58 +02:00
Frederik Rietdijk c12ef05bda sage: keep cypari2 at 2.1.1 2021-04-03 17:49:44 +02:00
Frederik Rietdijk d20a05e963 libpoly: use python3 2021-04-03 17:06:22 +02:00
Frederik Rietdijk 7865ac1046 lean2: stay with python2 
broken, so who knows...
 2021-04-03 17:06:21 +02:00
Frederik Rietdijk 7368564f99 gurobi: stay with python2 2021-04-03 17:06:08 +02:00
Frederik Rietdijk ee258981bf ginac: use python3 2021-04-03 17:06:07 +02:00
Jack Gerrits dfab218b9b vowpal-wabbit: 8.9.2 -> 8.10.0 2021-04-01 13:46:09 -04:00
Mario Rodas d2275796d1 beluga: 2020-03-11 -> 1.0 2021-04-01 04:20:00 +00:00
Sandro 498cb76bdf
Merge pull request #117799 from LeSuisse/aliza-1.98.57 
aliza: 1.98.43 -> 1.98.57
 2021-03-30 17:18:15 +02:00
Sandro 9e24497453
Merge pull request #117970 from mpoquet/simgrid-3.26-to-3.27 
simgrid: 3.26 -> 3.27
 2021-03-30 14:28:37 +02:00
Ryan Mulligan f3262c2a3e
Merge pull request #117648 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.25.0 -> 2.25.1
 2021-03-29 16:10:25 -07:00
Millian Poquet 99a5de6ebc simgrid: 3.26 -> 3.27 2021-03-29 21:20:27 +02:00
Justin Bedo 76bd953162 bedops: init 2.4.39 2021-03-28 22:27:51 -04:00
Maximilian Bosch b8779b59d5
Merge pull request #117760 from r-ryantm/auto-update/calc 
calc: 2.12.9.0 -> 2.12.9.1
 2021-03-28 23:35:49 +02:00
Maximilian Bosch 4fc2ef2c5e
stellarium: 0.20.4 -> 0.21.0 
ChangeLog: https://github.com/Stellarium/stellarium/releases/tag/v0.21.0
 2021-03-28 22:46:57 +02:00
Ryan Mulligan 9a35bc87e8
Merge pull request #117607 from r-ryantm/auto-update/marvin 
marvin: 21.2.0 -> 21.3.0
 2021-03-27 20:35:56 -07:00
Thomas Gerbet f801e2e92c aliza: 1.98.43 -> 1.98.57 2021-03-27 23:49:33 +01:00
R. RyanTM 190a6f04b6 calc: 2.12.9.0 -> 2.12.9.1 2021-03-27 07:21:16 +00:00
Sandro 53734a4355
Merge pull request #117730 from veprbl/pr/snakemake_6_0_5 
snakemake: 5.28.0 -> 6.0.5
 2021-03-27 02:44:44 +01:00
Dmitry Kalinkin 8887f4655e
snakemake: 5.28.0 -> 6.0.5 2021-03-26 18:32:26 -04:00
Gabriel Ebner 109d6b3bdb
Merge pull request #117712 from gebner/elan0110 
elan: 0.10.3 -> 0.11.0
 2021-03-26 19:58:29 +01:00
Dominic Steinitz 9eb60bee0e Fix https://github.com/NixOS/nixpkgs/issues/117715 2021-03-26 18:18:42 +00:00
Gabriel Ebner 0661cf4882 elan: 0.10.3 -> 0.11.0 
Also adapt the patchelf patch from rustup, since Lean 4 now dynamically
links to gmp.
 2021-03-26 19:16:33 +01:00
R. RyanTM 49e4c1e323 picard-tools: 2.25.0 -> 2.25.1 2021-03-26 03:16:44 +00:00
Mario Rodas 01f3ceeaa9
Merge pull request #116630 from r-ryantm/auto-update/lean 
lean: 3.27.0 -> 3.28.0
 2021-03-25 19:15:00 -05:00
Florian Klink 7d19272ef2
Merge pull request #115820 from flokli/xmedcon 
xmedcon: init at 0.21.0
 2021-03-25 23:01:58 +01:00
Dmitry Kalinkin bf5c995ad2
Merge pull request #116487 from veprbl/pr/professor_init 
professor: init at 2.3.3
 2021-03-25 16:07:55 -04:00
R. RyanTM 3b3f141837 marvin: 21.2.0 -> 21.3.0 2021-03-25 17:58:45 +00:00
Frederik Rietdijk 5a5cb718a5 bedtools: use python3 2021-03-25 10:42:32 +01:00
Frederik Rietdijk 2c00aed6b1 bcftools: use python3 2021-03-25 10:39:47 +01:00
Timo Kaufmann 82e1bfa53d
Merge pull request #117123 from collares/cypari-update 
cypari2, cysignals: updates
 2021-03-24 21:38:04 +00:00
Sandro 489ca6979e
Merge pull request #117335 from bzizou/spades 
SPAdes: 3.15.1 -> 3.15.2 + fix license and platform
 2021-03-24 19:54:23 +01:00
Mauricio Collares 812ffed96b gap: backport aarch64 patch 2021-03-23 22:09:29 -03:00
Mauricio Collares 594eda3b7d sage: patch intermittently failing test 2021-03-23 22:09:29 -03:00
Mauricio Collares 15fd117e71 cypari2: 2.1.1 -> 2.1.2 
* cypari2: 2.1.1 -> 2.1.2, patch to fix segfault

* sage: update test expectations
 2021-03-23 22:09:29 -03:00
Ryan Mulligan db21819e91
Merge pull request #117345 from r-ryantm/auto-update/jmol 
jmol: 14.31.34 -> 14.31.35
 2021-03-23 09:14:57 -07:00
R. RyanTM 8ab6893632 jmol: 14.31.34 -> 14.31.35 2021-03-23 11:29:06 +00:00
Bruno Bzeznik f0eef16f9c SPAdes: 3.15.1 -> 3.15.2 + fix license and platform 2021-03-23 10:51:01 +01:00
Paul Liétar 6f8eb1e65a coq: enable coqide on darwin 
This was disabled a while ago, when itstool was broken on darwin.
Now that itstool works again, it can be re-enabled.
 2021-03-23 08:17:13 +01:00
mtreca ff64acacba sumo: init at 1.8.0 2021-03-22 12:17:15 +01:00
Sandro 1c3d923aaa
Merge pull request #115685 from r-ryantm/auto-update/wxmaxima 
wxmaxima: 20.06.6 -> 21.02.0
 2021-03-22 01:08:42 +01:00
Sandro 593cc0d5ee
Merge pull request #111224 from r-ryantm/auto-update/gwyddion 
gwyddion: 2.56 -> 2.57
 2021-03-21 05:22:26 +01:00
Florian Klink 275cc4e9c7 xmedcon: init at 0.21.0 
This allows reading DICOM images, including 3d stacks.
 2021-03-20 21:36:38 +01:00
Sandro edac82660c
Merge pull request #117039 from raboof/gnucap-init-at-20210107 
gnucap: init at 20210107
 2021-03-20 19:49:27 +01:00
Arnout Engelen 52b7bd1e77
gnucap: init at 20210107 
Submitting on behalf of kvtb,
https://discourse.nixos.org/t/casual-nixpkgs-contributions/9607/13
 2021-03-20 16:36:48 +01:00
Mauricio Collares c0b869f19f sage: re-add pkgconfig input, it's not duplicated 2021-03-20 06:43:23 -03:00
github-actions[bot] c804f22a81
Merge master into staging-next 2021-03-19 12:26:52 +00:00
Doron Behar 23ef497c17
Merge pull request #111237 from r-ryantm/auto-update/gtkwave 
gtkwave: 3.3.107 -> 3.3.108
 2021-03-19 10:24:36 +00:00
github-actions[bot] 6ffd2fe000
Merge master into staging-next 2021-03-19 06:17:55 +00:00
Jack Gerrits a364fb6557 vowpal-wabbit: init at 8.9.2 2021-03-18 18:41:07 -07:00
Jan Tojnar 2445e9a681
Merge branch 'master' into staging-next 2021-03-18 19:24:39 +01:00
Thomas Mader 09acdfde94
sambamba: 0.7.1 -> 0.8.0 
Getting rid of dmd dependency and compile with ldc
 2021-03-18 17:41:30 +02:00
Jan Tojnar 0136206b12
Merge branch 'master' into staging-next 2021-03-18 13:35:59 +01:00
R. RyanTM fadcc52955 lean: 3.27.0 -> 3.28.0 2021-03-17 14:16:02 +00:00
Sandro fe4a249718
Merge pull request #116594 from NixOS/SuperSandro2000-patch-1 
sage: remove duplicated pkgconfig
 2021-03-17 11:10:10 +01:00
Sandro 2d01f4a96a
sage: remove duplicated pkgconfig 2021-03-17 09:24:07 +01:00
Samuel Gräfenstein d90e7ac2e1
kicad: gnome3.dconf -> dconf 
Fix building with `config.allowAliases = false;`.
 2021-03-17 00:00:17 +01:00
Samuel Gräfenstein b72ee5775c
treewide: gnome2.gtk -> gtk2 
Fix building with `config.allowAliases = false;`.
 2021-03-17 00:00:16 +01:00
Samuel Gräfenstein 672cd0c8e7
treewide: gnome3.gtkmm -> gtkmm3 
Fix building with `config.allowAliases = false;`.
 2021-03-17 00:00:15 +01:00
Samuel Gräfenstein 9517398973
treewide: gnome3.defaultIconTheme -> gnome3.adwaita-icon-theme 
Fix building with `config.allowAliases = false;`.
 2021-03-17 00:00:15 +01:00
Dmitry Kalinkin 7adf3f8127
professor: init at 2.3.3 2021-03-16 11:14:00 -04:00
github-actions[bot] c7b23f6440
Merge master into staging-next 2021-03-14 18:17:08 +00:00
R. RyanTM 7c14c1a8d0 pcb: 4.2.2 -> 4.3.0 2021-03-14 13:34:35 -04:00
Martin Weinelt 0241873f7f
Merge branch 'master' into staging-next 2021-03-14 17:35:32 +01:00
mucaho ddf1821112 tla-toolbox: 1.7.0 -> 1.7.1 
* updates package version
* fixes #114741
* fixes TLC model check call
 2021-03-14 12:27:35 -04:00
Ryan Mulligan 0e63a1bb33
Merge pull request #115579 from r-ryantm/auto-update/stacks 
stacks: 2.53 -> 2.55
 2021-03-14 07:47:22 -07:00
Ryan Mulligan 03754f91eb
Merge pull request #115574 from r-ryantm/auto-update/SPAdes 
SPAdes: 3.14.1 -> 3.15.1
 2021-03-14 07:46:58 -07:00
github-actions[bot] 3b97019142
Merge master into staging-next 2021-03-14 06:17:28 +00:00
R. RyanTM 29bf7e2b89 jmol: 14.31.32 -> 14.31.34 2021-03-14 01:06:53 -05:00
R. RyanTM 621f19d89c calc: 2.12.8.2 -> 2.12.9.0 2021-03-13 23:43:28 -05:00