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5302 commits

Author SHA1 Message Date
Fabian Affolter 18b531b514 cwltool: 3.1.20210628163208 -> 3.1.20211104071347 2021-11-06 13:01:16 +01:00
Ellie Hermaszewska 03f9ced512
picoscope: 6.14.44 -> 7.0.83 2021-11-06 17:32:49 +08:00
Michael Raskin d8b7d0e066
Merge pull request #123511 from yorickvP/yorick-picoscope 
picoscope: init at 6.14.44-4r5870
 2021-11-06 08:48:13 +00:00
Alyssa Ross 02dfbde639
treewide: use mirror URLs where available 
Candidates identified with

	git grep -F "$(grep -v '#' pkgs/build-support/fetchurl/mirrors.nix |
		grep -v nixos.org | grep :// | cut -d '"' -f 2)"

and then manually reviewed and tested.
 2021-11-06 01:56:39 +00:00
Florian Klink 3097a43496 xmedcon: 0.21.0 -> 0.21.2 
in release 0.21.2 @ 20-Jul-2021 (Gtk+3)

    Small addition in our speedometer CSS theme: window titlebar is now in dark mode too
    Learned how to leave out annoying autotools reconfigure rules from Makefiles via AM_MAINTAINER_MODE macro
        Why? working with most recent autotools version <> older autotools version on most systems <> users are not necessarily developers ...
    Improvements for Wayland (CentOS Stream / OpenSUSE Tumbleweed)
        Menu "Online info" core dumps due to "toplevel" window problem
        Check "Gdk-CRITICAL gdk_monitor_get_workarea: assertion 'GDK_IS_MONITOR ()' failed"
        gtk_window_set_transient_for(window, parent)
        Not working GBC-widget (gamma, brightness, contrast)

in release 0.21.1 @ 01-May-2021 (Gtk+3)

    Require libpng >= 1.6.0 for Ubuntu's sake
    Added in GUI resizing to fifth and quint
    Secured two sprintf() statements
    Updated Inno Setup file for Gtk+3 dependencies
    Fresh update of application icon
    GIF89a: write "XMedCon" in application block
 2021-11-05 15:30:51 +01:00
Florian Klink 0886f51b37 xmedcon: fix meta.platforms 
platforms.darwin and platforms.linux are both lists. They need to be
concatenated, otherwise they're not recognized as supported platforms.
 2021-11-05 15:30:51 +01:00
Mauricio Collares 076563ebac sage: import sympy 1.9 update patch 2021-11-04 18:53:06 +01:00
Justin Bedő a5ac0a33a7
Merge pull request #144529 from r-ryantm/auto-update/picard-tools 
picard-tools: 2.26.3 -> 2.26.4
 2021-11-04 07:19:02 +11:00
R. Ryantm 509a8c298f picard-tools: 2.26.3 -> 2.26.4 2021-11-03 19:57:00 +00:00
Michael Raskin df3adb0398
Merge pull request #144502 from r-ryantm/auto-update/opensmt 
opensmt: 2.1.1 -> 2.2.0
 2021-11-03 18:23:06 +00:00
R. Ryantm 8fed17e682 opensmt: 2.1.1 -> 2.2.0 2021-11-03 18:03:12 +00:00
Bobby Rong 1c78751423
Merge pull request #144416 from bobby285271/mainprogram 
treewide: set meta.mainProgram for packages teams.pantheon.members maintain
 2021-11-03 20:10:33 +08:00
Bobby Rong 2483e778d4
treewide: set meta.mainProgram for packages teams.pantheon.members maintain 2021-11-03 19:07:21 +08:00
Artturi 0099cd6289
Merge pull request #137636 from bzizou/obitools 2021-11-03 12:30:53 +02:00
Bruno Bzeznik 0d9ec2d3f0 obitools3: fix build on aarch64 + formatting 2021-11-03 11:59:05 +02:00
R. Ryantm 14ee52edff elan: 1.3.0 -> 1.3.1 
(cherry picked from commit 4cb7820ac9)
 2021-11-03 10:51:13 +01:00
Artturi 74f25e606c
Merge pull request #143613 from r-ryantm/auto-update/cytoscape 
cytoscape: 3.8.2 -> 3.9.0
 2021-11-02 14:39:53 +02:00
Artturi 495f6106d5
Merge pull request #144226 from r-ryantm/auto-update/antiprism 
antiprism: 0.26 -> 0.29
 2021-11-02 14:19:37 +02:00
Artturi ff29a7175b
Merge pull request #143618 from r-ryantm/auto-update/dcm2niix 
dcm2niix: 1.0.20210317 -> 1.0.20211006
 2021-11-02 13:58:10 +02:00
R. Ryantm 253e9ecfab antiprism: 0.26 -> 0.29 2021-11-02 11:08:06 +00:00
Justin Bedo 257a939cfc
R: 4.1.1 -> 4.1.2 2021-11-02 17:42:34 +11:00
github-actions[bot] d27dd6653e
Merge master into staging-next 2021-11-02 00:01:32 +00:00
Vincent Laporte f727a6aebe why3: remove spurious camlp5 dependency 2021-11-01 20:37:57 +01:00
Mauricio Collares 89d7336c20 lean: 3.34.0 -> 3.35.0 2021-11-01 19:17:17 +01:00
Mauricio Collares c707a468a4 lean: 3.33.0 -> 3.34.0 2021-11-01 19:17:17 +01:00
github-actions[bot] bd0051cd54
Merge master into staging-next 2021-11-01 18:01:02 +00:00
Gabriel Ebner f13aa788e1 elan: 1.2.0 -> 1.3.0 2021-11-01 13:37:56 +01:00
github-actions[bot] 7eaf56d92e
Merge master into staging-next 2021-11-01 00:01:32 +00:00
Sandro dcc0ba6967
Merge pull request #144043 from Smaug123/lean-darwin 2021-10-31 23:39:39 +01:00
Smaug123 925ab444c9 elan: 1.1.0 -> 1.2.0 
The move to 1.1.0 broke Darwin: the patch introduced during that move
is also required on Darwin, but is hidden behind a Linux-specific
optional. The patch has since made it upstream, so the easiest fix
is simply to upgrade Elan.
 2021-10-31 21:41:38 +00:00
Sandro 254f7f273a
Merge pull request #143798 from evils/kicad-5.1.11 2021-10-31 22:11:41 +01:00
github-actions[bot] f66386e3b1
Merge master into staging-next 2021-10-31 12:01:13 +00:00
Robert Scott b56f93abf9
Merge pull request #143764 from r-ryantm/auto-update/hal-hardware-analyzer 
hal-hardware-analyzer: 3.2.6 -> 3.3.0
 2021-10-31 11:53:35 +00:00
Sergei Trofimovich 597eb07e00 yices: drop symlink hack, avoid ldconfig on linux 
Reported by sternenseemann as a failure on darwin:
https://github.com/NixOS/nixpkgs/pull/141541#discussion_r739634263

Instead of emulating symlink creation in `.nix` file let's create
them in Makefile.build directly in a way that can be upstreamed.
 2021-10-31 09:08:41 +01:00
Evils d44db8ddaa kicad: 5.1.10 -> 5.1.11 2021-10-30 06:32:39 +02:00
R. Ryantm 705e4006ae hal-hardware-analyzer: 3.2.6 -> 3.3.0 2021-10-29 22:20:48 +00:00
R. Ryantm 6282512ef7 dcm2niix: 1.0.20210317 -> 1.0.20211006 2021-10-29 09:34:20 +00:00
R. Ryantm 5ba5ff1a84 cytoscape: 3.8.2 -> 3.9.0 2021-10-29 09:08:26 +00:00
github-actions[bot] e7fbce41fc
Merge master into staging-next 2021-10-29 06:01:10 +00:00
R. Ryantm a5403b9a36 scotch: 6.0.4 -> 6.1.1 2021-10-29 03:59:24 +00:00
R. Ryantm d492837c98 betaflight-configurator: 10.7.0 -> 10.7.1 2021-10-29 03:14:38 +00:00
R. Ryantm 5f6bd8187b bcftools: 1.13 -> 1.14 2021-10-29 02:49:14 +00:00
R. Ryantm 760160e64d bcal: 2.2 -> 2.3 2021-10-29 02:44:23 +00:00
Martin Weinelt da1f248229 Merge remote-tracking branch 'origin/master' into staging-next 2021-10-28 19:51:45 +02:00
Sandro b25f4f082d
Merge pull request #143391 from eduardosm/remove-maintainer 2021-10-28 18:19:06 +02:00
Sandro Jäckel a3286ac6cb
gromacs: fix formatting 2021-10-28 16:47:06 +02:00
Sandro Jäckel face360c08
gromacs: replace lib.lists.optional with lib.optional 2021-10-28 16:46:13 +02:00
Eduardo Sánchez Muñoz 5fdab076f0 maintainers: remove eduardosm 2021-10-28 16:21:46 +02:00
Phillip Seeber e4d824f4e3 gromacs: bool switches for MPI and CUDA 2021-10-28 14:52:30 +02:00
github-actions[bot] ea4da560ff
Merge master into staging-next 2021-10-28 12:01:32 +00:00
Phillip Seeber 19e71dfa87 gromacs: 2020.4 -> 2021.3, cuda, mpi cleanups, performance tunings 
gromacs: dont build double cuda version


gromacs: propagate mpi
 2021-10-28 13:50:39 +02:00
Nikolay Korotkiy 89707c93aa
pcalc: enable on darwin 2021-10-28 12:47:11 +03:00
github-actions[bot] 160c71e060
Merge master into staging-next 2021-10-27 06:01:21 +00:00
Dmitry Kalinkin 4cdfe28fec
Merge pull request #142798 from veprbl/pr/sherpa_2_2_11 
sherpa: 2.2.10 -> 2.2.11
 2021-10-26 20:38:57 -04:00
github-actions[bot] 23c6bab47e
Merge master into staging-next 2021-10-27 00:01:25 +00:00
Sandro 673eb1eb65
Merge pull request #142795 from veprbl/pr/snakemake_6_10_0 2021-10-26 22:21:30 +02:00
github-actions[bot] 9a27efeb34
Merge master into staging-next 2021-10-26 18:01:19 +00:00
Mustafa Çalışkan 66ea992d48
fritzing: 0.9.6 -> unstable-2021-09-22 (#136142) 2021-10-26 17:23:21 +02:00
Dmitry Kalinkin b6ef9916e4
sherpa: 2.2.10 -> 2.2.11 2021-10-24 18:22:59 -04:00
Dmitry Kalinkin 49d19b7945
snakemake: 6.7.0 -> 6.10.0 2021-10-24 17:49:14 -04:00
Jonathan Ringer fc25d94010
Merge remote-tracking branch 'origin/master' into staging-next 
Conflicts:
	pkgs/development/python-modules/jupyter-client/default.nix
	pkgs/development/python-modules/jupyterlab-git/default.nix
 2021-10-22 09:33:07 -07:00
Vincent Laporte 22e732d03c tamarin-prover: 1.6.0 → 1.6.1 2021-10-22 07:38:30 +02:00
Artturi 493094366b
Merge pull request #142164 from jbedo/last 
last: 1179 -> 1256
 2021-10-22 08:37:19 +03:00
Justin Bedő 4e83abb0cb
Merge pull request #142199 from jbedo/picard 
picard-tools: 2.26.2 -> 2.26.3
 2021-10-22 14:36:28 +11:00
Justin Bedő 0689e7368d
Merge pull request #142333 from NixOS/r-updates 
rPackages: update R, CRAN, and BIOC
 2021-10-22 14:33:46 +11:00
Sandro b41a876d6e
Merge pull request #141750 from superherointj/python3-alias-jupyter-client 2021-10-21 21:56:31 +02:00
github-actions[bot] 54a42ab846
Merge master into staging-next 2021-10-21 06:01:21 +00:00
Bobby Rong 85b417446a
Merge pull request #142239 from bcdarwin/update-abella 
abella: 2.0.6 -> 2.0.7
 2021-10-21 08:51:08 +08:00
github-actions[bot] 5808494271
Merge master into staging-next 2021-10-20 00:01:37 +00:00
figsoda d68053da0a
Merge pull request #142256 from evils/kicad-domain 
kicad: use new domain name
 2021-10-19 17:46:19 -04:00
Evils e2ae6cc0f4 kicad: use new domain name 
as the old one is now no longer controlled by the kicad organization
 2021-10-19 23:31:38 +02:00
Ben Darwin 3032353fcb abella: 2.0.6 -> 2.0.7 2021-10-19 13:25:44 -04:00
Vladimír Čunát 01df3cd7dd
Merge branch 'master' into staging-next 2021-10-19 19:24:43 +02:00
Justin Bedo f120d4daf4
picard-tools: 2.26.2 -> 2.26.3 2021-10-19 21:24:56 +11:00
Justin Bedo 08489c40ab
fastp: 0.22.0 -> 0.23.1 2021-10-19 21:09:05 +11:00
Justin Bedo f7414542d0
last: 1179 -> 1256 2021-10-19 13:23:14 +11:00
github-actions[bot] 8863d12326
Merge master into staging-next 2021-10-18 12:01:18 +00:00
Ryan Burns 073fe478e1
Merge pull request #140209 from balodja/openmodelica 
openmodelica: 1.17.0 -> 1.18.0
 2021-10-18 02:06:22 -07:00
Justin Bedo 71eeb7ee56
Merge remote-tracking branch 'origin/master' into r-updates 2021-10-17 21:41:51 +11:00
Justin Bedo 3a0bdda3d9
R: add myself to maintainers 2021-10-17 08:41:58 +11:00
Martin Weinelt a415d5dd2e Merge remote-tracking branch 'origin/master' into staging-next 2021-10-15 23:10:08 +02:00
Théo Zimmermann e242eef8a4 coq_8_14: 8.14+rc1 -> 8.14.0 2021-10-15 18:50:05 +02:00
superherointj 206f3ab323 pythonPackages.jupyter_client: renamed to jupyter-client 2021-10-15 07:51:23 -03:00
Artturi 6d65c1c56d
Merge pull request #141541 from trofi/fix-yices-links 2021-10-15 05:07:49 +03:00
Martin Weinelt adf4e67dd4 Merge remote-tracking branch 'origin/staging' into staging-next 2021-10-15 01:34:36 +02:00
Shadaj Laddad 9d02ea53de cadical: include C++ headers 2021-10-14 15:23:05 -07:00
Michael Raskin ea4c595210
Merge pull request #141612 from vbgl/leo2-1.7.0 
leo2: 1.6.2 → 1.7.0
 2021-10-14 11:01:18 +00:00
Peter Simons 476635afe1 Drop myself from meta.maintainers for most packages. 
I'd like to reduce the number of Github notifications and
review requests I receive.
 2021-10-14 11:01:27 +02:00
Vincent Laporte cafe9f88fc
leo2: 1.6.2 → 1.7.0 
Fix build with recent C++ compilers

Use a more recent OCaml (4.05)
 2021-10-14 09:45:49 +02:00
Alyssa Ross 851b719ac6 treewide: use stdenv.hostPlatform.extensions.sharedLibrary where appropriate 2021-10-13 17:39:37 +00:00
Sergei Trofimovich 0b2d3bbfcb yices: 2.6.3 -> 2.6.2 
2.6.3 is not a stable tag (and is really a 2.6.4 in disguise).
Failure is noticed by vbgl in https://github.com/NixOS/nixpkgs/pull/141241#issuecomment-942103854

The change downgrades from unstable to latest stable release and
adds a check for file presence to prevent upgrade that silently
breaks symlink.
 2021-10-13 17:58:26 +01:00
Théo Zimmermann 3437b543fd coq_8_14: init at 8.14+rc1 2021-10-13 10:44:09 +02:00
Vincent Laporte e31bc3d26a coq2html: 1.2 → 1.3 2021-10-13 10:15:05 +02:00
github-actions[bot] 0bb8cb9c7a
Merge staging-next into staging 2021-10-13 06:01:52 +00:00
Ryan Burns 2df1874125
Merge pull request #141430 from r-ryantm/auto-update/MAVProxy 
mavproxy: 1.8.44 -> 1.8.45
 2021-10-12 17:59:17 -07:00
R. RyanTM f9da99e40d mavproxy: 1.8.44 -> 1.8.45 2021-10-13 00:39:29 +00:00
github-actions[bot] e69f5a133f
Merge staging-next into staging 2021-10-13 00:02:00 +00:00
Sergei Trofimovich b18a746169
yices: 2.6.1 -> 2.6.3 (#141241) 
Co-authored-by: Sandro <sandro.jaeckel@gmail.com>
 2021-10-12 23:09:47 +02:00
Sandro 1aac6f3b28
Merge pull request #141302 from felixsinger/pkgs/gtkwave/update 2021-10-12 21:38:24 +02:00
github-actions[bot] 0cb186d33d
Merge staging-next into staging 2021-10-12 18:01:50 +00:00
Vincent Laporte 17e2fbf2dc alt-ergo: 2.4.0 → 2.4.1 2021-10-12 14:41:54 +02:00
github-actions[bot] 7af387291c
Merge staging-next into staging 2021-10-12 12:02:08 +00:00
Sandro 2017c3a883
Merge pull request #141301 from jbedo/samtools 2021-10-12 11:30:07 +02:00
github-actions[bot] 5065827878
Merge staging-next into staging 2021-10-12 00:02:05 +00:00
Felix Singer c1ecf6d2b4 gtkwave: 3.3.110 -> 3.3.111 
Update GTKWave to latest release. Also, reformat default.nix.

Signed-off-by: Felix Singer <felixsinger@posteo.net>
 2021-10-12 01:40:44 +02:00
Justin Bedo 02a1a2b3c8
samtools: 1.11 -> 1.13 2021-10-12 10:19:36 +11:00
Artturi d5ac63708f
Merge pull request #135133 from r-ryantm/auto-update/emuflight-configurator 2021-10-11 21:03:27 +03:00
github-actions[bot] 1b2b1c3d56
Merge staging-next into staging 2021-10-10 00:02:14 +00:00
Gabriel Ebner 9044534a8d elan: 1.0.7 -> 1.1.0 2021-10-09 20:06:10 +02:00
github-actions[bot] 73444b1e90
Merge staging-next into staging 2021-10-09 12:01:44 +00:00
Ryan Burns 5170bbc015
Merge pull request #140689 from r-ryantm/auto-update/MAVProxy 
mavproxy: 1.8.43 -> 1.8.44
 2021-10-09 00:43:10 -07:00
github-actions[bot] 7a3a25044d
Merge staging-next into staging 2021-10-09 00:02:05 +00:00
markuskowa 14ab975a71
Merge pull request #140975 from sheepforce/avogadro2-updates 
avogadro2: 1.94.0 -> 1.95.1
 2021-10-08 22:02:11 +02:00
Phillip Seeber aa02e7f828 avogadro2: initialise a translation repo 2021-10-08 14:43:13 +02:00
Phillip Seeber 181689dfea avogadro2: 1.94.0 -> 1.95.1 2021-10-08 14:26:19 +02:00
github-actions[bot] 5da3c99f54
Merge staging-next into staging 2021-10-08 12:02:03 +00:00
Gabriel Ebner be4d1ca79c
Merge pull request #140916 from andersk/lean 
lean: 3.32.1 → 3.33.0
 2021-10-08 10:37:22 +02:00
Anders Kaseorg 4ce09e0e06 lean: 3.32.1 → 3.33.0 
Signed-off-by: Anders Kaseorg <andersk@mit.edu>
 2021-10-07 18:54:06 -07:00
github-actions[bot] ae9f8ec1b6
Merge staging-next into staging 2021-10-07 00:02:11 +00:00
Justin Bedő 68f25d5a86
Merge pull request #140170 from marsam/r-hydra 
R: don't restrict hydraPlatforms
 2021-10-07 08:54:26 +11:00
R. RyanTM a1e297d282 mavproxy: 1.8.43 -> 1.8.44 2021-10-06 00:35:56 +00:00
github-actions[bot] 4bbe70b6f4
Merge staging-next into staging 2021-10-06 00:02:16 +00:00
Bruno Bzeznik fe36d93cea siesta: 4.1-b3 -> 4.1.5 2021-10-05 22:46:40 +02:00
github-actions[bot] b7725a001d
Merge staging-next into staging 2021-10-04 18:01:44 +00:00
figsoda 3109ff5765 treewide: avoid use of lib.optional with list in inputs 2021-10-04 13:02:42 -04:00
Narazaki, Shuji 4de6574fb8 kissat: init at 2.0.1 2021-10-04 08:45:36 +09:00
github-actions[bot] 23fbe4eb93
Merge staging-next into staging 2021-10-03 18:01:40 +00:00
Sandro 87180d88f9
Merge pull request #140102 from r-ryantm/auto-update/MAVProxy 2021-10-03 19:20:09 +02:00
github-actions[bot] 9960091b16
Merge staging-next into staging 2021-10-02 18:01:48 +00:00
Alex Martens 5430af2013 dwfv: init at 0.4.1 2021-10-02 09:03:37 -07:00
Vladimir Korolev 72d4a1f13d openmodelica: v1.17.0 -> v1.18.0, add balodja to openmodelica maintainers 2021-10-02 12:39:57 +03:00
Mario Rodas 4662abd3b4 R: don't restrict hydraPlatforms 
The restriction of hydraPlatforms was added in [1: ef05fad51a], but
doesn't seem to be a real reason behind it. R is Free Software and it
take takes a few minutes to build so I believe it can be distributed by
Hydra.

1: 2014-05-04 ef05fad51a
   R: don't restrict meta.platforms to Linux; other architectures should build fine
 2021-10-01 04:20:00 +00:00
R. RyanTM e7ad746486 mavproxy: 1.8.42 -> 1.8.43 2021-10-01 00:38:44 +00:00
github-actions[bot] a92850904c
Merge staging-next into staging 2021-09-30 18:01:43 +00:00
Bobby Rong 8145828985
Merge pull request #134593 from r-ryantm/auto-update/star 
star: 2.7.8a -> 2.7.9a
 2021-09-30 22:39:05 +08:00
github-actions[bot] 2dfffe79b2
Merge staging-next into staging 2021-09-30 00:02:24 +00:00
Austin Seipp d474571392 symbiyosys: 2020.08.22 -> 2021.09.13 
Signed-off-by: Austin Seipp <aseipp@pobox.com>
 2021-09-29 13:14:27 -05:00
github-actions[bot] ce4a8ae240
Merge staging-next into staging 2021-09-29 18:01:44 +00:00
Sandro 8f7fa26a78
Merge pull request #139309 from Baltoli/bump-z3 2021-09-29 15:00:38 +02:00
Thomas Tuegel 0e87e81ee5
Merge pull request #139764 from veprbl/pr/qtwrap_ismacho 
qt: use isELF and isMachO in wrapQtAppsHook
 2021-09-28 20:37:15 -05:00
Timo Kaufmann cb3342eec8
Merge pull request #139758 from collares/sage-threejs-path 
threejs-sage: install in expected location
 2021-09-28 20:05:18 +02:00
Mauricio Collares a5a7c33e77 threejs-sage: install in expected location 
Co-authored-by: Timo Kaufmann <timokau@zoho.com>
 2021-09-28 19:06:48 +02:00
Dmitry Kalinkin e0532475bc
treewide: remove darwin-only manual wrapQtApp invocations 2021-09-28 10:29:46 -04:00
Sandro 5b5fb57aed
Merge pull request #139745 from Ma27/bump-stellarium 2021-09-28 14:12:02 +02:00
Maximilian Bosch fbdf7d2206
stellarium: 0.21.1 -> 0.21.2 
ChangeLog: https://github.com/Stellarium/stellarium/releases/tag/v0.21.2
 2021-09-28 13:49:59 +02:00
Robert Schütz 54e1db2152
Merge pull request #138479 from dotlambda/proj-8.1.1 
proj: 7.2.1 -> 8.1.1
 2021-09-27 16:46:32 -07:00
Robert Schütz 98c8fc6fd0 gplates: 2.2.0 -> 2.3.0 2021-09-26 23:11:29 -07:00
Ryan Burns 4e1586c6ad
Merge pull request #139338 from r-burns/protobuf 
treewide: fixes for protobuf 3.18+
 2021-09-25 14:54:43 -07:00
Bruce Collie 3e213b8699 z3: 4.8.10 -> 4.8.12 2021-09-24 11:46:21 +01:00
R. RyanTM 5becb56f71
star: 2.7.8a -> 2.7.9a 2021-09-24 10:37:28 +08:00