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7640 Commits

Author SHA1 Message Date
Sandro
93640c56d1
Merge pull request #227420 from GaetanLepage/torchbin-update 
python3Packages.torch-bin: 1.13.1 -> 2.0.0
 2023-05-03 09:58:56 +02:00
Weijia Wang
2992b28922
Merge pull request #229494 from bcdarwin/update-ants 
ants: 2.4.3 -> 2.4.4
 2023-05-03 00:25:01 +03:00
Ben Wolsieffer
9034073d25 mission-planner: 1.3.76 -> 1.3.80 2023-05-02 15:48:27 -04:00
Ben Darwin
cf573698b1 ants: 2.4.3 -> 2.4.4 2023-05-02 12:29:21 -04:00
Daniel Nagy
8372789e47
qgroundcontrol: 4.2.4 -> 4.2.6 
Diff: https://github.com/mavlink/qgroundcontrol/compare/v4.2.4...v4.2.6
 2023-05-02 16:45:00 +02:00
Weijia Wang
ea4289e1f9 nvc: 1.9.1 -> 1.9.2 2023-05-02 11:02:08 +03:00
Luflosi
e97667163e
verilog: 11.0 -> 12.0 
https://github.com/steveicarus/iverilog/releases/tag/v12_0

Bump `iverilog` to 12.0, fixing two build failures:

1. autoconf now picks up on the unwrapped `x86_64-unknown-gnu-gcc` in
   path that fails at configurePhase to link executables.
   See: https://github.com/NixOS/nixpkgs/issues/21751
   fix/hack: define the `{CC,CXX}_FOR_BUILD` variables.
2. buildPhase generates a `-Werror=format-security` error. Backport
   the the upstream patch that fixed the warning very shortly after the
   release was cut.

And in the process,

- use post-install tests from `.github/test.sh` and as a result,
  remove the now unneeded clone of `ivtest`
- un-pin the verilog autoconf version

Signed-off-by: Jack Leightcap <jack@leightcap.com>
 2023-05-01 17:46:06 -04:00
Weijia Wang
f2bef820c8
Merge pull request #228994 from r-ryantm/auto-update/minimap2 
minimap2: 2.24 -> 2.25
 2023-05-01 07:13:09 +03:00
R. Ryantm
6300f3bfb2 elan: 1.4.2 -> 1.4.5 2023-04-30 15:35:03 +00:00
Weijia Wang
41bfa33de5
Merge pull request #229083 from sikmir/pulseview 
pulseview: enable on darwin
 2023-04-30 14:39:16 +03:00
Nikolay Korotkiy
11b65fea77
pulseview: enable on darwin 2023-04-30 14:34:10 +04:00
Nikolay Korotkiy
5b9065da7e
pulseview: refactor 
* Remove Qt's mkDerivation in favour of stdenv.mkDerivation to fix https://github.com/NixOS/nixpkgs/issues/180841
* Move qttools to nativeBuildInputs
 2023-04-30 14:33:24 +04:00
figsoda
3dcff817ee
Merge pull request #228998 from r-ryantm/auto-update/rofi-calc 
rofi-calc: 2.1.0 -> 2.2.0
 2023-04-29 19:07:58 -04:00
R. Ryantm
168782c6c5 rofi-calc: 2.1.0 -> 2.2.0 2023-04-29 22:12:20 +00:00
R. Ryantm
54a5899734 minimap2: 2.24 -> 2.25 2023-04-29 21:45:58 +00:00
Weijia Wang
317f78618e
Merge pull request #228880 from r-ryantm/auto-update/sumo 
sumo: 1.16.0 -> 1.17.0
 2023-04-30 00:24:48 +03:00
Gaetan Lepage
608908ed7a lit: move to python-modules 2023-04-29 13:53:50 +02:00
R. Ryantm
ec75148ca2 sumo: 1.16.0 -> 1.17.0 2023-04-29 09:39:15 +00:00
R. Ryantm
395db2896e bedtools: 2.30.0 -> 2.31.0 2023-04-29 03:05:55 +00:00
Weijia Wang
8fcab98a40
Merge pull request #228633 from NixOS/revert-226351-pr/root7 
Revert "root: enable root7"
 2023-04-28 22:56:05 +03:00
Austin Seipp
5e871533c4 verilator: 5.006 -> 5.008 
Signed-off-by: Austin Seipp <aseipp@pobox.com>
 2023-04-28 04:40:45 -05:00
Austin Seipp
6a086197c2 verilator: wrap with glibc LOCALE_ARCHIVE iff stdenv.isLinux 
Signed-off-by: Austin Seipp <aseipp@pobox.com>
 2023-04-28 04:40:45 -05:00
Dmitry Kalinkin
9092b9b5df Revert "root: enable root7 (#226351)" 
This reverts commit cafa2f02fb.
 2023-04-27 22:23:56 -04:00
Dmitry Kalinkin
af661f3be7
Revert "root: fix build on aarch64-darwin" 2023-04-27 18:36:02 -04:00
Weijia Wang
36302a3056 root: fix build on aarch64-darwin 2023-04-27 23:22:33 +03:00
Weijia Wang
7b57f59155
Merge pull request #218968 from pmiddend/crystfel-aarch64 
CrystFEL: support aarch64-linux and HDF5 on Darwin
 2023-04-26 19:32:54 +03:00
Henner Zeller
e3032b1d78 surelog: 1.45 -> 1.57 
Also, no vendored dependencies anymore, so we can fetch git
without submodules and use the libraries provided from
nix (flatbuffers, uhdm, gtest, antlr).
 2023-04-26 01:47:32 -05:00
Henner Zeller
d2831ca5da uhdm: 1.45 -> 1.57 
Also no vendored dependencies anymore, capnproto is now directly
used from nix, no third_party/ submodules are needed anymore.
 2023-04-26 01:47:32 -05:00
Weijia Wang
df05dd61c9
Merge pull request #227939 from natsukium/bedops/darwin 
bedops: fix build on darwin
 2023-04-26 01:14:58 +03:00
Weijia Wang
1923403c55
Merge pull request #227712 from r-ryantm/auto-update/workcraft 
workcraft: 3.3.9 -> 3.4.0
 2023-04-26 00:24:21 +03:00
Anderson Torres
88d37af1e9 calc: use overlay-style overridable attributes 2023-04-25 18:17:30 -03:00
Anderson Torres
c3a3f7737a calc: realign lists 2023-04-25 18:17:30 -03:00
Anderson Torres
f4a6e456c1 calc: use hash instead of sha256 2023-04-25 18:17:30 -03:00
Anderson Torres
580519cfcd calc: rewrite the arguments attrset 2023-04-25 18:17:30 -03:00
Anderson Torres
2137fe7093 calc: remove references to pname 2023-04-25 18:17:30 -03:00
Anderson Torres
fc519cb40b calc: refactor meta 2023-04-25 18:17:30 -03:00
Anderson Torres
1ee74c1439 calc: add meta.changelog 2023-04-25 18:17:30 -03:00
Weijia Wang
b3962d303c
Merge pull request #227524 from r-ryantm/auto-update/celestia 
celestia: 1.6.2.2 -> 1.6.3
 2023-04-26 00:11:11 +03:00
Ben Darwin
3a39edac80 elmerfem: 9.0 -> unstable-2023-02-03 
vtk_8_withQt5 -> vtkWithQt5
 2023-04-24 21:47:01 -04:00
natsukium
8d40a0ecaa
bedops: fix build on darwin 2023-04-24 22:11:47 +09:00
markuskowa
167d970ba8
Merge pull request #227870 from markuskowa/upd-gromacs 
gromacs: 2023 -> 2023.1
 2023-04-24 11:33:16 +02:00
markuskowa
7677c610e1
Merge pull request #227874 from markuskowa/upd-octopus 
octopus: 12.1 -> 12.2
 2023-04-24 10:48:49 +02:00
Nick Cao
ab7c128e3c
Merge pull request #227207 from natsukium/kent/update 
kent: 404 -> 446
 2023-04-24 10:03:16 +08:00
Sandro
9bc9cfe51d
Merge pull request #222660 from natsukium/hh-suite/init 2023-04-23 23:42:38 +02:00
Markus Kowalewski
94add42651
octopus: 12.1 -> 12.2 2023-04-23 21:53:05 +02:00
Markus Kowalewski
6cc2ab022a
gromacs: 2023 -> 2023.1 2023-04-23 21:36:32 +02:00
R. Ryantm
8af51c3628 workcraft: 3.3.9 -> 3.4.0 2023-04-23 00:06:26 +00:00
Nick Cao
99c4e7b895
Merge pull request #227170 from jbedo/subread 
subread: 2.0.4 -> 2.0.5
 2023-04-22 11:05:37 +08:00
R. Ryantm
3a14846ec7 celestia: 1.6.2.2 -> 1.6.3 2023-04-22 00:23:56 +00:00
Robert Schütz
2362848adf truvari: add natsukium to maintainers 2023-04-21 13:43:26 -07:00
Robert Schütz
ea468d9691 truvari: 2.1.1 -> 4.0.0 
Diff: https://github.com/spiralgenetics/truvari/compare/v2.1.1...v4.0.0
 2023-04-21 13:43:26 -07:00
Weijia Wang
34880cf0dc
Merge pull request #227313 from r-ryantm/auto-update/jags 
jags: 4.3.1 -> 4.3.2
 2023-04-21 21:37:51 +03:00
Weijia Wang
482e796513
Merge pull request #227292 from r-ryantm/auto-update/tlaplus 
tlaplus: 1.7.2 -> 1.7.3
 2023-04-21 00:07:16 +03:00
Weijia Wang
7026ff1bd9
Merge pull request #226579 from r-ryantm/auto-update/gtkwave 
gtkwave: 3.3.114 -> 3.3.115
 2023-04-20 21:54:13 +03:00
R. Ryantm
98a12d5f89 jags: 4.3.1 -> 4.3.2 2023-04-20 18:41:59 +00:00
R. Ryantm
3012b98a08 tlaplus: 1.7.2 -> 1.7.3 2023-04-20 15:51:31 +00:00
Felix Schröter
1843807ba3
sad: remove old, unmaintained package 
The package isn't maintained and hasn't been exposed for a while.
Meanwhile there's been added a new package with the same name.
This change doesn't touch the new package.
 2023-04-20 11:26:01 +02:00
Weijia Wang
7ea26cf753
Merge pull request #227027 from wegank/lablgl-fix 
ocamlPackages.lablgl: unbreak on darwin
 2023-04-20 10:17:15 +03:00
natsukium
23205d28d2
kent: add missing information to the meta 2023-04-20 16:06:09 +09:00
natsukium
5b62152599
kent: add runHooks 2023-04-20 16:06:08 +09:00
natsukium
1e68ff3ee9
kent: 404 -> 446 
https://github.com/ucscGenomeBrowser/kent/compare/v404_base...v446_base
 2023-04-20 16:05:44 +09:00
Weijia Wang
17148b8f7d
Merge pull request #226929 from cransom/pcb2gcode-darwin 
pcb2gcode: fix build on darwin
 2023-04-20 09:53:22 +03:00
Nick Cao
e6a95d9628
Merge pull request #227036 from natsukium/tandem-aligner/v0.1 
tandem-aligner: unstable-2022-09-17 -> 0.1
 2023-04-20 09:17:52 +08:00
Casey Ransom
3ed1e3b268 pcb2gcode: fix build on darwin 
This version bumps gerbv as well.
 2023-04-19 21:15:54 -04:00
Justin Bedo
718170ed41
subread: 2.0.4 -> 2.0.5 2023-04-20 10:25:20 +10:00
Robert Scott
d32a852d2a
Merge pull request #226329 from risicle/ris-streamlit-1.21.0 
streamlit: 1.18.1 -> 1.21.0
 2023-04-19 18:12:10 +01:00
Dmitry Kalinkin
cafa2f02fb
root: enable root7 (#226351) 2023-04-19 10:28:26 -04:00
natsukium
e201b1556f
tandem-aligner: add changelog to meta 2023-04-19 21:23:21 +09:00
natsukium
14d7a73714
tandem-aligner: unstable-2022-09-17 -> 0.1 
https://github.com/seryrzu/tandem_aligner/releases/tag/v0.1
 2023-04-19 21:22:18 +09:00
Weijia Wang
c2c0c070cf glsurf: update platforms 2023-04-19 12:01:16 +03:00
natsukium
a272606614
hh-suite: init at 3.3.0 2023-04-19 10:32:35 +09:00
Artturi
9a1f5d4248
Merge pull request #226889 from Artturin/fixlints2 2023-04-18 21:52:21 +03:00
Artturin
eac28f38d6 treewide: fix lints 
Arg to lib.optional is a list

build time tool in buildInputs

*Flags not a list

https://github.com/nix-community/nixpkgs-lint
 2023-04-18 20:20:56 +03:00
7c6f434c
0a187c56e3
Merge pull request #226628 from natsukium/jmol/update 
jmol: 16.1.3 -> 16.1.9
 2023-04-18 15:29:43 +00:00
Sandro
555daa9d33
Merge pull request #221957 from natsukium/dssp/update 
dssp: 4.0.5 -> 4.2.2.1
 2023-04-18 16:34:17 +02:00
Sandro
db3d1dbe79
Merge pull request #226042 from collares/ipywidgets805 
python3Packages.ipywidgets: 8.0.4 -> 8.0.6
 2023-04-18 16:25:27 +02:00
Doron Behar
0c57b3ac86
Merge pull request #226645 from alyaeanyx/qalculate-4.6.1 
libqalculate, qalculate-gtk, qalculate-qt: 4.6.0 -> 4.6.1
 2023-04-17 09:36:08 -07:00
Thomas Tuegel
ccf7156d8d
Merge pull request #217974 from pxrl/pxrl/z3 
z3: 4.8.15 -> 4.8.17
 2023-04-17 10:03:07 -05:00
alyaeanyx
834c6bf777 libqalculate, qalculate-gtk, qalculate-qt: 4.6.0 -> 4.6.1 2023-04-17 15:42:23 +02:00
Nick Cao
e94b6203c9
Merge pull request #226546 from returntoreality/kstars-update 
kstars: 3.6.3 -> 3.6.4
 2023-04-17 19:47:39 +08:00
natsukium
23e78ca2fc
jmol: 16.1.3 -> 16.1.9 2023-04-17 17:53:08 +09:00
R. Ryantm
c806a5c121 gtkwave: 3.3.114 -> 3.3.115 2023-04-17 03:29:10 +00:00
Weijia Wang
9e47fc8658
Merge pull request #226455 from wegank/nvc-bump 
nvc: 1.9.0 -> 1.9.1
 2023-04-16 19:01:18 +03:00
R. Ryantm
f30febf830 form: 4.3.0 -> 4.3.1 2023-04-16 11:18:22 -04:00
Weijia Wang
4825f97fce nvc: 1.9.0 -> 1.9.1 2023-04-16 15:11:11 +03:00
Atemu
445ef28548
Merge pull request #225748 from Atemu/buildFHSEnvBubblewrap-by-default 
buildFHSEnv: use bubblewrap by default
 2023-04-16 13:03:36 +02:00
Atemu
f63a12f296 tree-wide: buildFHSUserEnv -> buildFHSEnv 2023-04-16 10:15:13 +02:00
Bobby Rong
2abbfae038
Merge pull request #226353 from kindrowboat/fix-nasc 
nasc: fix compile failure
 2023-04-16 09:40:48 +08:00
Stef Dunlap
79c4e8aaa8 nasc: fix compile failure 
Fix inspired by AUR patch: https://aur.archlinux.org/packages/nasc#comment-879822
 2023-04-15 17:18:12 -04:00
Weijia Wang
ea734f4e9a
Merge pull request #224357 from wegank/sasview-fix 
sasview: fix build
 2023-04-15 20:35:49 +03:00
Evils
cce076bd24 kicad-unstable: 2023-03-29 -> 2023-04-14 
workaround for upstream issue 14346 no longer needed
 2023-04-15 12:32:23 +02:00
Evils
534f790a75 kicad: 7.0.1 -> 7.0.2 2023-04-15 12:32:23 +02:00
Robert Scott
a604287fbe streamlit: 1.18.1 -> 1.21.0 2023-04-15 11:23:01 +01:00
Nick Cao
25e21b34a9
Merge pull request #226208 from panicgh/dataexplorer 
dataexplorer: 3.7.4 -> 3.7.6
 2023-04-15 11:30:56 +08:00
Weijia Wang
b5eaa9ffd9 stellarium: update darwin patches 2023-04-15 03:10:34 +03:00
Nicolas Benes
1f8eeba04f dataexplorer: 3.7.4 -> 3.7.6 2023-04-15 00:47:26 +02:00
natsukium
62943901dd
dssp: 4.0.5 -> 4.2.2.1 
https://github.com/PDB-REDO/dssp/compare/v4.0.5...v4.2.2.1
 2023-04-14 11:35:48 +09:00
Mauricio Collares
058dc0f6df sage: replace ipywidgets workaround by update patches 2023-04-13 22:15:27 +02:00
7c6f434c
8f8acb2140
Merge pull request #225723 from r-ryantm/auto-update/opensmt 
opensmt: 2.4.3 -> 2.5.0
 2023-04-13 08:54:55 +00:00
Nick Cao
2833fc3981
Merge pull request #225841 from natsukium/mafft/update 
mafft: 7.515 -> 7.520
 2023-04-13 09:15:12 +08:00