Commit graph

35482 commits

Author SHA1 Message Date
Manuela Kuhn
1265c7df47
py-jupyter-client: add 8.2.0 (#38180) 2023-06-07 21:48:12 -05:00
Alec Scott
91e3f14959
hbase: add v2.5.3 (#38073) 2023-06-07 18:11:21 -07:00
Alec Scott
5f03eb650d
chemfiles: add v0.10.4 (#38063) 2023-06-07 18:05:37 -07:00
Martin Pokorny
e0e6133444
casacore: add v3.5.0 (#37806) 2023-06-07 23:12:08 +02:00
Nate deVelder
ee68baf254
OpenFAST: add v3.3.0, v3.4.0 and v3.4.1 (#37407) 2023-06-07 23:10:39 +02:00
Christopher Kotfila
785c1a2070
Add documentation about package signing model (#30939)
Co-authored-by: Scott Wittenburg <scott.wittenburg@kitware.com>
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2023-06-07 23:05:44 +02:00
Dan Lipsa
79656655ba
Guard for define in netcdf 4.9.0 and later. (#37853)
* Guard for define in netcdf 4.9.0 and later.

This code is already available in ParaView 5.11.0 so no patching
needed there.

* Add latest needed version (even if not in spack).

---------

Co-authored-by: Dan Lipsa <dan.lipsa@khq.kitware.com>
2023-06-07 14:20:27 -05:00
Sajid Ali
74921788a8
llvm: add new versions and set default for libomptarget according to os (#38092)
* llvm: add new versions and set default for libomptarget according to os

	modified:   var/spack/repos/builtin/packages/llvm/package.py

* Incorporate reviewer suggestions

Co-authored-by: Sergey Kosukhin <skosukhin@gmail.com>

---------

Co-authored-by: Sergey Kosukhin <skosukhin@gmail.com>
2023-06-07 10:55:46 -05:00
Carlos Bederián
b313b28e64
nwchem: remove -mtune=native flags (#37892)
Co-authored-by: Edoardo Aprà <edoardo.apra@gmail.com>
2023-06-07 09:02:35 +02:00
eugeneswalker
5f1bc15e80
E4S Cray CI Stack (#37837)
* e4s cray ci stack

* e4s ci: add cray

* add zen4 tag

* WIP: new defintions just for cray

* updates

* remove ci signing job overrride, not necessary

* echo $PATH and show modules loaded

* add mirror

* add external def for cray-libsci

* comment out quantum-espresso

* use /etc/protected-runner as key path

* cray ci stack: do not remove tags: [spack, public]

* make cray stack composable

* generate job should run on public tagged runner, override default config:install_tree:root

* CI: Use relative path in default script

* CI: Use relative includes paths for shell runners

* Use concrete_env_dir for relpath

* ml-darwin-aarch64-mps: jax has bazel codesign issue

---------

Co-authored-by: Scott Wittenburg <scott.wittenburg@kitware.com>
Co-authored-by: Ryan Krattiger <ryan.krattiger@kitware.com>
2023-06-06 18:41:32 -07:00
Mikael Simberg
fa9fb60df3
CachedCMakePackage: fix bug where CMAKE_CUDA_ARCHITECTURES=none is set (#38169)
#37592 updated cached cmake packages to set CMAKE_CUDA_ARCHITECTURES.
The condition `if archs != "none"` lead to `CMAKE_CUDA_ARCHITECTURES=none`
when cuda_arch=none (incorrect check on the value of a multi-valued
variant), i.e. CMAKE_CUDA_ARCHITECTURES is always set. This PR udpates
the condition to if archs[0] != "none" to ensure CMAKE_CUDA_ARCHITECTURES
is only set if cuda_arch is not none (which seems to be the pattern used
in other packages).

This does the same for HIP (although in general ROCmPackage disallows
amdgpu_target=none when +rocm).
2023-06-06 14:41:02 -07:00
Mosè Giordano
e759e6c410
julia: Update patch for llvm 14 without binary files (#37959) 2023-06-06 21:53:20 +02:00
Jonathon Anderson
f41446258a
containers: don't install epel-release on Fedora (#37766) 2023-06-06 21:50:46 +02:00
Erik Schnetter
268649654d
openssl: add versions 1.1.1u, 3.0.9, 3.1.1 (#38023) 2023-06-06 21:49:01 +02:00
Diego Alvarez S
12e249f64e
Add nextflow 23.04.1 (#38166) 2023-06-06 12:12:50 -07:00
Tamara Dahlgren
c34cd76f2a
perl: convert to new stand-alone test process (#37727) 2023-06-06 12:07:44 -07:00
Tamara Dahlgren
815b210fc8
tests/ginkgo: converted to new stand-alone test process (#35730)
* Ginkgo: converted to new stand-alone test process

* ginkgo: update string formatting, compiler setting
2023-06-06 11:58:53 -07:00
Tamara Dahlgren
e5d5efb4c1
tests/darshan-util: convert to new stand-alone test process (#37836) 2023-06-06 11:56:40 -07:00
Tamara Dahlgren
0aa4b4d990
tests/oommf: convert to new stand-alone test process (#38009)
* oommf: convert to new stand-alone test process

* oommf: Switch build-time tests to documented approach
2023-06-06 11:55:33 -07:00
Tamara Dahlgren
01c1d334ae
tests/mfem: convert to new stand-alone test process (#38011)
* mfem: convert to new stand-alone test process
* Restore make target, use config_mk property
2023-06-06 11:42:51 -07:00
Massimiliano Culpo
717fc11a46
Don't build rocky:9 images for ppc64le (#38202)
See https://docs.rockylinux.org/release_notes/9_2/
2023-06-06 17:46:53 +02:00
eugeneswalker
d21c49e329
@develop+stokhos: do not set Stokhos_ENABLE_PCE_Scalar_Type=False (#38187) 2023-06-06 08:32:21 -07:00
Tamara Dahlgren
6937d9dddc
eigenexa: convert to new stand-alone test process (#35745) 2023-06-06 15:08:51 +02:00
Thomas Bouvier
4c2531d5fb
libraqm: add missing fribidi dependency (#36125)
* `libraqm`: add missing `fribidi` dependency
* `libraqm`: add `sheenbidi` variant
* [@spackbot] updating style on behalf of thomas-bouvier

---------

Co-authored-by: thomas-bouvier <thomas-bouvier@users.noreply.github.com>
2023-06-05 18:13:42 -04:00
Alex Richert
62fd890c52
Rename fpic variant to pic for fms (#38101) 2023-06-05 14:58:52 -07:00
Alex Richert
4772fd7723
Add MADIS package (#38097)
* Add MADIS package
* madis update
* [@spackbot] updating style on behalf of AlexanderRichert-NOAA
* allow arg mismatch for gcc@10: for madis
2023-06-05 14:31:51 -07:00
snehring
7c11faceb0
ninja-phylogeny: adding new package ninja-phylogeny (#38182) 2023-06-05 16:44:51 -04:00
Alec Scott
053550e28a
asdcplib: add v2_10_38 (#37971) 2023-06-05 12:46:19 -07:00
Alec Scott
3ed7258447
fjcontrib: add v1.052 (#38116) 2023-06-05 14:25:30 -05:00
Manuela Kuhn
a5cf5baa9e
py-jupyterlab: add 4.0.1 incl. new dependencies (#38102) 2023-06-05 13:54:20 -05:00
Alec Scott
ec8039cc74
seal: add v4.1.1 (#38155) 2023-06-05 11:46:40 -07:00
snehring
9bfa840c27
ncbi-rmblastn: adding new version 2.14.0 (#38173)
* ncbi-rmblastn: adding new version 2.14.0
* ncbi-rmblastn: add maintainer
2023-06-05 11:45:15 -07:00
Alec Scott
9865f42335
azcopy: add v10.19.0 (#38106) 2023-06-05 10:56:34 -07:00
Alec Scott
dba2829871
hssp: add v3.1.5 (#38107) 2023-06-05 10:51:30 -07:00
Alec Scott
8c0e1fbed9
diamond: add v2.1.7 (#38115) 2023-06-05 10:46:39 -07:00
Alec Scott
187488b75b
optional-lite: add v3.5.0 (#38148) 2023-06-05 10:24:37 -07:00
Alec Scott
2aa35fef3e
nccmp: add v1.9.1.0 (#38142) 2023-06-05 10:15:25 -07:00
Nathalie Furmento
d373fc36ae
starpu: add release 1.3.11 (#38172) 2023-06-05 09:12:40 -07:00
Massimiliano Culpo
e483762015
Update RtD and Sphinx configuration (#38046) 2023-06-05 17:39:11 +02:00
Houjun Tang
5840a00000
Update package.py require HDF5 1.14+ (#38026) 2023-06-05 11:27:53 -04:00
George Young
110f836927
fastqc: add 0.12.1, update patch files (#37934)
* fastqc: add 0.12.1

* fastqc: add 0.12.1

* Update var/spack/repos/builtin/packages/fastqc/package.py

Yeah, had considered doing the same, I'd just opted to maintain the status quo. All good.

Co-authored-by: Alec Scott <alec@bcs.sh>

* Update package.py

Style fiddles to make the bot contented.

---------

Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
Co-authored-by: Alec Scott <alec@bcs.sh>
2023-06-05 11:07:51 -04:00
Weiqun Zhang
d6765f66ae
amrex: add version 23.06 (#38056) 2023-06-05 07:44:32 -07:00
Alec Scott
19dac780e8
iozone: add v3_506 (#38118) 2023-06-05 13:00:23 +02:00
Alec Scott
b82b549c59
iqtree2: add v2.2.2 (#38119) 2023-06-05 13:00:06 +02:00
Alec Scott
b376401ece
jimtcl: add v0.82 (#38120) 2023-06-05 12:59:48 +02:00
Alec Scott
7d956dbe9e
jline3: add v3.22.0 (#38121) 2023-06-05 12:59:32 +02:00
Alec Scott
6db1d84bb0
kubernetes: add v1.27.2 (#38123) 2023-06-05 12:58:47 +02:00
Alec Scott
2094fa3056
simde: add v0.7.6 (#38157) 2023-06-05 06:38:46 -04:00
Alec Scott
3d255bc213
leptonica: add v1.83.1 (#38125) 2023-06-05 12:36:16 +02:00
Alec Scott
5538dda722
libcint: add v5.3.0 (#38127) 2023-06-05 12:36:02 +02:00