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Author SHA1 Message Date
Gilles Gouaillardet
051abfb894 py-scipy: do not build 1.6 and older with python < 3.10.1 (#35120) 
py-scipy 1.6 and older come with pre cython-ized files that
use the _PyGen_Send symbol that was removed from python 3.10.0.161,
so do not build these old versions with python 3.10.1 and later
 2023-01-24 18:32:21 -08:00
eugeneswalker
0447ba1213 loki%gcc@11: -std=c++14 to avoid issue #32122 (#35148) 2023-01-24 17:42:33 -08:00
Rémi Lacroix
ff3dbe9394 LAMMPS: Add package ml-hdnnp. (#35133) 
First added as user-hdnnp in version 20210527.
 2023-01-24 17:15:23 -08:00
Thomas Bouvier
90d00f8a59 Add package py-nvidia-dali (#35058) 
* Add package `py-nvidia-dali`

* Add linux check

* Add missing deps
 2023-01-24 18:26:04 -06:00
Taillefumier Mathieu
fdc6bd3f1c Fix dbcsr checksums (#35134) 2023-01-24 22:33:12 +01:00
Cory Bloor
d17aaf8729 hip: add cuda variant (#33872) 2023-01-24 22:30:58 +01:00
Jen Herting
ef6699b874 New package: srcml (#35097) 
* Initial srcml
* [srcml]
  - Fixed dependencies likely will need some more rework
  - Disabling packaging cmake file (for now)
  - Added patch to fix issue with source code library import
* [srcml] updated copyright
* [srcml] requires antlr complied with -fPIC
* [srcml] cleaned up dependencies
* [srcml] flake8
* [srcml] limiting boost versions

Co-authored-by: Benjamin Meyers <bsmits@rit.edu>
Co-authored-by: qwertos <qwertos@users.noreply.github.com>
 2023-01-24 13:13:56 -08:00
Adam J. Stewart
f5418ac344 py-planetary-computer: add new package (#35089) 2023-01-24 10:25:29 -08:00
Mikael Simberg
909a5b1d83 Add whip 0.1.0 and use in pika (#35073) 
* Add whip 0.1.0
* Make pika depend on whip@0.1.0

Co-authored-by: msimberg <msimberg@users.noreply.github.com>
 2023-01-24 10:20:10 -08:00
Emil Briggs
9a0884bfed rmgdft: Update for version 5.0.1 (#35047) 
* Updated for RMG version 5.0.1
* Update var/spack/repos/builtin/packages/rmgdft/package.py

Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
 2023-01-24 10:18:05 -08:00
Seth R. Johnson
a9d5db572c ForTrilinos: new version 2.2.0 (#35138) 2023-01-24 09:52:45 -08:00
Harmen Stoppels
16dbbb9b26 libgcrypt: make sure flags go through env (#35135) 
Parts of libgcrypt should not be optimized with -O1/2/3, so it's best to
let the build system do that; the build system cannot know the compiler
wrapper would inject optimization flags
 2023-01-24 09:47:33 -08:00
John W. Parent
3695200a3c hdf5: remove direct dependency on msmpi on Windows (#35111) 2023-01-24 07:57:40 -08:00
Matthieu Dorier
a1b2ba412b mochi-margo: add v0.12 (#35132) 2023-01-24 16:46:27 +01:00
John W. Parent
c81f1235a9 Windows: conflict with Apple-GL (#35114) 2023-01-24 16:41:30 +01:00
Taillefumier Mathieu
eaa16338de Update dbcsr version (#35131) 2023-01-24 15:38:49 +01:00
Massimiliano Culpo
115b6b2a51 Avoid creating help.sh and test.sh in cwd (#35123) 
When running unit-test the test/ci.py module is leaving
garbage (help.sh, test.sh files) in the current working
directory.

This commit changes the current working directory to a
temporary path before those files are created.
 2023-01-24 03:42:15 -08:00
kwryankrattiger
cd2d6a6397 ParaView/VTK: Patch xdmf2 for HDF5 1.13 (#33930) 
* ParaView/VTK: Patch xdmf2 for HDF5 1.13

* Meson: update meson build system for 0.64

* ParaView: Change HDF5 1.13 patch to 1.13.1/2 patchs

* Mesa: Remove legacy mesa option from meson_args

* Use append to assemble meson args
 2023-01-23 19:22:21 -08:00
Erik Schnetter
c5086a5d0e curl: New version 7.87.0 (#35088) 2023-01-23 19:02:31 -08:00
downloadico
b5fc217dc2 actually add samtools 1.16.1 and fix Copyright dates on samtools, bcftools, and htslib (#35118) 
* samtools: add version 1.16.1 (for real this time!)
also, fix Copyright date

* bcftools and htslib: fix Copyright date
 2023-01-23 17:37:40 -08:00
Richarda Butler
a4b8753456 Update: spack help --spec (#35115) 
* Update variant & compiler propagation
* Add the info for non boolean variants
* Add example for multi variants
 2023-01-24 00:42:08 +00:00
Jean-Luc Fattebert
f3e7669400 Update qmd-progress package.py (#34841) 2023-01-23 14:20:19 -08:00
HELICS-bot
042d305ed0 helics: Add version 3.4.0 (#35096) 
Co-authored-by: github-actions[bot] <github-actions[bot]@users.noreply.github.com>
 2023-01-23 13:56:19 -08:00
Rémi Lacroix
aca4be1fff n2p2: Allow building shared libraries (#35080) 2023-01-23 13:46:19 -08:00
Alex Richert
beba33b2d8 Update parallelio from NOAA-EMC fork (#34837) 2023-01-23 22:29:06 +01:00
Wouter Deconinck
0f2e0a01a9 freeimage: fails to compile with c++17, use c++14 (#35067) 
* freeimage: fails to compile with c++17, use c++14
  Only `opencascade` when a (non-default) variant depends on `freeimage`, which seems to have gone unmaintained. There are c++17 standard violations [[1]]( https://en.cppreference.com/w/cpp/language/except_spec) in the code, so we can at most expect c++14. Since some compilers default to c++17 (gcc-12) we need to be explicit.
* freeimage: install directly in prefix
* freeimage: fix inverted patch
 2023-01-23 12:14:19 -08:00
downloadico
c2d68975bc update Samtools, bcftools, and htslib versions (#35043) 
* samtools: add version 1.6.1
* htslib: update version to 1.6
* bcftools: update version to 1.6
 2023-01-23 12:13:05 -08:00
Christopher Christofi
b9e196e40c perl-test-leaktrace: add 0.17 (#35063) 2023-01-23 10:58:08 -08:00
Jen Herting
a7fbe60660 [antlr] added pic variant (#35091) 
* [antlr] modernize config arg processing
* [antlr] added pic variant
* [antlr] flake8
 2023-01-23 10:52:23 -08:00
Mark W. Krentel
64b373e156 hpcviewer: add version 2023.01 (#35036) 2023-01-23 10:26:54 -08:00
Harmen Stoppels
13739e0783 environments: don't replace relative view path with absolute path on concretize/install (#34958) 
* environments: don't rewrite relative view path, expand path on cli ahead of time

Currently if you have a spack.yaml that specifies a view by relative
path, Spack expands it to an absolute path on `spack -e . install` and
persists that to disk.

This is rather annoying when you have a `spack.yaml` file inside a git
repo, cause you want to use relative paths to make it relocatable, but
you constantly have to undo the changes made to spack.yaml by Spack.

So, as an alternative:

1. Always stick to paths as they are provided in spack.yaml, never
   replace them with a canonicalized version
2. Turn relative paths on the command line into absolute paths before
   storing to spack.yaml. This way you can do `spack env create --dir
   ./env --with-view ./view` and both `./env` and `./view` are resolved
   to the current working dir, as expected (not `./env/view`). This
   corresponds to the old behavior of `spack env create`.

* create --with-view always takes a value
 2023-01-23 10:03:54 -08:00
Massimiliano Culpo
b8684008d0 apptainer: add v1.1.5 (#35075) 2023-01-23 09:53:10 -08:00
eugeneswalker
a82fe2010f e4s: add cusz +cuda (#35004) 2023-01-23 09:15:39 -08:00
Thomas Bouvier
3bd0d9a3d2 py-pytest-mock: add v3.10.0 (#35074) 2023-01-23 09:33:11 -06:00
Thomas Bouvier
fbc24d7bab py-datasets: add v2.8.0 (#35069) 
* `py-datasets`: add v2.8.0

* Add missing +http variant + fix wrong dependency versions
 2023-01-22 17:08:40 -06:00
eugeneswalker
4b91a40bdf axom: need to specify +rocm as part of dependency constraints (#35066) 
* axom: need to specify +cuda, +rocm as part of dependency constraints

* remove lines 120, 128

* fix line length, spack style issue
 2023-01-22 11:23:39 -08:00
Thomas Bouvier
b7a68938c2 arrow: don't use when as a keyword argument to filter_file() (#35065) 
Co-authored-by: thomas-bouvier <thomas-bouvier@users.noreply.github.com>
 2023-01-22 09:05:37 +01:00
Alex Richert
ce8727cece Add --exclude option to 'spack external find' (#35013) 
* Add --exclude option to 'spack external find' to ignore user-specified external packages
* Update bash completion arg order for external find

Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
 2023-01-21 15:43:20 -08:00
Thomas Bouvier
da1165ffa3 py-wandb: add v0.13.9 (#35059) 
* `py-wandb`: add v0.13.9

* `py-wandb`: mark v0.10.1 as deprecated

* Fixes suggested by @adamjstewart

* No platform-specific requirements
 2023-01-21 17:21:41 -06:00
Dylan Simon
f593309b4e py-numba: fix py-numpy version dependencies (#35054) 
as per #34362 comments
 2023-01-21 07:17:53 -08:00
Harmen Stoppels
a15448eae8 gmake: bootstrap without make (#35050) 2023-01-21 02:27:56 -08:00
Matthew Thompson
cc01e33d53 fms: add 32bit variant, add protections (#35010) 
The GEOS Earth System Model currently requires the 32-bit variant of FMS. This PR adds that variant.
 2023-01-21 10:27:13 +01:00
markus-ferrell
c3e3c392a6 Windows/testing: enable tests for "spack find" (#33588) 2023-01-20 17:54:06 -08:00
John W. Parent
a424f7f173 Identify Windows support with tags (#35027) 
All packages with explicit Windows support can be found with
`spack list --tags=windows`.

This also removes the documentation which explicitly lists
supported packages on Windows (which is currently out of date and
is now unnecessary with the added tags).

Note that if a package does not appear in this list, it *may*
still build on Windows, but it likely means that no explicit
attempt has been made to support it.
 2023-01-20 13:32:28 -08:00
QuellynSnead
d192dab5a1 netlib-lapack: Fix Fortran detection for XL (#35048) 
* PR 30738 introduced changes in how we access compiler info. Looks like the XL case
got missed.
 2023-01-20 13:13:39 -08:00
Harmen Stoppels
aa91358cc2 libbsd: bump (#35029) 2023-01-20 11:48:57 -08:00
Thomas Bouvier
bdc0b73b7a Add package py-imagehash (#35015) 
* Add package `py-imagehash`

* Use virtual package for `py-pillow`
 2023-01-20 10:28:04 -08:00
eugeneswalker
62f83dfb6d flex%oneapi@2023.0.0: -Wno-error=implicit-function-declaration (#34900) 2023-01-20 10:18:13 -08:00
Zack Galbreath
91fd6d5a84 Allocate more memory for generate jobs in all stacks (#35040) 
* Allocate more memory for generate jobs in all stacks
* Add a 60 minute timeout on generate jobs
 2023-01-20 11:06:49 -07:00
Harmen Stoppels
a14b5de43c ca-certificates-mozilla: 2023-01-10 (#35018) 2023-01-20 09:52:47 -08:00