James Beal
02bfbbe269
Bump for new version of bedtools2 ( #42034 )
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Co-authored-by: James Beal <jb23@sanger.ac.uk>
2024-02-19 11:35:26 +01:00
Alec Scott
44d08d2c24
gnupg: make discoverable as external ( #42736 )
2024-02-19 11:27:39 +01:00
AMD Toolchain Support
c6faab10aa
CP2K: fix multiple use of spec["fftw"] ( #42724 )
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fftw object was originally created with spec["fftw:openmp"], but
referencing spec["fftw"] overwrites the 'last_query' in the spec object,
so later use of fftw.libs was not returing FFTW OpenMP libs.
Also allow the post-install fixup to support amdfftw as well as fftw.
Co-authored-by: Branden Moore <branden.moore@amd.com>
Co-authored-by: Phil Tooley <phil.tooley@amd.com>
Co-authored-by: Greg Becker <becker33@llnl.gov>
2024-02-19 11:21:11 +01:00
Geoffrey Lentner
baa203f115
duckdb: add v0.9.2 ( #42374 )
2024-02-19 03:02:43 -07:00
Alec Scott
575a33846f
bfs: add v3.1.1 ( #42740 )
2024-02-19 10:54:00 +01:00
Adam J. Stewart
79df065730
py-shapely: add v2.0.3 ( #42738 )
2024-02-18 21:29:18 +01:00
William Moses
953ee2d0ca
Bump enzyme to 0.0.100 ( #42626 )
2024-02-18 08:48:21 -08:00
Nai-Yuan Chiang
6796b581ed
hiop new release, v1.0.3 ( #42730 )
2024-02-18 08:45:44 -08:00
Christoph Junghans
f49a5519b7
byfl: initial commit ( #42731 )
2024-02-18 08:43:56 -08:00
Tom Drever
e07a6f51dc
Add py-click-option-group ( #42678 )
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* Add py-click-option-group
* Specify dependency versions
2024-02-18 08:22:25 -06:00
Dani
cb73d71cf1
new builtin package: py-biobb-model ( #42681 )
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* new builtin package: py-biobb-model
* Update var/spack/repos/builtin/packages/py-biobb-model/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
---------
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-02-18 03:18:03 -06:00
Jonas Eschle
5949fc2c88
add package py-jacobi ( #42672 )
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* add package py-jacobi
* fix: add description
* fix: add description
* fix: add description
* [@spackbot] updating style on behalf of jonas-eschle
* Update package.py
* Update package.py
* Update var/spack/repos/builtin/packages/py-jacobi/package.py
I don't think that numpy is used in "build"? But not important
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
---------
Co-authored-by: jonas-eschle <jonas-eschle@users.noreply.github.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-02-18 03:17:35 -06:00
Jonas Eschle
fd10cfdebf
add package py dotmap ( #42665 )
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* add package py dotmap
* add maintainer
* [@spackbot] updating style on behalf of jonas-eschle
* fix: add description
* [@spackbot] updating style on behalf of jonas-eschle
* Update package.py
---------
Co-authored-by: jonas-eschle <jonas-eschle@users.noreply.github.com>
2024-02-18 03:16:32 -06:00
Maciej Wójcik
32506e222d
py-sysrsync: add new package ( #42492 )
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* py-sysrsync: add new package
* py-sysrsync: specify dependency type
* py-sysrsync: add constraint for Python
2024-02-18 03:15:42 -06:00
Maciej Wójcik
a7d5cc6d68
py-google-...: add new versions and few new packages ( #42671 )
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* py-google-cloud-storage: add new versions
* py-google-api-core: add new versions
* py-proto-plus: add new package
* py-google-api-core: add grpc variant
* py-google-api-core: add grpc variant
* py-google-api-core: add missing prefix
* py-google-cloud-batch: add new package
* py-google-cloud-logging: add new package
* py-google-cloud-appengine-logging: add new package
* py-google-cloud-audit-log: add new package
* py-grpc-google-iam-v1: add new package
* py-proto-plus: remove obvious dependency
* Whitespace
* Whitespace
* py-google-cloud-audit-log: correct conflict
* py-proto-plus: correct dependency type
* Whitespace
* py-google-auth: add new version
* py-google-resumable-media: add new version
* py-google-cloud-storage: constrain version of dependency
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* py-grpcio-status: use newer version
* py-google-resumable-media: add upper bound of dependency
* Add types of dependencies.
* py-grpcio: add new version
---------
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-02-18 03:15:02 -06:00
Vanessasaurus
222241f232
flux-core: add uuid ( #42635 )
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Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2024-02-18 08:54:11 +01:00
Sinan
aa1820eb5c
pdal: new package ( #42714 )
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* new package pdal
* [@spackbot] updating style on behalf of Sinan81
* fix style
* add license
* Update var/spack/repos/builtin/packages/pdal/package.py
Co-authored-by: Alec Scott <alec@bcs.sh>
* [@spackbot] updating style on behalf of Sinan81
* Update var/spack/repos/builtin/packages/pdal/package.py
Co-authored-by: Alec Scott <alec@bcs.sh>
* Update var/spack/repos/builtin/packages/pdal/package.py
Co-authored-by: Alec Scott <alec@bcs.sh>
* improve dependency spec
* add maintainer
* add conflict
* fix bug
* improve
* improve
* [@spackbot] updating style on behalf of Sinan81
* fix style
* specify cmake dependency version
---------
Co-authored-by: sbulut <sbulut@3vgeomatics.com>
Co-authored-by: Sinan81 <Sinan81@users.noreply.github.com>
Co-authored-by: Alec Scott <alec@bcs.sh>
2024-02-17 13:40:40 -08:00
George Young
16ea5f68ba
cryodrgn: new package @2.3.0 ( #42443 )
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* cryodrgn: new package @2.3.0
* correcting dependency ranges
* correcting dependency ranges
---------
Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-02-17 15:07:56 -06:00
Dani
aeec515b4f
new builtin package: py-biobb-structure-utils ( #42683 )
2024-02-17 14:42:10 -06:00
Maciej Wójcik
6e2ec2950b
py-kubernetes: add new versions ( #42670 )
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* py-kubernetes: add new versions
* py-oauthlib: add new version
2024-02-17 14:32:20 -06:00
Maciej Wójcik
fe5772898d
py-azure-... and py-msrest: add new versions ( #42624 )
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* py-azure-batch: add new versions
* py-azure-core: add new versions
* py-azure-identity: add new versions
* py-azure-mgmt-batch: add new versions
* py-azure-mgmt-core: add new versions
* py-azure-storage-blob: add new versions
* py-msrest: add new versions
* Whitespace
* Whitespace
* py-msrest: add a note
* py-msrest: version-dependent URL
* py-azure-mgmt-batch: correct version of dependency
2024-02-17 14:24:11 -06:00
Alex Leute
384ddf8e93
py-smote-variants: Added package py-smote-variants ( #42502 )
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* py-smote-variants: Added package py-smote-variants
Also added py-minisom and py-metric-learn as dependencies
* py-metric-learn: Added build dependency on setuptools
* py-smote-variants: Added a dependency on py-pytest-runner
As well as a comment about why statistics isn't included
* [@spackbot] updating style on behalf of alex391
---------
Co-authored-by: Alex C Leute <aclrc@rit.edu>
2024-02-17 14:20:03 -06:00
Tom Vander Aa
32c2e240f8
py-charm4py: needs Cython<3.0 ( #42491 )
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* py-charm4py: needs Cython<3.0
* Update var/spack/repos/builtin/packages/py-charm4py/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
---------
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-02-17 14:16:31 -06:00
dependabot[bot]
b88c4792a7
build(deps): bump clingo from 5.6.2 to 5.7.1 in /.github/workflows/style ( #42732 )
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Bumps [clingo](https://github.com/potassco/clingo ) from 5.6.2 to 5.7.1.
- [Release notes](https://github.com/potassco/clingo/releases )
- [Changelog](https://github.com/potassco/clingo/blob/master/CHANGES.md )
- [Commits](https://github.com/potassco/clingo/compare/v5.6.2...v5.7.1 )
---
updated-dependencies:
- dependency-name: clingo
dependency-type: direct:production
update-type: version-update:semver-minor
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-02-16 22:24:10 -08:00
dependabot[bot]
ac92e94b00
build(deps): bump pytest from 8.0.0 to 8.0.1 in /lib/spack/docs ( #42733 )
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Bumps [pytest](https://github.com/pytest-dev/pytest ) from 8.0.0 to 8.0.1.
- [Release notes](https://github.com/pytest-dev/pytest/releases )
- [Changelog](https://github.com/pytest-dev/pytest/blob/main/CHANGELOG.rst )
- [Commits](https://github.com/pytest-dev/pytest/compare/8.0.0...8.0.1 )
---
updated-dependencies:
- dependency-name: pytest
dependency-type: direct:production
update-type: version-update:semver-patch
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-02-16 22:23:13 -08:00
Luc Berger
4a01865f7b
Kokkos Ecosystem: update for release 4.2.01 ( #42711 )
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* Kokkos Ecosystem: update for release 4.2.01
Will rebase this on top of develop once Kokkos Core PR merges.
* Kokkos Ecosystem: update license statement to reflect current license
2024-02-16 17:28:29 -07:00
Sebastian Pipping
025165e22e
expat: Add latest release 2.6.0 with security fixes ( #42680 )
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* expat: Add latest release 2.6.0 with security fixes
* expat: Deprecate vulnerable 2.5.0
* expat: Add past CVEs and where they were fixed
2024-02-16 17:23:46 -07:00
SXS Bot
cda9bc3e1d
spectre: add v2024.02.05 ( #42496 )
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* spectre: add v2024.02.05
* [@spackbot] updating style on behalf of sxs-bot
---------
Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
2024-02-16 15:49:06 -07:00
Lydéric Debusschère
caf21dda42
rust: enable vendor ( #42365 )
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* rust: enable vendor
* rust: modify vendor description; move the call of variant
* rust: fix style
* rust: typo
* rust: remove variant 'vendor' to let vendoring as default fonctionality
---------
Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2024-02-16 14:13:44 -08:00
HELICS-bot
e1779a2884
helics: Add version 3.5.0 ( #42572 )
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* helics: Add version 3.5.0
* helics: define CMAKE_CXX_STANDARD=20 when GCC>=13 is used to compile
---------
Co-authored-by: github-actions[bot] <github-actions[bot]@users.noreply.github.com>
Co-authored-by: Ryan Mast <mast9@llnl.gov>
2024-02-16 14:12:50 -08:00
Adam J. Stewart
f55a018fd9
py-torchmetrics: add v1.3.1 ( #42638 )
2024-02-16 14:00:43 -08:00
dependabot[bot]
f5964e1dde
build(deps): bump black in /.github/workflows/style ( #42631 )
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Bumps [black](https://github.com/psf/black ) from 24.1.1 to 24.2.0.
- [Release notes](https://github.com/psf/black/releases )
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md )
- [Commits](https://github.com/psf/black/compare/24.1.1...24.2.0 )
---
updated-dependencies:
- dependency-name: black
dependency-type: direct:production
update-type: version-update:semver-minor
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-02-16 13:52:38 -08:00
dependabot[bot]
23e0fe2e21
build(deps): bump black from 24.1.1 to 24.2.0 in /lib/spack/docs ( #42629 )
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Bumps [black](https://github.com/psf/black ) from 24.1.1 to 24.2.0.
- [Release notes](https://github.com/psf/black/releases )
- [Changelog](https://github.com/psf/black/blob/main/CHANGES.md )
- [Commits](https://github.com/psf/black/compare/24.1.1...24.2.0 )
---
updated-dependencies:
- dependency-name: black
dependency-type: direct:production
update-type: version-update:semver-minor
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-02-16 13:51:50 -08:00
dependabot[bot]
44438e6171
build(deps): bump python-levenshtein in /lib/spack/docs ( #42630 )
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Bumps [python-levenshtein](https://github.com/rapidfuzz/python-Levenshtein ) from 0.24.0 to 0.25.0.
- [Release notes](https://github.com/rapidfuzz/python-Levenshtein/releases )
- [Changelog](https://github.com/rapidfuzz/python-Levenshtein/blob/main/HISTORY.md )
- [Commits](https://github.com/rapidfuzz/python-Levenshtein/compare/v0.24.0...v0.25.0 )
---
updated-dependencies:
- dependency-name: python-levenshtein
dependency-type: direct:production
update-type: version-update:semver-minor
...
Signed-off-by: dependabot[bot] <support@github.com>
Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-02-16 13:51:12 -08:00
Martin Lang
af8e000a93
bigdft-futile: new versions 1.9.3, 1.9.4 ( #42646 )
2024-02-16 13:41:18 -08:00
Adam J. Stewart
375b82a593
py-black: add v24.2.0 ( #42639 )
2024-02-16 13:39:16 -08:00
Adam J. Stewart
2030e2b089
py-jsonargparse: add v4.27.5 ( #42640 )
2024-02-16 13:38:17 -08:00
Carlos Bederián
34aba94148
openmpi: add ucc to fabrics ( #41889 )
2024-02-16 22:37:00 +01:00
Nicolas Morales
43c909e19c
Update maintainers for Kokkos and add Kokkos 4.2.1 ( #42690 )
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* update kokkos spack package maintainers
* add Kokkos 4.2.01
* Update var/spack/repos/builtin/packages/kokkos/package.py
Co-authored-by: Luc Berger <lberge@sandia.gov>
---------
Co-authored-by: Alec Scott <alec@bcs.sh>
Co-authored-by: Luc Berger <lberge@sandia.gov>
2024-02-16 11:12:36 -07:00
Martin Lang
7c011d304f
nfft: new versions 3.5.1, 3.5.2, 3.5.3 ( #42645 )
2024-02-16 09:58:03 -08:00
Martin Lang
1546fc7e5f
dftbplus: new versions 22.2, 23.1 ( #42647 )
2024-02-16 09:55:53 -08:00
Rob Falgout
75a134f085
Update package.py for hypre release 2.31.0 ( #42689 )
2024-02-16 11:46:29 -06:00
Alex Richert
d0c4675a9b
Add aocc support to ESMF ( #42708 )
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* Add aocc support to ESMF
* Update package.py
2024-02-16 09:33:47 -08:00
WuK
0507c3c63d
add new CUTLASS versions ( #42715 )
2024-02-16 09:23:50 -08:00
dependabot[bot]
59caa93571
build(deps): bump dorny/paths-filter from 3.0.0 to 3.0.1 ( #42710 )
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Bumps [dorny/paths-filter](https://github.com/dorny/paths-filter ) from 3.0.0 to 3.0.1.
- [Release notes](https://github.com/dorny/paths-filter/releases )
- [Changelog](https://github.com/dorny/paths-filter/blob/master/CHANGELOG.md )
- [Commits](0bc4621a31...ebc4d7e9eb
2024-02-16 09:16:35 -08:00
Arne Becker
b4b53a9a9f
perl-datetime-format-iso8601: New package ( #42719 )
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Adds DateTime::Format::ISO8601
2024-02-16 09:15:54 -08:00
Todd Gamblin
be1cfffa45
clingo: add version 5.7.0 ( #42707 )
...
5.7.0 was just released. It includes a number of changes requested and/or
upstreamed by Spack developers, e.g.:
* API for accessing optimization priorities: https://github.com/potassco/clingo/pull/406
* Hash optimization: https://github.com/potassco/clingo/pull/441
* Contributing Guide: https://github.com/potassco/clingo/pull/465
* Hiding more ELF symbols:
* https://github.com/potassco/clingo/pull/447
* https://github.com/potassco/clingo/pull/449
2024-02-16 18:14:19 +01:00
Victor Lopez Herrero
75b7109222
dlb: add v3.4 ( #42722 )
2024-02-16 09:13:23 -08:00
Mikael Simberg
c56cf8c0d2
Add support for clang with OpenMP and other minor changes to oneapi build system ( #42717 )
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* Add support for clang in oneapi packages with OpenMP
* Add fallback search for libomp in OneApi package with OpenMP threading
* Add requires for the compiler when using threads=openmp in intel-oneapi-mkl
* Cosmetic changes to messages in oneapi.py
* Update error message in oneapi.py
Co-authored-by: Robert Cohn <rscohn2@gmail.com>
* Update another error message in oneapi.py
Co-authored-by: Robert Cohn <rscohn2@gmail.com>
* Inline helper error function in oneapi.py
* Update one more error message in oneapi.py
* Wrap long line in oneapi.py
---------
Co-authored-by: Robert Cohn <rscohn2@gmail.com>
2024-02-16 11:39:31 -05:00
Robert Cohn
5c3df6e8ca
[intel-oneapi-mkl] provide omp lib for threads=openmp ( #42653 )
2024-02-16 08:48:42 +01:00
