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2024-02-19adios2: update kokkos dependency (#42621)Vicente Bolea1-3/+5
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2024-02-19Use relative target in symlinks to modified files in view (#42699)Harmen Stoppels2-2/+2
2024-02-19verible: add v0.0-3539-g9442853c (#42628)Dave Keeshan1-0/+5
2024-02-19scorep: specify binutils headers and libs (#42656)Alex Richert1-1/+2
2024-02-19hipsycl: update package (#42518)Thomas-Ulrich1-37/+62
2024-02-19DTK: specify MPI compilers (#42592)Satish Balay1-0/+5
Co-authored-by: balay <balay@users.noreply.github.com>
2024-02-19ecflow: fix compilation with Intel classic compilers (#42622)Dom Heinzeller2-0/+13
2024-02-19omm-bundle: add new package (#42304)kinagaki-fj2-0/+69
2024-02-19ferret: add support for gcc@10: (#42660)Alex Richert1-0/+5
2024-02-19kokkos: disable CUDA_MALLOC_ASYNC on cray-mpich (#42661)Richard Berger1-0/+11
Co-authored-by: Daniel Arndt <arndtd@ornl.gov>
2024-02-19umpire: depend on camp~rocm when umpire itself has ~rocm (#42701)Mikael Simberg1-0/+1
2024-02-19remove a few redundant calls to setup_run_environment (#42718)Harmen Stoppels14-37/+0
Any package `X` used as `depends_on("x", type="build")` will have `X.setup_run_environment(env)` called, because it has to be able to "run" in the build environment. So there is no point in calling `setup_run_environment` from `setup_dependent_build_environment`. Also it's redundant to call `setup_run_environment` in `setup_dependent_run_environment`, cause (a) the latter is called _for every parent edge_ instead of once per node, and (b) it's only called after `setup_run_environment` is called anyways. Better to call `setup_run_environment` once and only once.
2024-02-19py-matplotlib: add v3.8.3 (#42698)Adam J. Stewart1-0/+1
2024-02-19mpich: Remove invalid pmi option (#42686)Ken Raffenetti1-3/+1
pmi=off is not a valid configuration option. MPICH cannot function without a PMI library. Fixes #42685.
2024-02-19Bump for new version of bedtools2 (#42034)James Beal1-1/+2
Co-authored-by: James Beal <jb23@sanger.ac.uk>
2024-02-19gnupg: make discoverable as external (#42736)Alec Scott1-0/+10
2024-02-19CP2K: fix multiple use of spec["fftw"] (#42724)AMD Toolchain Support1-2/+3
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>
2024-02-19duckdb: add v0.9.2 (#42374)Geoffrey Lentner1-1/+3
2024-02-19bfs: add v3.1.1 (#42740)Alec Scott1-0/+1
2024-02-18py-shapely: add v2.0.3 (#42738)Adam J. Stewart1-2/+3
2024-02-18Bump enzyme to 0.0.100 (#42626)William Moses1-1/+3
2024-02-18hiop new release, v1.0.3 (#42730)Nai-Yuan Chiang1-0/+6
2024-02-18byfl: initial commit (#42731)Christoph Junghans1-0/+21
2024-02-18Add py-click-option-group (#42678)Tom Drever1-0/+32
* Add py-click-option-group * Specify dependency versions
2024-02-18new builtin package: py-biobb-model (#42681)Dani1-0/+25
* 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>
2024-02-18add package py-jacobi (#42672)Jonas Eschle1-0/+24
* 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>
2024-02-18add package py dotmap (#42665)Jonas Eschle1-0/+21
* 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>
2024-02-18py-sysrsync: add new package (#42492)Maciej Wójcik1-0/+23
* py-sysrsync: add new package * py-sysrsync: specify dependency type * py-sysrsync: add constraint for Python
2024-02-18py-google-...: add new versions and few new packages (#42671)Maciej Wójcik13-8/+256
* 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>
2024-02-18flux-core: add uuid (#42635)Vanessasaurus1-1/+2
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2024-02-17pdal: new package (#42714)Sinan2-0/+50
* 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>
2024-02-17cryodrgn: new package @2.3.0 (#42443)George Young1-0/+38
* cryodrgn: new package @2.3.0 * correcting dependency ranges * correcting dependency ranges --------- Co-authored-by: LMS Bioinformatics <bioinformatics@lms.mrc.ac.uk>
2024-02-17new builtin package: py-biobb-structure-utils (#42683)Dani1-0/+25
2024-02-17py-kubernetes: add new versions (#42670)Maciej Wójcik2-1/+7
* py-kubernetes: add new versions * py-oauthlib: add new version
2024-02-17py-azure-... and py-msrest: add new versions (#42624)Maciej Wójcik7-9/+91
* 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
2024-02-17py-smote-variants: Added package py-smote-variants (#42502)Alex Leute3-0/+91
* 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>
2024-02-17py-charm4py: needs Cython<3.0 (#42491)Tom Vander Aa1-1/+1
* 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>
2024-02-16build(deps): bump clingo from 5.6.2 to 5.7.1 in /.github/workflows/style ↵dependabot[bot]1-1/+1
(#42732) 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>
2024-02-16build(deps): bump pytest from 8.0.0 to 8.0.1 in /lib/spack/docs (#42733)dependabot[bot]1-1/+1
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>
2024-02-16Kokkos Ecosystem: update for release 4.2.01 (#42711)Luc Berger2-2/+4
* 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
2024-02-16expat: Add latest release 2.6.0 with security fixes (#42680)Sebastian Pipping1-2/+35
* 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
2024-02-16spectre: add v2024.02.05 (#42496)SXS Bot1-0/+3
* spectre: add v2024.02.05 * [@spackbot] updating style on behalf of sxs-bot --------- Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
2024-02-16rust: enable vendor (#42365)Lydéric Debusschère1-0/+3
* 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>
2024-02-16helics: Add version 3.5.0 (#42572)HELICS-bot1-0/+6
* 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>
2024-02-16py-torchmetrics: add v1.3.1 (#42638)Adam J. Stewart1-0/+1
2024-02-16build(deps): bump black in /.github/workflows/style (#42631)dependabot[bot]1-1/+1
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>
2024-02-16build(deps): bump black from 24.1.1 to 24.2.0 in /lib/spack/docs (#42629)dependabot[bot]1-1/+1
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>
2024-02-16build(deps): bump python-levenshtein in /lib/spack/docs (#42630)dependabot[bot]1-1/+1
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>
2024-02-16bigdft-futile: new versions 1.9.3, 1.9.4 (#42646)Martin Lang1-0/+2
2024-02-16py-black: add v24.2.0 (#42639)Adam J. Stewart1-0/+1
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