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Python 3.9 deprecated `PyEval_InitThreads` and kept it as a no-op, and
Python 3.13 deleted the function.
The patch removes calls to it.
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This allows us to keep the workflow file tidier, and avoid
using indirections to perform platform specific operations.
Signed-off-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
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(#46747)
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* py-mpi4py: add v4.0.0
* sensei: update mpi4py dependency
build with py-mpi4py@4.0.0 due to fatal no such file or directory error
* petsc4py: update license, and remove C++/Fortran dependency
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Bumps [docker/setup-buildx-action](https://github.com/docker/setup-buildx-action) from 3.6.1 to 3.7.0.
- [Release notes](https://github.com/docker/setup-buildx-action/releases)
- [Commits](https://github.com/docker/setup-buildx-action/compare/988b5a0280414f521da01fcc63a27aeeb4b104db...8026d2bc3645ea78b0d2544766a1225eb5691f89)
---
updated-dependencies:
- dependency-name: docker/setup-buildx-action
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>
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* armadillo: add v12.8.4, v14.0.2
* armadillo: fix git
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Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
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Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
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There was a bit of mystery surrounding the arguments for `_setup_pkg_and_run`. It passes
two file descriptors for handling the `gmake`'s job server in child processes, but they are
unsed in the method.
It turns out that there are good reasons to do this -- depending on the multiprocessing
backend, these file descriptors may be closed in the child if they're not passed
directly to it.
- [x] Document all args to `_setup_pkg_and_run`.
- [x] Document all arguments to `_setup_pkg_and_run`.
- [x] Add type hints for `_setup_pkg_and_run`.
- [x] Refactor exception handling in `_setup_pkg_and_run` so it's easier to add type
hints. `exc_info()` was problematic because it *can* return `None` (just not
in the context where it's used). `mypy` was too dumb to notice this.
Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
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Co-authored-by: Rocco Meli <r.meli@bluemail.ch>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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* gh: drop GoBuilder now that GoPackage supports legacy attributes
* gh: add v2.58.0
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Co-authored-by: inada-yoshie <inada.yoshie@fujitsu.com>
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* Stand-alone testing: remove deprecated methods
* audit: replace deprecated test method checks for test callbacks (AcriusWinter)
* install_test: replace deprecated with new test method name starts (AcriusWinter)
* package_base: removed deprecated test methods (AcriusWinter)
* test/package_class: remove deprecated test methods (AcriusWinter)
* test/reporters: remove deprecated test methods (AcriusWinter)
* reporters/extract: remove deprecated test-related methods (AcriusWinter)
* py-test-callback: rename test in callbacks and output (AcriusWinter)
* reporters/extract: remove deprecated expected failure output capture (AcriusWinter)
* stand-alone test cleanup: f-string, remove deprecation warning, etc. (AcriusWinter)
* stand-alone tests: f-string fix and remove unused imports (AcriusWinter)
* package_base: finish removing the rest of deprecated run_test method (AcriusWinter)
* py-test-callback: remove stand-alone test method (AcriusWinter)
* package_base: remove now unused imports (AcriusWinter)
* Python: test_imports replaces test (tldahlgren)
* mptensor, trivial-smoke-test: replace deprecated cache_extra_test_sources method (tldahlgren)
* trivial-smoke-test: replace deprecated install_test_root method (tldahlgren)
* docs: update perl and scons package's test methods (tldahlgren)
* builder: remove deprecated test() method (tldahlgren)
* Update legion and mfem test data for stand-alone tests (tldahlgren)
* py-test-callback: restore the test method
* Audit/stand-alone testing: Fix and added stand-alone test audit checks
- fix audit failure message for build-time test callback check
- remove empty test method check during stand-alone testing
- change build-time test callback check to package_properties
- add test method docstring audit check and mock fail-test-audit-docstring pkg
- add test method implementation audit check and mock fail-test-audit-impl pkg
- add new mock packages to test_package_audits and test_test_list_all
* audits: loosen docstring content constraints
* Add missing test method docstring
* py-test-callback: resolve builder issues
* Audits: Add checks for use of deprecated stand-alone test methods; improve output for other test-related checks
* Fix style issues
* test_test_list_all: add new fail-test-audit-deprecated package
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Signed-off-by: Tamara Dahlgren <dahlgren1@llnl.gov>
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>
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* new builtin package: ambertools
* fixes for the style test
* yet more changes for the style test
* hope this is the last fix for the style test
* netlib-xblas is a dependency, it needs a depends_on("m4", type="build")
* ambertools: Add new setuptool dependency, limit python to <= 3.10 (does not build with 3.11+)
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Co-authored-by: Bernhard Kaindl <bernhardkaindl7@gmail.com>
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* Adding the perl-bio-db-bigfile package
* Adding perl-bio-ensembl package
* Adding perl-bio-ensembl-variation package
* Adding the perl-bio-ensembl-funcgen package
* Adding perl-bio-ensembl-io package
* Fixing checksums
* py-uvloop: add v3.8.14, v3.9.15, v3.10.3 and dependencies
* rollback
* Update package.py
* Update package.py
* vep: add v110,v111,v112
* Update package.py
* Update package.py
* Update package.py
* Update package.py
* Update package.py
* Updating dependent package handling
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
* Updating dependent package handling
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
* Update package.py
* Update package.py
* Reverting variants
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
* Update package.py
* Update package.py
* Rename package.py to package.py
* Update package.py
* Update package.py
* Update package.py
* Fix variant installation and dependencies
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
* Styles
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
* Removing unneeded dependencies
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
---------
Signed-off-by: Teague Sterling <teaguesterling@gmail.com>
Co-authored-by: Bernhard Kaindl <contact@bernhard.kaindl.dev>
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* py-jinja2: add v3.1.4 (fix CVE)
* py-jinja2: fix py-flit-core upper limit
* py-jinja2: url_for_version due to lowercase jinja2
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* dcmtk: add v3.6.8 (fix CVE)
* dcmtk: apply tiff patch to new version too
* dmctk: tiff patch when range closed since in upstream master
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We mostly use `spack style` and `spack style --fix`, but it's nice to also be able to
run plain old `black .` in the repo.
- [x] Fix includes and excludes `pyproject.toml` so that we *only* cover files we expect
to be blackened.
Note that `spack style` is still likely the better way to go, because it looks at `git
status` and tells black to only check files that changed from `develop`. `black` with
`pyproject.toml` won't do that. Of course, you can always manually specify which files
you want blackened.
Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
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* rclone: convert to a GoPackage
* rclone: add v1.68.1
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