Age | Commit message (Collapse) | Author | Files | Lines |
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perl+threads. (#34076)
Update the depends_on("perl") to depends_on("perl+threads").
This and #34074 is needed to properly handle e.g. the perl-Thread-Queue
rpm package:
It may not be installed on RedHat-based hosts, which can lead to automake
build failures when `spack external find perl` or `spack external find --all`
was used to use the system-provided perl install.
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Some variants have MPI dependencies, make sure they can be used only when the `mpi` variable is enabled.
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* adding 2nd bunch of nf-core deps from update/nextflow-tools
* Update var/spack/repos/builtin/packages/py-a2wsgi/package.py
* Update var/spack/repos/builtin/packages/py-apispec/package.py
* Update var/spack/repos/builtin/packages/py-bagit-profile/package.py
* Update var/spack/repos/builtin/packages/py-bagit-profile/package.py
* Update var/spack/repos/builtin/packages/py-bagit-profile/package.py
* Update var/spack/repos/builtin/packages/py-bdbag/package.py
* Update var/spack/repos/builtin/packages/py-schema-salad/package.py
* Update var/spack/repos/builtin/packages/py-schema-salad/package.py
* Update var/spack/repos/builtin/packages/py-tuspy/package.py
* Update var/spack/repos/builtin/packages/py-schema-salad/package.py
* Update var/spack/repos/builtin/packages/py-schema-salad/package.py
* Update var/spack/repos/builtin/packages/py-bdbag/package.py
* Update var/spack/repos/builtin/packages/py-bdbag/package.py
* Update var/spack/repos/builtin/packages/py-bioblend/package.py
* Update var/spack/repos/builtin/packages/py-circus/package.py
* Update var/spack/repos/builtin/packages/py-circus/package.py
* Update var/spack/repos/builtin/packages/py-cloudbridge/package.py
* Update var/spack/repos/builtin/packages/py-cloudbridge/package.py
* Apply suggestions from code review
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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* nextflow recipe: added latest stable version
* tower-cli recipe: added latest release
* recipes tower-agent and tower-cli renamed to nf-tower-agent and nf-tower-cli
* recipes nf-tower-agent and nf-tower-cli: small fix
* nf-core-tools recipe: added most py- dependencies
* nf-core-tools: recipe without galaxy-tool-util (for testing)
* fixed typos in py-yacman recipe
* fixed typos in py-pytest-workflow recipe
* fixed typo in nf-core-tools recipe
* fixed typos in py-yacman recipe
* fixes in recipes for py-questionary and py-url-normalize
* fixes to py-yacman recipe
* style fixes to py- packages that are dependencies to nf-core-tools
* fix in py-requests-cache recipe
* added missing dep in py-requests-cache recipe
* nf-core-tools deps: removed redundant python dep for py packages oyaml and piper
* nf-core-tools recipe: final, incl dep on py-galaxy-tool-util
* nf-core-tools: new version with extra dependency
* commit to merge packages on focus from update/nextflow-tools
* nf-core: commenting galaxy dep for this pr
* Update var/spack/repos/builtin/packages/py-requests-cache/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* Update var/spack/repos/builtin/packages/py-requests-cache/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* removed nf-core-tools from this branch, will be back at the end
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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Interim fix for #34559
Spack's MSVC compiler definition uses ifx as the Fortran compiler.
Prior to #33385, the Spack MSVC compiler definition required the
executable to be called "ifx.exe"; #33385 replaced this with just
"ifx", which inadvertently led to ifx falsely indicating the
presence of MSVC on non-Windows systems (which leads to future
errors when attempting to query/use those compiler objects).
This commit applies a short-term fix by updating MSVC Fortran
version detection to always indicate a failure on non-Windows.
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* spectre: add v2022.12.16
* [@spackbot] updating style on behalf of sxs-bot
Co-authored-by: sxs-bot <sxs-bot@users.noreply.github.com>
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Make the package a proper ROCm package.
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Co-authored-by: Sebastian Grimberg <sjg@amazon.com>
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fixes #34489
Customize sys.excepthook to raise SystemExit when
any unhandled exception reaches the hook.
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by oneapi packages (#34253)
Co-authored-by: Sean Koyama <skoyama@anl.gov>
Co-authored-by: Robert Cohn <robert.s.cohn@intel.com>
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fixes #34518
Fix an issue due to the MRO chain of the package wrapper
during build. Before this PR we were always returning
False when the builder object was created before the
run_tests method was monkey patched.
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Signed-off-by: Loïc Pottier <pottier1@llnl.gov>
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Co-authored-by: Bernhard Kaindl <43588962+bernhardkaindl@users.noreply.github.com>
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* acts: new versions 19.11.0, 21.0.0, 21.1.0
https://github.com/acts-project/acts/compare/v19.10.0...v19.11.0:
- python 3.8 required if ACTS_BUILD_EXAMPLES_PYTHON_BINDINGS
https://github.com/acts-project/acts/compare/v20.3.0...v21.0.0:
- python 3.8 required if ACTS_BUILD_EXAMPLES_PYTHON_BINDINGS
https://github.com/acts-project/acts/compare/v21.0.0...v21.1.0:
- no build system changes
* acts: depends_on python@3.8: when sometimes
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openPMD, a metadata standard on top of backends like ADIOS2 and HDF5,
is implemented in ParaView 5.9+ via a Python3 module.
Simplify Conflicts & Variant
Add to ECP Data Vis SDK
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* Patch dill._dill._is_builtin_module
* Fix style
* Add test
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`url_exists` through HEAD requests (#34324)"" (#34498)
This reverts commit 8035eeb36d5068fcbae613e51dd13cb1ae9f4888.
And also removes logic around an additional HEAD request to prevent
a more expensive GET request on wrong content-type. Since large files
are typically an attachment and only downloaded when reading the
stream, it's not an optimization that helps much, and in fact the logic
was broken since the GET request was done unconditionally.
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* PICMI: 0.0.22
* WarpX: 22.11, 22.12
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(#34516)
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* renamed tower-agent and tower-cli with prefif nf-
* new nextflow package version
* added newest versions (today) for nf-tower-agent and nf-tower-cli
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* Add py-bmtk and py-neurotools
* py-bmtk: version bump
* [@spackbot] updating style on behalf of heerener
* Maybe the copyright needs to be extended to 2022 for the check to pass
* Process review remarks
* Update var/spack/repos/builtin/packages/py-neurotools/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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