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The -u option allows to update the current head,
so tests won't fail if we are on develop
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check if failures ares actually a real timeout or an error that
just causes a hang.
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All GitHub actions provide two cores. Just make sure this does not
get oversubscribed with potentially visible additional physical
cores.
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- Remove macos tests from travis
- Add macos tests in github actions.
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* [dd4hep] variant and run env updates
* address comments from #16524
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(#16534)
* Add maintainers.
Add variants for building with default earlier api versions.
* Update var/spack/repos/builtin/packages/hdf5/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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* [py-addict] created template
* [py-addict] added homepage and description
* [py-addict] cleaned up fixmes
* [py-addict] depends on py-setuptools
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* Add naromero77 as a maintainer for QMCPACK Spack package.
* Add QMCPACK 3.9.2
* Remove QE-to-QMCPACK wave function converter from QMCPACK Spack package. Already been moved to QE Spack package.
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* Fix dependency of geant4 (amends #16497)
* Update geant4-data dependencies
* Reviewer comments (part 1/2)
* Reviewer comments (part 2/2)
* Update var/spack/repos/builtin/packages/geant4-data/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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- add docstrings and make parameter names consistent in `relocate.py`
- Make `replace_prefix_*` and other functions private (as they are implementation details)
- remove unused function _replace_prefix_nullterm()
- Add unit tests for `relocate.py` functions
- add patchelf to Travis and use it during tests
- add hello_world fixture with a compiled binary, so we can test relocation
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After migrating to `travis-ci.com`, we saw I/O issues in our tests --
tests that relied on `capfd` and `capsys` were failing. We've also seen
this in GitHub actions, and it's kept us from switching to them so far.
Turns out that the issue is that using streams like `sys.stdout` as
default arguments doesn't play well with `pytest` and output redirection,
as `pytest` changes the values of `sys.stdout` and `sys.stderr`. if these
values are evaluated before output redirection (as they are when used as
default arg values), output won't be captured properly later.
- [x] replace all stream default arg values with `None`, and only assign stream
values inside functions.
- [x] fix tests we didn't notice were relying on this erroneous behavior
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* py-netcdf4: avoid recompilation and make the older versions to work with HDF5@1.10:
* py-netcdf4: add a new version and introduce a maintainer list.
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* Gaudi: separate variant for building documentation
* Update package.py
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Large Scale Assembly, Structural Correspondence,
Multi Dynamics Simulator.In this program,
a part of functions of ADVENTURE_Solid ver.1.1 module
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This adds the `url` alternative `urls` to `package.all_urls`. With
this addition, one can find again new versions with
`spack versions <package>` for packages that are populated with
from mixin mirror `urls`.
Example: `util-macros` from x.org mixin.
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directory (#14479)
* Add config option to disable setting S_ISGID bit when creating installation directory.
Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
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* Non-interactive mode for spack checksum; allow passing 'package@version' to spack checksum
* Flake8 fixes
* Update checksum.py
Fix typo
* Update spack-completion script
* Automatically set non-interactive mode if more than one version passed
* Update lib/spack/spack/cmd/checksum.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Add documentation and update spack-completion
* Flake8
* Rename option
* Update spack-completion
* Update lib/spack/spack/cmd/checksum.py
Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
* Update checksum.py
* Update stage.py
* Update create.py
Use batch mode when adding a new package
Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
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Co-authored-by: Elizabeth Fischer <elizabeth.fischer@alaska.edu>
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This fixes some errors with setting up test configuration. These
errors do not cause current Spack tests to fail but do create
red herring issues elsewhere (see #15666). Fixing these errors
leads to more errors in tests that depended on the original
misconfigured state, so those are also addressed here.
This is an update to #16003 which accounts for some unit tests with
conflicting config/mutable_config fixtures. These conflicts were
not exposed until the mutable_config fixture was fixed. Details are
included below. The change which builds on #16003 is prefixed with
"(new)".
* For tests that use the real Spack package repository, the config
needs to avoid using MPI providers that are not intended to be
installed by Spack. Without this, it is possible that Spack tests
which concretize the MPI virtual will end up trying to use an
implementation that it shouldn't (e.g. one that is always
provided externally). See #15666 for an example.
* The mutable_config test fixture was not initializing the scope
roots to the right directories (so the resulting config was empty).
* The current_host fixture in the concretize.py tests was using the
config fixture rather than mutable_config, and was polluting the
config cache for other tests.
* One test in concretize.py was clearing a nonexistent cache
(PackagePrefs._packages_config_cache). This reference has been
removed.
* The test 'test_preferred_compilers' was was depending on cross
test config pollution to succeed. The initial spec before
concretization has been updated to updated to be explicit about
the desired result.
* (new) For tests that use install_mockery and mutable_config,
replace install_mockery with a separate install_mockery_mutable_config
fixture that is exactly the same as install_mockery but uses the
mutable_config fixture to avoid conflicts.
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* ADD New package revocap-refiner
"""The University of Tokyo, CISS Project:
Geometric processing, mesh processing, mesh generation"""
* Modify homepage = "https://github.com/FrontISTR/REVOCAP_Refiner"
Modify version('master', branch='master')
Modify depends_on('swig', type='build')
Modify install_tree('Refiner', prefix.include.refine)
Delete mkdirp(prefix.include)
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* Add new package: ganglia
* ganglia: fix the libexpat depends
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* Adapt to the latest Acts developments
A long time ago, the Acts project (whose name was then capitalized ACTS) used
to maintain multiple software repositories:
- The heart of the tracking toolkit was located in the `acts-core` repository
- Fast simulation extensions were located in the `acts-fatras` repository
- Advanced usage examples were located in the `acts-framework` repository
This multi-repository organization, however, has been a source of constant
pain, which is why the various projects were gradually merged into a single
mono-repo, called `acts`. Today, with the integration of `acts-framework`,
this merging process is reaching completion.
The present pull request adapts the Acts package to this evolution by...
- Renaming the package to `acts`, reflecting the new repository name
- Renaming the `test` variant to `unit_tests`, reflecting current CMake naming
- Adding the new build variants that were inherited from `acts-framework`
- Acknowledging the change of semantics of the `examples` variant, and only
supporting the new ones (as the former variant was almost unused)
- Liberally using alphabetical order to make the package code more readable
- Recording a large number of conflicts, some of which are introduced by the
merging of `acts-framework` and some of which already existed before
- Using the new capitalization of "Acts"
* Add acts v0.23
* Update dd4hep version requirement
* Add acts v0.22.1 bugfix
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* add PGI version 19.7
* use openmpi in pgi
exporting openmpi enviroment variables when installed with pgi
* fix lint
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Fixed #15884.
Spack asks every package linked into an environment to tell us how
environment variables should be modified when a spack environment is
activated. As part of this, specs in an environment are symlinked into
the environment's view (see #13249), and the package calculates
environment modifications with *the default view as the prefix*.
All of this works nicely for pointing the user's environment at the view
*if* every package is successfully linked. Unfortunately, right now we
only track what specs "should" be in a view, not which specs actually
are. So we end up calculating environment modifications on things that
aren't linked into thee view, and the exception isn't caught, so lots of
spack commands end up failing.
This fixes the issue by ignoring and warning about specs where
calculating environment modifications fails. So we can still keep using
Spack even if the current environment is incomplete.
We should probably also just avoid computing env modifications *entirely*
for unlinked packages, but right now that is a slow operation (requires a
lot of YAML parsing). We should revisit that when we have some better
state management for views, but the fix adopted here will still be
necessary, as we want spack commands to be resilient to other types of
bugs in `setup_run_environment()` and friends. That code is in packages
and we have to assume it could be buggy when we call it outside of builds
(as it might fail more than just the build).
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Use neovim's vendored dependencies for 0.4 and later
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* openfoam: correspond to build with Fujitsu compiler.
* openfoam: add rules for Fujitsu compiler (on linuxARM64)
- the Fujitsu compiler is a clang derivative, so use a modified
version of the clang rules if upstream does not supply anything
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* Add new package:py-json5
* Remove unnecessary line
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* New version of pylint + fix dependencies
* Update package.py
* Update package.py
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If using mpirun, the R sessions can be started with a wrapper script
that helps set up the R session cluster. Put this wrapper in the PATH so
it is easily accessible.
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