Primary fix:
Due to a typo in a version range, overlapping PR merges resulted
in a build failure of the latest version:
Don't attempt to remove a non-existing file for version 1.9.6.
Secondary fixes:
update_tpetra_gotypes.patch was mentioned twice, and the version
range has to exclude @1.4.2, to which it cannot be applied.
Add depend_on() py-pytest, py-numpy and pkgconfig with type='test'
@:1.9.0 fail with 'Rank mismatch with gfortran@10:, add a conflicts().
raise InstallError('~mpi not possible with kernel_lib=builtin!')
when applicable.
Fixes for spack install --test=root phist:
mpiexec -n12 puts a lot of stress on a pod and gets stuck in a loop
very often: Reduce the mpiexec procs and the number of threads.
Remove @run_after('build') @on_package_attributes(run_tests=True):
from 'def check()': fixes it from getting called twice
The build script of 'make test_install' for the installcheck expects
the examples to be copied to self.stage.path: Provide them.
* updating the recipe for betterment
* addressing the suggesions received from reviewers
* adding package helper macros
Co-authored-by: mohan002 <mohbabul@amd.com>
Using the Spec.constrain method doesn't work since it might
trigger a repository lookup which could break our directives
and triggers a circular import error.
To fix that we introduce a function to merge abstract anonymous
specs, based only on package names, which does not perform any
lookup in the repository.
Add missing pkgconfig to openslide and its dep perl-alien-libxml2.
Fix shared-mime-info to be a runtime dependency of gdk-pixbuf,
Otherwise, configure cannot detect use gdk-pixbuf without error.
* SEACAS: add a Faodel variant
* Use safer CMake and variant packages instead of directly adding parameters
Add a "+faodel ~mpi" dependency to balance "+faodel +mpi"
The buildcache is now extracted in a temporary folder within the current store,
moved to its final place and relocated.
"spack clean -s" has been extended to also clean the temporary extraction directory.
Add hardlinks with absolute paths for libraries in the corge, garply and quux packages
to detect incorrect handling of hardlinks in tests.
Problem: Flux expects the `FLUX_PMI_LIBRARY_PATH` to point directly at
the `libpmi.so` installed by Flux. When the env var is unset,
prepending to it results in this behavior. In the rare case that the
env var is already set, then the spack `libpmi.so` gets prepended with a
`:`, which Flux then attempts to interpret as a single path.
Solution: don't prepend to the path, instead set the path to point to
the `libpmi.so` (which will be undone when Flux is unloaded).
* flux-core: remove deprecated environment variables
The earliest checksummed version in this package is 0.15.0. As of
0.12.0, wreck (and its associated paths) no longer exist in Flux. As of
0.13.0, the `FLUX_RCX_PATH` variables are no longer used. So clean up
these env vars from the `setup_run_environment`.
gromacs@2018:2020.6 is fixed to build with gcc@11.2.0
by adding #include <limits> to a few header files.
Thanks to Maciej Wójcik <w8jcik@gmail.com> for testing versions.
The `find` command was missing for the examples forcing colorized output. Without this (or another suitable) command, spack produces output that is not using any color. Thus, without the `find` command one does not see any difference between forced colorized and non-colorized output.
There was a bug in 2.36.* of missing Makefile dependencies. The
previous workaround was to require 2.36 to be built serially. This is
now fixed upstream in 2.37 and this PR adds the patch to restore
parallel make to 2.36.
* py-niworkflows: add new package
* Update var/spack/repos/builtin/packages/py-niworkflows/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* remove unnecessary comment
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* py-nistats: add new package
* Update var/spack/repos/builtin/packages/py-nistats/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* remove `conflicts`
* remove test dependencies
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
when deployed on kubernetes, the server sends back permanent redirect responses.
This is elegantly handled by the requests library, but not urllib that we have
to use here, so I have to manually handle it by parsing the exception to
get the Location header, and then retrying the request there.
Signed-off-by: vsoch <vsoch@users.noreply.github.com>
* packages/phist, re #26002: force phist to use MPI compiler wrappers (copied from trilinos package)
* packages/phist re #26002, use cmake-provded FindMPI module only
* packages/phist source code formatting
* packages/phist: set MPI_HOME rather than MPI_BASE_DIR, thanks @sethri.
* phist: delete own FindMPI.cmake for older versions (rather than patching it away)
* packages/phist: remove blank line
* phist: adjust sorting of imports
* phist: change order of imports
