Currently, many tests hardcode to older versions of gcc for comparisons of
concretization among compiler versions. Those versions are too old to concretize for
`aarch64`-family targets, which leads to failing tests on `aarch64`.
This PR fixes those tests by updating the compiler versions used for testing.
Currently, many tests hardcode the expected architecture result in concretization to the
`x86_64` family of architectures.
This PR generalizes the tests that can be generalized, to cover multiple architecture
families. For those that test specific relationships among `x86_64`-family targets, it
ensures that concretization uses the `x86_64`-family targets in those cases.
Currently, many tests rely on the fact that `AutotoolsPackage` imposes no dependencies
on the inheriting package. That is not true on `aarch64`-family architectures.
This PR ensures that the fact `AutotoolsPackage` on `aarch64` pulls in a dependency on
`gnuconfig` is ignored when testing for the appropriate relationships among dependencies
Additionally, 5 tests currently prompt the user for input when `gpg` is available in the
user's path. This PR fixes that issue. And 7 tests fail currently when the user has a
yubikey available. This PR fixes the incorrect gpg argument causing those issues.
The `spack info <package>` command does not show the `Virtual Packages:` output unless the `--virtuals` command option is passed. Before this changes, the information that the command is supposed to be illustrating is not shown in the example and is confusing.
* julia: don't look for the openlibm libraries when unneeded
Cause spack to *not* check for the existence of the openlibm libraries (by adding it to the pkgs list) when ~openlibm is specified.
* [@spackbot] updating style on behalf of downloadico
Co-authored-by: downloadico <downloadico@users.noreply.github.com>
- the updated OpenFOAM wmake rules now allow multiple locations for
compiler flags:
* wmake/General/common/c++Opt [central]
* wmake/linux64Gcc/c++Opt [traditional]
- match both '=' and ':=' make rule lines
Co-authored-by: Mark Olesen <Mark.Olesen@esi-group.com>
Changes to improve locating shared libraries on Windows, which in
turn enables the use of Clingo. This PR attempts to establish a
proper distinction between linking on Windows vs. Linux/Mac: on
Windows, linking is always done with .lib files (never .dll files).
This somewhat complicates the model since the Spec.lib method could
return libraries that were used for both linking and loading, but
since these are not always the same on Windows, it was decided to
treat Spec.libs as being for link-time libraries. Additional functions
are added to help dependents locate run-time libraries.
* Clingo is now the default concretizer on Windows
* Clingo is now the concretizer used for unit tests on Windows
* Fix a permissions issue that can occur while moving Git files during
fetching/staging
* Packages can now implement "win_add_library_dependent" to register
files/directories that include libraries that would need to link
to dependency dlls
* Packages can now implement "win_add_rpath" to register the locations
of dlls that dependents would want to load
* "Spec.libs" on Windows is updated to return link-time libraries
(i.e. .lib files, rather than .dll files)
* PackageBase.rpath on Windows is now updated to return the most-likely
locations where .dlls will be found (which is generally in the bin/
directory)
* Nalu-Wind: Allow for standard versions of trilinos
This will allow us to utilize custom numeric versions for trilinos in `spack-manager` while we continue to develop `nalu-wind`.
Pinging @eugeneswalker @jrood-nrel @tasmith4
* Update var/spack/repos/builtin/packages/nalu-wind/package.py
Currently there's a slow sequential step in binary relocation where all
strings of a binary are collected, with rpaths removed, and then
filtered for the old install root.
This is completely unnecessary, and also incorrect, since we replace
more than just the old install root in the prefix to prefix mapping. And
in fact the prefix to prefix mapping is parallel, and a single pass. So
even as an optimization, this filter makes no sense anymore.
Therefor we remove it
- single pass over the binary data matching all prefixes
- collect offsets and replacement strings
- do in-place updates with `fseek` / `fwrite`, since typically our
replacement touch O(few bytes) while the file is O(many megabytes)
- be nice: leave the file untouched if some string can't be
replaced
* Added py-medaka and dependencies
* fixed py-parasail build error
* medaka still doesn't have correct linked libdeflate
* fixed pyspoa deps
* added htslib.patch, confirmed builds and runs
* fixed style
* Update var/spack/repos/builtin/packages/py-auditwheel/package.py
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
* made requested changes
* added targets for pyspoa dep
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
