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Merge from upstream including buildcache fix https://github.com/spack/spack/pull/46074 #436

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johnwparent and others added 30 commits August 22, 2024 09:48
Patch from Windows is also needed on Linux
Currently, the llvm-amdgpu package doesn't compile on MacOS, but it is
also not marked as a conflict. This causes problems because it seems
that Spack is very happy to pull in llvm-amdgpu as the default package
to satisfy any virtual libllvm dependency, which can cause dependent
specs to fail to install on MacOS. This commit marks a conflict between
this llvm package and the Darwin platform.
* Add a new audit to find missing package.py files

* Remove directory without package.py
Co-authored-by: shbhaska <shbhaska@amd.com>
* poppler: change the URL of the test repository
* py-ipykernel: add version 6.29.5
* add maintainers for spack package
* xrootd: change urls to xrootd.web.cern.ch
* xrootd: change homepage
* Add missing MultiMethodMeta metaclass in builders

and remove the Python 2 fallback option in favor of hard errors to catch
similar issues going forward.

The fallback option can cause about 10K stat calls due to use of
`realpath` in the inspect module, depending on how deep Spack itself is
nested in the file system, which is ... undesirable.

* code shuffling to avoid circular import

* more reshuffling

* move reserved variant names into variants module
* acts: add v36.0.0, v36.1.0 and fixes

This commit makes several changes to the Acts repository, namely:

1. It adds versions 36.0.0 and 36.1.0.
2. It adds the traccc plugin and related dependencies.
3. It updates the version requirements of some dependencies.
4. It adds the Geant4 module of GeoModel.
5. It updates the C++ standard requirement.
6. It adds a new variant determining the scalar type to use.

This commit supercedes spack#45851. Thanks @jmcarcell for the version
updates; I have added you as co-author.

Co-authored-by: Juan Miguel Carceller <22276694+jmcarcell@users.noreply.github.com>

* Updates

* alphabetic cmake args

---------

Co-authored-by: Juan Miguel Carceller <22276694+jmcarcell@users.noreply.github.com>
* py-autograd: mark numpy 2 compatibility

* Fix syntax error
* ddt: add v23.0.4 -> v24.0.3
* ddt: fix url_for_version for 22.1.3

---------

Co-authored-by: Lydéric Debusschère <lyderic.de@gmail.com>
* davix: add versions 0.8.2-0.8.7 and dependencies
  This commit adds new versions 0.8.2-0.8.7 of the davix package, and it
  also improves the handling of embedded packages. Davix will try to build
  libcurl from its own embedded version of that code, which doesn't mesh
  well with Spack's design philosophy, so I've changed the CMake
  configuration to disallow the builtin libcurl and use a Spack dependency
  instead. Up to version 0.8.7, RapidJSON was also builtin, but version
  0.8.7 allows users to specify that they want to use a pre-installed
  version of RapidJSON, so this commit also adds that as a dependency for
  versions 0.8.7:.
* Fix old versions
* VTK-m: Point to github mirror for source tarball
  The gitlab.kitware.com source location seems to have intermittent
  network issues. Switching the to mirror hosted at Github may alleviate
  some of the timeouts.
* Update sha256 for GitHub tarballs

---------

Co-authored-by: Zack Galbreath <zack.galbreath@kitware.com>
Source mirrors store entries by digest and add a human readable alias of the
form 'name-version'. If no digest is available, the alias is used as the primary
storage location.

Spack erroneously fetches by alias when the digest path does not exist. This is
problematic if `version(..., sha256=...)` changes in package.py, and the mirror
is populated with the old shasum. That would result in an error when a digest
is available, but in case of git versions with a modified commit sha, the wrong
sources would be fetched without error. With this PR, only the digest path is
used, not the alias, in case a digest is available. This is also a small performance
optimization, as the number of request is halved for mirrors that don't contain
the sources.

Further, for git sources the tag was used as a digest, but this is a moving
target. Only commit sha is used now.

Also whenever the alias already existed, Spack used to keep it in place when
updating the mirror cache, which means that aliases would always point to
outdated mirror entries whenever digests are modified. With this PR the alias
is moved in place.

Lastly, fix a recent regression where `Stage.disable_mirrors` disabled mirrors
but not the local download cache, which was the intention.
Signed-off-by: Todd Gamblin <tgamblin@llnl.gov>
…ack#46027)


Co-authored-by: wdconinc <wdconinc@users.noreply.github.com>
adamjstewart and others added 21 commits September 4, 2024 09:33
* py-rasterio: add v1.3.11
* Use default_args
)

Co-authored-by: github-actions <github-actions@users.noreply.github.com>
…and fix for the failure in hostexec (spack#45658)

* Adding addtional check for omptarget library for amdgpu in nvidia environment
* Avoiding registration of duplicate when built on cuda
* Adding hsa library path in LD_LIBRARY_PATH
* Correction in hsa prefix library path in LD_LIBRARY_PATH
* py-trieregex: new package
* py-schema: add v0.7.7

* py-schema: fix when spec

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
This change aligns the build condition for parmetis with the
depends_on condition.
The current build condition of parmetis looks for "+parmetis" in
the spec which is not added by the depends_on as that adds
"^parmetis" instead.
Signed-off-by: Jack Morrison <jack.morrison@cornelisnetworks.com>
…pack#46126)

* Replace if ... in spec with spec.satisfies in d* and e* packages

* Use virtuals for different mpi implementations in esmf

* esmf: ^[virtuals=mpi] mpt

* extrae: ^[virtuals=mpi] intel-oneapi-mpi

---------

Co-authored-by: Wouter Deconinck <wdconinc@gmail.com>
This test was possibly meant for the Cray platform, and
currently is a no-op.

Signed-off-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
Ensures that Database instances do not reference a global
`spack.store.STORE.layout`. Simplify Database.{add,reindex} signature.
* pika: Add 0.28.0

* Add conflict between pika 0.28.0 and dla-future
fixes two tests that did not clear the in-memory bits of a database
before calling reindex.
tmadlener and others added 3 commits September 5, 2024 08:27
…ck#46194)

* gaudi: Specify boost components and add +fiber for v39

* gaudi: Limit fmt version to allow building master branch

* Make boost dependencies a bit more readable

* Remove patches for no longer existing versions
…e-from-upstream-2024-09-04

Updated merge with fixes to previously-faulty conflict resolution on:
* `var/spack/repos/builtin/packages/perl-bioperl/package.py`
* `var/spack/repos/builtin/packages/perl-io-socket-ssl/package.py`
@greenc-FNAL greenc-FNAL merged commit 019e4bb into FNALssi:fnal-develop Sep 5, 2024
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