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2024-01-08OpenMPI: add v5.0.0/5.0.1, patches, and workarounds (#40913)Howard Pritchard5-8/+265
* Add OpenMPI 5.0.0/5.0.1 release * Fix a problem with dlopen syms with 5.0.0 * Crank up lex buffer to 1MB so that Open MPI's compiler wrapper can parse the enormously long lines present in, for example, mpicc-wrapper-data.txt when the spack install is utilizing Spack's path padding feature. * Disable romio by default for 5.0.0 and beyond owing to problems compiling the romio package when using the Intel OneAPI compiler. * Patch for addiing cuda lib location in case of non-standard location of libcuda.so * build accel components as DSOs. It appears from looking at some of the spack CI that it implicitly assumes that Open MPI is built with components as DSOs. The default behavior for Open MPI was changed between the 4.1.x release stream and the 5.0.x release stream changed and this premise is now incorrect. Turns out that starting with Open MPI 5.0.0 building static does not work when using a now very important variant, namely cuda. In older versions of Open MPI the libcuda.so was dlopened at run time when needed, but now libcuda is linked in to the cuda components of openmpi directly. This works when using Open MPI's dynamically loadable component option, but doesn't work now for a lot of the Spack CI pipelines because they don't include libcuda.so in LD_LIBRARY_PATH of packages that dont think they are using cuda themselves. Signed-off-by: Howard Pritchard <howardp@lanl.gov> Co-authored-by: Jack Morrison <jack.morrison@cornelisnetworks.com> Co-authored-by: Harmen Stoppels <me@harmenstoppels.nl>
2024-01-08justbuild: add version v1.2.4 (#41991)Alberto Sartori1-0/+1
2024-01-08fio: Add version 3.36. (#41949)Rémi Lacroix1-0/+1
2024-01-08perl-datetime-format-builder: New package (#41964)Arne Becker1-0/+31
Adds DateTime::Format::Builder
2024-01-08perl-email-abstract: New package (#41950)Arne Becker1-0/+32
* perl-email-abstract: New package Adds Email::Abstract * Added license
2024-01-08Minor tweak to a test docstring (#41985)Massimiliano Culpo1-6/+7
* Minor tweak to a test docstring Shorten the description of a fixture, extend the description of the test where it's used. * Fix typo
2024-01-08edm4hep: add latest tag 0.10.3 (#41987)Thomas Madlener1-0/+1
2024-01-08abinit: fix missing comma separating arguments (#41973)downloadico1-1/+1
2024-01-08Dont expect __qualname__ to exist (#41989)Harmen Stoppels1-1/+1
2024-01-08installer.py: do not tty.die when cache only fails (#41990)Harmen Stoppels2-27/+20
2024-01-08Remove explicit copyright lines (#41930)Arne Becker45-45/+0
- Spack committers retain their copyright, but explicit copyright lines should not be included. This commit removes them.
2024-01-08bugfix: original concretizer is sensitive to dependency order (#41975)Todd Gamblin3-41/+59
Needed for #40326, which can changes the iteration order over package dependencies during concretization. While clingo doesn't have this problem, the original concretizer (which we still use for bootstrapping) can be sensitive to iteration order when evaluating dependency constraints in `when` conditions. This can cause it to ignore conditional dependencies unless the dependencies in the condition are listed first in the package. The issue was in the way the original concretizer would disconnect specs *every* time `normalize()` ran. When specs were disconnected, `^dependency` constraints wouldn't see the dependency in the dependency condition loop. We now only only disconnect *all* dependencies at the start of `concretize()` and `normalize()`, and we disconnect any leftover dependents from replaced externals at the *end* of `normalize()`. This trims stale connections while keeping the ones that are needed to trigger dependency conditions. - [x] refactor `flat_dependencies()` to not disconnect the spec by default. - [x] `flat_dependencies()` is never called with `copy=True` -- remove the `copy` kwarg. - [x] disconnect only once at the beginning of `normalize()` or `concretize()`. - [x] add a test that perturbs dependency iteration order to ensure this doesn't regress. - [x] disconnect unused dependents at end of `normalize()`
2024-01-07Fix fides / ascent / vtk-m / visit (#41908)Vicente Bolea4-20/+25
Fixes among other things the compat bounds
2024-01-07py-pyheadtail: add latest version and cython constraint (#41978)Andre Sailer1-0/+3
2024-01-06hepmc3: add v3.2.7 (#41879)Wouter Deconinck1-0/+1
Bugfix only, https://gitlab.cern.ch/hepmc/HepMC3/-/compare/3.2.6...3.2.7?from_project_id=6751&straight=false.
2024-01-06build(deps): bump docker/metadata-action from 5.4.0 to 5.5.0 (#41969)dependabot[bot]1-1/+1
Bumps [docker/metadata-action](https://github.com/docker/metadata-action) from 5.4.0 to 5.5.0. - [Release notes](https://github.com/docker/metadata-action/releases) - [Commits](https://github.com/docker/metadata-action/compare/9dc751fe249ad99385a2583ee0d084c400eee04e...dbef88086f6cef02e264edb7dbf63250c17cef6c) --- updated-dependencies: - dependency-name: docker/metadata-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-01-06build(deps): bump flake8 from 6.1.0 to 7.0.0 in /.github/workflows/style ↵dependabot[bot]1-1/+1
(#41970) Bumps [flake8](https://github.com/pycqa/flake8) from 6.1.0 to 7.0.0. - [Commits](https://github.com/pycqa/flake8/compare/6.1.0...7.0.0) --- updated-dependencies: - dependency-name: flake8 dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-01-06build(deps): bump flake8 from 6.1.0 to 7.0.0 in /lib/spack/docs (#41971)dependabot[bot]1-1/+1
Bumps [flake8](https://github.com/pycqa/flake8) from 6.1.0 to 7.0.0. - [Commits](https://github.com/pycqa/flake8/compare/6.1.0...7.0.0) --- updated-dependencies: - dependency-name: flake8 dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
2024-01-06Automated deployment to update package flux-core 2024-01-06 (#41974)Vanessasaurus1-0/+1
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2024-01-06py-sphinx-prompt: new package (#41311)Lydéric Debusschère2-0/+58
* [add] py-sphinx-prompt: new package * py-poetry-plugin-tweak-dependencies-version: new package, dependence of py-shpinx-prompt * py-sphinx-prompt: fix dependences with respect to reviewing * py-poetry-plugin-tweak-dependencies-version: add dependence py-poetry * py-sphinx-prompt: add version 1.1.0 to unblock the concretization of py-sphinx-toolbox [PR#41313] * py-sphinx-prompt: fix style * py-sphinx-prompt: remove py-poetry dependence; fix python version * py-poetry-plugin-tweak-dependencies-version: add python version constraint --------- Co-authored-by: LydDeb <lyderic.debusschere@eolen.com>
2024-01-06py-ndg-httpsclient: add version 0.5.0 (#41914)Christopher Christofi1-0/+1
2024-01-05z3: add v4.12.4 (#41941)miheer vaidya1-0/+3
* z3: update, update maintainer * Update var/spack/repos/builtin/packages/z3/package.py Co-authored-by: Alec Scott <alec@bcs.sh> --------- Co-authored-by: Alec Scott <alec@bcs.sh>
2024-01-05spglib: add v2.2.0 (#41929)Rocco Meli1-0/+1
* ensure umpire~cuda~rocm when ~cuda~rocm * spglib-2.2.0
2024-01-05libdicom: add new package (#41937)Christopher Christofi1-0/+27
2024-01-05cosma: add missing depends_on for nccl/rccl (#41955)Simon Pintarelli1-0/+2
2024-01-05Automated deployment to update package flux-sched 2024-01-05 (#41961)Vanessasaurus1-0/+1
Co-authored-by: github-actions <github-actions@users.noreply.github.com>
2024-01-05Fix setup-env when going back and forth between instances (#40924)Jordan Galby4-31/+30
* setup-env: Fix back and forth between two instances * setup-env.csh: Fix SPACK_ROOT when switch to a different instance i.e. Always look for the current SPACK_ROOT * setup-env: Update comments
2024-01-05Gitlab pipelines: check load avg also before running script (#41962)Massimiliano Culpo3-0/+12
2024-01-04intel-oneapi-mkl: Add correct PKG_CONFIG_PATH entry for older versions. (#41958)Victor Brunini1-0/+3
At least 2021.3.0 puts the .pc files in tools/pkgconfig, not lib/pkgconfig.
2024-01-04`spack list`: add `--namesapce` / `--repo` option (#41948)Todd Gamblin4-3/+38
This adds options to `spack list` that allow you to list only packages from specific repositories/namespaces, e.g.: ```console spack list -r builtin ``` only lists packages from the `builtin` repo, while: ```console spack list -r myrepo -r myrepo2 ``` would list packages from `myrepo` and `myrepo2`, but not from `builtin`. Note that you can use the same argument multiple times. You can use either `-r` / `--repo` or `-N` / `--namespace`. `-N` is there to match the corresponding option on `spack find`. - [x] add `-r` / `--repo` / `-N` / `--namespace` argument - [x] add test
2024-01-04fmt: Add 10.2.1 (#41954)Mikael Simberg1-0/+1
2024-01-04rust: add v1.75.0 & v1.74.0, merge related variants into `+dev`, add ↵Alec Scott4-30/+32
rust-analyzer (#41903) * Add rust-analyzer as variant to rust build * Expose cargo module only when +cargo * rust: add v1.74.0 and v1.75.0 and remove variants in favor of +dev * [@spackbot] updating style on behalf of alecbcs * Fix variant typo --------- Co-authored-by: alecbcs <alecbcs@users.noreply.github.com>
2024-01-04symPACK: add new package (#41835)Dan Bonachea1-0/+90
2024-01-04Bumps google-auth-oauthlib dependency restriction to be compatible with ↵bk1-2/+2
versions up to 1.0 (https://github.com/tensorflow/tensorboard/releases/tag/2.12.1) (#41940)
2024-01-04perl-moox-types-mooselike: new package (#41705)Arne Becker1-0/+29
2024-01-04gperftools: Add 2.14 (#41928)Mikael Simberg1-0/+6
* gperftools: Add 2.14 * Add conflict for gperftools 2.14 and PPC
2024-01-04update BerkeleyGW source urls (#38218)Miguel Dias Costa1-3/+9
* update url for BerkeleyGW version 3.0.1 * update source urls and add version 3.1.0 to berkeleygw package
2024-01-04extensions: remove unused `extendee_args()` method (#41942)Todd Gamblin3-23/+6
This method is vestigial; the only arg we ever used was `ignore=`, and that was eliminated in #29317 and #35588. The `kwargs` field of the extensions dictionary is actually completely unused now. Add a note for future removal.
2024-01-04fmt: Add 10.2.0 (#41927)Mikael Simberg1-0/+1
2024-01-04bugfix: make `test_requires_directive` work on more platforms (#41943)Todd Gamblin1-1/+2
Literal compiler config in `test_requires_directive` specifically lists `target: x86_64`, but it doesn't need to, and the unnecessary target makes the test fail on non-`x86_64` machines. - [x] Remove target from config yaml in `test_requires_directive`
2024-01-03perl-email-simple: New package (#41932)Arne Becker1-0/+28
* perl-email-simple: New package * Removed copyright line * New year
2024-01-03perl-constant: add new package (#41912)Christopher Christofi1-0/+19
* perl-constant: add new package * Update package.py Co-authored-by: Alec Scott <alec@bcs.sh> --------- Co-authored-by: Alec Scott <alec@bcs.sh>
2024-01-03Spec.format: error on old style format strings (#41934)Harmen Stoppels2-0/+20
2024-01-03py-torch: set env OpenBLAS_HOME (#41745)Wouter Deconinck1-0/+10
* py-torch: set env OpenBLAS_HOME Because [`FindOpenBLAS.cmake`](https://github.com/pytorch/pytorch/blob/main/cmake/Modules/FindOpenBLAS.cmake) uses a hardcoded list of search paths for includes and libraries, we have to pass the `OpenBLAS_HOME` environment variable. * py-torch: patch for ${OpenBLAS_HOME}/include/openblas The context of this patch is unchanged since v0.4.0. * py-torch: move patch before def patch * py-torch: also set Atlas_ROOT_DIR and BLIS_HOME * py-torch: fix openblas patch range to @:2.1 Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> --------- Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2024-01-03fd: add v9.0.0 and convert to CargoPackage (#41904)Alec Scott1-9/+6
2024-01-03ripgrep: add v14.0.3 and convert to CargoPackage (#41905)Alec Scott1-7/+4
2024-01-03bat: add v0.24.0 and convert to CargoPackage (#41906)Alec Scott1-7/+2
2024-01-02Xorg libs: updated versions to current latest (#36240)Wouter Deconinck37-4/+174
* Xorg pkgs: updated version to current latest This updates the versions of multiple Xorg packages to their current latest version. Verified the requirements and version dependencies, and updated where needed. Modified one homepage (xkbcomp) in the interest of conformity with the other packages. Summary of dependency changes: - libsm: - depends_on("libice@1.1.0:", when="@1.2.4:") - libx11: - depends_on("libxcb@1.11.1:", when="@1.6.4:") - libxcomposite: - depends_on("xproto@7.0.22:", when="@0.4.6") - libxfixes: - depends_on("fixesproto@5.0:", when="@5") - depends_on("fixesproto@6.0:", when="@6") - libxi: - depends_on("inputproto@2.2.99.1:", when="@1.7:") - depends_on("inputproto@2.3.99.1:", when="@1.8:") * xcb-proto, libxcb: new version 1.15 * xorg libs: additional new versions New minor version upgrades: - libXcursor (no changed needed) - libXres - depends_on("resourceproto@1.0:", when="@1.0") - depends_on("resourceproto@1.2:", when="@1.2") * libxpm: ... depends_on ncompress only when 3.5.15 * Xorg libs: add maintainer * xtrans: new version 1.5.0 * xcb-proto: new version 1.16.0 * libxt: new version 1.3.0 * libxrandr: new version 1.5.4 * libxpm: new versions 3.5.16, 3.5.17 * libxi: new version 1.8.1 * libxft: new version 2.3.8 * libxfixes: new version 6.0.1 * libxcb: new version 1.16 * libx11: new version 1.8.5, 1.8.6, 1.8.7 * libxfixes: comment out problematic fixesproto versions * libxi: comment out problematic inputproto versions * libxfixes, libxi: add reference to issue that blocks updates
2024-01-02Change h5z-zfp from MakefilePackage to CMakePackage. (#41890)Larry Knox5-105/+1
Remove versions before 1.1.0 that do not support CMake. Remove patches for the removed versions.
2024-01-02py-torchvision: enable png/jpeg by default (#41913)Adam J. Stewart1-2/+2
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