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2022-05-24Best effort co-concretization (iterative algorithm) (#28941)Massimiliano Culpo1-1/+1
Currently, environments can either be concretized fully together or fully separately. This works well for users who create environments for interoperable software and can use `concretizer:unify:true`. It does not allow environments with conflicting software to be concretized for maximal interoperability. The primary use-case for this is facilities providing system software. Facilities provide multiple MPI implementations, but all software built against a given MPI ought to be interoperable. This PR adds a concretization option `concretizer:unify:when_possible`. When this option is used, Spack will concretize specs in the environment separately, but will optimize for minimal differences in overlapping packages. * Add a level of indirection to root specs This commit introduce the "literal" atom, which comes with a few different "arities". The unary "literal" contains an integer that id the ID of a spec literal. Other "literals" contain information on the requests made by literal ID. For instance zlib@1.2.11 generates the following facts: literal(0,"root","zlib"). literal(0,"node","zlib"). literal(0,"node_version_satisfies","zlib","1.2.11"). This should help with solving large environments "together where possible" since later literals can be now solved together in batches. * Add a mechanism to relax the number of literals being solved * Modify spack solve to display the new criteria Since the new criteria is above all the build criteria, we need to modify the way we display the output. Originally done by Greg in #27964 and cherry-picked to this branch by the co-author of the commit. Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com> * Inject reusable specs into the solve Instead of coupling the PyclingoDriver() object with spack.config, inject the concrete specs that can be reused. A method level function takes care of reading from the store and the buildcache. * spack solve: show output of multi-rounds * add tests for best-effort coconcretization * Enforce having at least a literal being solved Co-authored-by: Greg Becker <becker33@llnl.gov>
2022-05-24New package: py-x21 (#30225)Jen Herting1-0/+66
* Py-x21 now works, needs dependencies Conflicts: var/spack/repos/rit-rc/packages/py-x21/package.py * Added dependencies to py-x21 * Making flake style check happy * [py-x21] flake8 * [py-x21] - added homepage - added placeholder description - added comment about checksums * [py-x21] added darwin support and fixed issue with python 3.7 wheel name * [py-x21] adding checksum hash * [py-x21] removed duplicate py-pynacl * [py-x21] - updated description - updated version listing to have a different version for each version of python. Also, versions dependent on sys.platform - updated url_for_version to not require post concretized information so that spack checksum works * [py-x21] isort Co-authored-by: vehrc <vehrc@rit.edu>
2022-05-24apptainer: new package (#30745)Matthias Wolf3-14/+77
2022-05-24vdt: add preload variant (#30030)iarspider1-0/+5
2022-05-24libfabric has needed rdma-core for efa since 1.10.0 (#30798)Evan Bollig1-0/+1
2022-05-24petsc: update rocrand location wrt rocm@5.1.0 (#30790)Satish Balay1-1/+5
rocm-5.1.0 removed librocrand.so from ROCM_DIR/rocrand/lib location (but includes are still at this location) /opt/rocm-5.0.2/lib/librocrand.so /opt/rocm-5.0.2/rocrand/lib/librocrand.so /opt/rocm-5.1.0/lib/librocrand.so drwxr-xr-x 2 root root 617 Mar 8 08:20 /opt/rocm-5.0.2/rocrand/include drwxr-xr-x 2 root root 617 Mar 31 09:48 /opt/rocm-5.1.0/rocrand/include
2022-05-24su2: add v7.3.1 (#30794)Mr-Timn1-0/+3
2022-05-24trilinos: add adelus, aprepro and teuchos variants (#28935)Paul Wolfenbarger1-0/+4
2022-05-24gplates: add v2.3.0 (#30676)Adam J. Stewart1-30/+38
2022-05-23Revert "Added cloud_pipline for E4S on Amazon Linux (#29522)" (#30796)Scott Wittenburg1-7/+6
This reverts commit 07e9c0695af09bbf5d1ebe51bb6f2b34eb88a3df.
2022-05-23Bugfix hwloc find cuda (#30788)Brian Van Essen1-0/+10
* Added autotools configure flags to ensure that hwloc finds the correct version of CUDA that it was concretized against, rather than the first one that package config finds. * Added support for finding the correct version of ROCm libraries. Fixed Flake8. * Fixed guard on finding ROCm library
2022-05-23[py-h2] added version 3.2.0 and 4.1.0 (#29804)Jen Herting1-4/+9
* [py-h2] py-wheel is implied by PythonPackage * [py-h2] python dependencies should be type=('build', 'run') * [py-h2] fixed dependencies for py-h2@4.0.0 * [py-h2] added version 3.2.0 * [py-h2] added version 4.1.0 * [py-h2] Older version requires py-enum34 for older versions of python
2022-05-23Added cloud_pipline for E4S on Amazon Linux (#29522)Evan Bollig1-6/+7
Add two new cloud pipelines for E4S on Amazon Linux, include arm and x86 (v3 + v4) stacks. Notes: - Updated mpark-variant to remove conflict that no longer exists in Amazon Linux - Which command on Amazon Linux prefixes on all results when padded_length is too high. In this case, padded_length<=503 works as expected. Chose conservative length of 384.
2022-05-23usearch: adding in new version, updating checksums (#30776)snehring1-4/+6
2022-05-23genemark-et: updating to 4.69 (#30793)snehring1-0/+1
2022-05-23plumed: add versions up to v2.8.0 (#30787)Maciej Wójcik2-21/+42
2022-05-23abseil-cpp: add v20211102 (#30785)marcus-elia1-1/+2
2022-05-23xsdk-examples: add v0.3.0 (#30770)Cody Balos3-30/+89
Co-authored-by: Satish Balay <balay@mcs.anl.gov> Co-authored-by: Veselin Dobrev <dobrev@llnl.gov>
2022-05-23py-rnc2rng: fix 2.6.5 and add 2.6.6 (#30784)Manuela Kuhn1-0/+3
2022-05-23hdf5-vol-async: update new version, tests, and runtime envs (#30713)Jean Luca Bez1-5/+21
* Update h5bench maintainers and versions * Include version 1.1 for h5bench * Correct release hash and set default version * Update .tar.gz version * Include new version and update runtime * Update year * Update package.py * Update package.py
2022-05-23llvm: make "omp_as_runtime" variant conditional (#30782)Massimiliano Culpo1-4/+1
fixes #30700 To avoid clingo adding penalties for not using the default value for a variant, it's better to model the variant as conditional where possible.
2022-05-23gdb: add v11.2 (#30780)Ben Bergen1-1/+2
- This resolves bug https://sourceware.org/PR28302
2022-05-22py-pyfr: Add v1.14.0, add LIBXSMM variant (#30612)MichaelLaufer3-8/+28
* Update PyFR, Gimmik versions. Add PyFR LIBXSMM variant * Fixes * Changes to variants * Update py-gimmik version requirement in py-pyfr * Revert "Update py-gimmik version requirement in py-pyfr" This reverts commit 3b3fde30425ece252290eb0a2793ca1707f84860. * Update libxsmm conflicts
2022-05-22Add Teuchos patch that fixes implicit casting of complex numbers (#30777)Paul Kuberry1-0/+3
2022-05-21Feature/composed boost pkg deps p3 (#28961)Abhik Sarkar16-102/+18
* This commit removes the Boost.with_default_variants to variants that packages are precisely dependant upon. This is the third batch of 16 packages with modified boost dependencies. * style fix * Update var/spack/repos/builtin/packages/sympol/package.py Co-authored-by: Tim Haines <thaines.astro@gmail.com> * fix style * Apply suggestions from code review Co-authored-by: Tim Haines <thaines.astro@gmail.com> * Fix Trilinos boost deps * Fix style Co-authored-by: Tim Haines <thaines.astro@gmail.com> Co-authored-by: Tom Scogland <tom.scogland@gmail.com>
2022-05-21gcc: add `build_type` and `profiled` variants (#30660)Harmen Stoppels1-0/+67
Add a `build_type` variant, which allows building optimized compilers, as well as target libraries (libstdc++ and friends). The default is `build_type=RelWithDebInfo`, which corresponds to GCC's default of -O2 -g. When building with `+bootstrap %gcc`, also add Spack's arch specific flags using the common denominator between host and new GCC. It is done by creating a config/spack.mk file in def patch, that looks as follows: ``` BOOT_CFLAGS := $(filter-out -O% -g%, $(BOOT_CFLAGS)) -O2 -g -march=znver2 -mtune=znver2 CFLAGS_FOR_TARGET := $(filter-out -O% -g%, $(CFLAGS_FOR_TARGET)) -O2 -g -march=znver2 -mtune=znver2 CXXFLAGS_FOR_TARGET := $(filter-out -O% -g%, $(CXXFLAGS_FOR_TARGET)) -O2 -g -march=znver2 -mtune=znver2 ```
2022-05-21New package: py-motor (#30763)Jen Herting1-0/+19
* New package: py-motor * Fixed dependency errors * Fixed flake style errors * Fixed linked issue Co-authored-by: Viv Eric Hafener <vehrc@sporcbuild.rc.rit.edu>
2022-05-21py-ww: add new package (#30767)Manuela Kuhn1-0/+23
* py-ww: add new package * Add missing py-pytest-runner dependency
2022-05-21paml: add v4.10.3 (#30772)snehring1-2/+8
2022-05-20visit: Overhaul to build in the DAV SDK (#30594)Chuck Atkins4-118/+167
* mesa-glu and mesa-demos: Fix conflicts with glu and osmesa * visit: Update visit dependencies * ecp-data-vis-sdk: Enable +visit * ci[data-vis-sdk]: Enable +visit
2022-05-20update checksum and url for mlirmiopen recipe (#30771)Sreenivasa Murthy Kolam1-2/+2
2022-05-20[py-openslide-python] added verion 1.1.2 (#30722)Jen Herting1-3/+6
* [py-openslide-python] added verion 1.1.2 and set max py-setuptools version for 1.1.1 * [py-openslide-python] - setuptools required for all possible newer versions - python is type build run * [py-openslide-python] use pil provider
2022-05-20py-formatizer: add new package (#30755)Manuela Kuhn1-0/+17
2022-05-20py-pybids: add 0.8.0 and 0.15.1 (#30756)Manuela Kuhn1-2/+6
2022-05-20DWZ: use virtual "elf" package (#30761)iarspider1-1/+1
2022-05-20Add newer openfast versions and preliminary OpenMP compile support (#30752)Nate deVelder1-0/+17
* Add version 3.0 and 3.1 and prelim OpenMP support * Fix flag handler missing spec variable * Use self.compiler.openmp_flag instead of -fopenmp * Fix whitespace
2022-05-20qt: Qt 5.15.0 requires OpenSSL 1.1.1 (#30754)Jordan Galby1-2/+5
Fixes qt configure errors with external openssl on older systems (rhel7) See https://github.com/qt/qtbase/blob/efc02f9cc301f98c77079adae026ffd07f50d5ab/dist/changes-5.15.0#L346 This means for now on, `qt ^openssl@1.0` gets you `qt@5.15.4 ~ssl`: clingo chooses latest qt version **but disables ssl support**.
2022-05-20Petsc: fix enable-x for virtuals (#30749)Peter Scheibel1-5/+6
* If direct dependencies provide virtuals, add those virtual names as well * Also refer to package by virtual name for jpeg
2022-05-19py-fracridge: add new package (#30739)Manuela Kuhn1-0/+23
2022-05-19Update py-onnx-runtime to 1.10; update CMS patch (#30725)iarspider2-0/+146
* Update py-onnx-runtime to 1.10; update CMS patch * Update package.py
2022-05-19python: more +optimizations (#30742)Harmen Stoppels1-0/+2
2022-05-19fenicsx: update to v0.4 (#30661)Matthew Archer7-35/+78
* Fix for xtensor-xsimd * Add sha256 for all new releases * renamed ufcx package * Update sha for ffcx * fixed hashes and modified fenics-dolfinx to depend on ufcx * cleaned and fixed dependency types * use spec.satisfies in cmake_args * bumped to ufcx@0.4.1 * address PR comments * fix hashes * update parmetis in cmake_args to reflect default setting * update versions * renamed ufcx package * fixed hashes and modified fenics-dolfinx to depend on ufcx * cleaned and fixed dependency types * use spec.satisfies in cmake_args * bumped to ufcx@0.4.1 * address PR comments * fix hashes * update parmetis in cmake_args to reflect default setting * update versions * Add dependency fix * bump basix to 0.4.2 and address PR comments * Versioning fixes * Use xtensor-0.24: and loosen pybind11 * Add conflicts for partitioners * Updates on partitioners * use define_from_variant * Tidy up some dependencies * Work on multi-variants for graph partitioners * Fix KaHIP issue. KaHIP changed the name of its library from 'interface' to 'kahip'. Pin earlier versions of DOLFINx to earlier verisons of KaHIP for proper detection. Co-authored-by: Chris Richardson <chris@bpi.cam.ac.uk> Co-authored-by: Garth N. Wells <gnw20@cam.ac.uk>
2022-05-19Ascent: Add variant to disable blt_find_mpi (#30735)kwryankrattiger1-0/+6
This is needed to find MPI correctly on cray systems and similar.
2022-05-19Update millepede recipe (#30737)iarspider1-0/+3
2022-05-19libtheora: fix the hash of a patch. (#30740)Rémi Lacroix1-1/+1
Cosmetic changes only, probably because gitlab.xiph.org got updated.
2022-05-19cuda: use stage dir instead of /tmp during install (#29584)Valentin Volkl1-1/+6
2022-05-19tar: add compress deps (#30641)Harmen Stoppels2-3/+28
* remove spack dependency from package * tar: fix compression programs, use pigz by default instead of gzip on -z
2022-05-19cp2k: fix unbound var use without cuda (#30736)Tiziano Müller1-1/+2
fixes #30631
2022-05-18RAJA and associated packages: add v2022.03.0 (#30047)David Beckingsale5-22/+61
* Add raja@2022.03.0 * Add camp@2022.03.0 * Add chai@2022.03.0 * Add umpire@2022.03.1 * Latest chai, raja, umpire versions don't need submodules * Latest chai, raja, umpire versions update CMake option names * New umpire +device_alloc option (for latest version) * All versions of dray are now required to build with raja@:0.14 Co-authored-by: Marty McFadden <mcfadden8@users.noreply.github.com>
2022-05-19Catch2: update to 3.0.1 (#30732)Teodor Nikolov1-1/+2
Co-authored-by: Tamara Dahlgren <35777542+tldahlgren@users.noreply.github.com>