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2021-05-22clingo: modify recipe for bootstrapping (#22354)Massimiliano Culpo2-4/+26
* clingo: modify recipe for bootstrapping Modifications: - clingo builds with shared Python only if ^python+shared - avoid building the clingo app for bootstrapping - don't link to libpython when bootstrapping * Remove option that breaks on linux * Give more hints for the current Python * Disable CLINGO_BUILD_PY_SHARED for bootstrapping * bootstrapping: try to detect the current python from std library This is much faster than calling external executables * Fix compatibility with Python 2.6 * Give hints on which compiler and OS to use when bootstrapping This change hints which compiler to use for bootstrapping clingo (either GCC or Apple Clang on MacOS). On Cray platforms it also hints to build for the frontend system, where software is meant to be installed. * Use spec_for_current_python to constrain module requirement (cherry picked from commit d5fa509b072f0e58f00eaf81c60f32958a9f1e1d)
2021-05-22Channelflow: Fix the package. (#22483)Rémi Lacroix1-1/+1
A search and replace went wrong in 2264e30d99d8b9fbdec8fa69b594e53d8ced15a1. Thanks to @wadudmiah who reported this issue.
2021-05-21clingo-bootstrap: account for cray platform (#22460)Massimiliano Culpo1-3/+7
(cherry picked from commit 138312efabd534fa42d1a16e172e859f0d2b5842)
2021-05-21clingo: fix typo (#22444)Maxim Belkin1-1/+1
2021-05-21clingo: added a package with option for bootstrapping clingo (#20652)Massimiliano Culpo2-2/+66
* clingo/clingo-bootstrap: added a package with option for bootstrapping clingo package builds in Release mode uses GCC options to link libstdc++ and libgcc statically * clingo-bootstrap: apple-clang options to bootstrap statically on darwin * clingo: fix the path of the Python interpreter In case multiple Python versions are in the same prefix (e.g. when clingo is built against an external Python), it may happen that the Python used by CMake does not match the corresponding node in the current spec. This is fixed here by defining "Python_EXECUTABLE" properly as a hint to CMake. * clingo: the commit for "spack" version has been updated.
2021-05-21Clingo: fix missing import (#21364)Adam J. Stewart1-0/+1
2021-05-21clingo: prefer master branchTodd Gamblin1-1/+1
Most people installing `clingo` with Spack are going to be doing it to use the new concretizer, and that requires the `master` branch. - [x] make `master` the default so we don't have to keep telling people to install `clingo@master`. We'll update the preferred version when there's a new release.
2021-05-10use package supplied autogen.sh (#20319)Phil Tooley1-0/+6
2021-02-19Resolve (post-cherry-picking) flake8 errorsTamara Dahlgren1-2/+4
2021-02-17intel-oneapi-compilers/mpi: add module support (#20808)Frank Willmore2-0/+48
Facilitate running intel-oneapi-mpi outside of Spack (set PATH, LD_LIBRARY_PATH, etc. appropriately). Co-authored-by: Robert Cohn <rscohn2@gmail.com>
2021-02-17intel-oneapi-compilers: add to LD_LIBRARY_PATH so that it finds libimf.so ↵Frank Willmore1-22/+31
(#20717) * add to LD_LIBRARY_PATH so that it finds libimf.so * amrex: fix handling of CUDA arch (#20786) * amrex: fix handling of CUDA arch * amrex: fix style * amrex: fix bug * Update var/spack/repos/builtin/packages/amrex/package.py * Update var/spack/repos/builtin/packages/amrex/package.py Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> * ecp-data-vis-sdk: Combine the vis and io SDK packages (#20737) This better enables the collective set to be deployed togethor satisfying eachothers dependencies * r-sf: fix dependency error (#20898) * improve documentation for Rocm (hip amd builds) (#20812) * improve documentation * astyle: Fix makefile for install parameter (#20899) * llvm-doe: added new package (#20719) The package contains duplicated code from llvm/package.py, will supersede solve. * r-e1071: added v1.7-4 (#20891) * r-diffusionmap: added v1.2.0 (#20881) * r-covr: added v3.5.1 (#20868) * r-class: added v7.3-17 (#20856) * py-h5py: HDF5_DIR is needed for ~mpi too (#20905) For the `~mpi` variant, the environment variable `HDF5_DIR` is still required. I moved this command out of the `+mpi` conditional. * py-hovorod: fix typo on variant name in conflicts directive (#20906) * fujitsu-fftw: Add new package (#20824) * pocl: added v1.6 (#20932) Made version 1.5 or lower conflicts with a64fx. * PCL: add new package (#20933) * r-rle: new package (#20916) Common 'base' and 'stats' methods for 'rle' objects, aiming to make it possible to treat them transparently as vectors. * r-ellipsis: added v0.3.1 (#20913) * libconfig: add build dependency on texinfo (#20930) * r-flexmix: add v2.3-17 (#20924) * r-fitdistrplus: add v1.1-3 (#20923) * r-fit-models: add v0.64 (#20922) * r-fields: add v11.6 (#20921) * r-fftwtools: add v0.9-9 (#20920) * r-farver: add v2.0.3 (#20919) * r-expm: add v0.999-6 (#20918) * cln: add build dependency on texinfo (#20928) * r-expint: add v0.1-6 (#20917) * r-envstats: add v2.4.0 (#20915) * r-energy: add v1.7-7 (#20914) * r-ellipse: add v0.4.2 (#20912) * py-fiscalyear: add v0.3.0 (#20911) * r-ecp: add v3.1.3 (#20910) * r-plotmo: add v3.6.0 (#20909) * Improve gcc detection in llvm. (#20189) Co-authored-by: Tom Scogland <tom.scogland@gmail.com> Co-authored-by: Thomas Green <ca-tgreen@gw4a64fxlogin00.head.gw4.metoffice.gov.uk> * hatchet: updated urls (#20908) * py-anuga: add new package (#20782) * libvips: added v8.10.5 (#20902) * libzmq: add platform conditions to libbsd dependency (#20893) * r-dtw: add v1.22-3 (#20890) * r-dt: add v0.17 (#20889) * r-dosnow: add v1.0.19 (#20888) * add version 1.0.16 to r-doparallel (#20886) * add version 1.3.7 to r-domc (#20885) * add version 0.9-15 to r-diversitree (#20884) * add version 1.3-3 to r-dismo (#20883) * add version 0.6.27 to r-digest (#20882) * add version 1.5 to r-rngtools (#20887) * add version 1.5.8 to r-dicekriging (#20877) * add version 1.4.2 to r-httr (#20876) * add version 1.28 to r-desolve (#20875) * add version 2.2-5 to r-deoptim (#20874) * add version 0.2-3 to r-deldir (#20873) * add version 1.0.0 to r-crul (#20870) * add version 1.1.0.1 to r-crosstalk (#20869) * add version 1.0-1 to r-copula (#20867) * add version 5.0.2 to r-rcppparallel (#20866) * add version 2.0-1 to r-compositions (#20865) * add version 0.4.10 to r-rlang (#20796) * add version 0.3.6 to r-vctrs (#20878) * amrex: add ROCm support (#20809) * add version 2.0-0 to r-colorspace (#20864) * add version 1.3-1 to r-coin (#20863) * add version 0.19-4 to r-coda (#20862) * add version 1.3.7 to r-clustergeneration (#20861) * add version 0.3-58 to r-clue (#20860) * add version 0.7.1 to r-clipr (#20859) * add version 2.2.0 to r-cli (#20858) * add version 0.4-3 to r-classint (#20857) * add version 0.1.2 to r-globaloptions (#20855) * add version 2.3-56 to r-chron (#20854) * add version 0.4.10 to r-checkpoint (#20853) * add version 2.0.0 to r-checkmate (#20852) * add version 1.18.1 to r-catools (#20850) * add version 1.2.2.2 to r-modelmetrics (#20849) * add version 3.0-4 to r-cardata (#20847) * add version 1.0.1 to r-caracas (#20846) * r-lifecycle: new package at v0.2.0 (#20845) * add version 3.0-10 to r-car (#20844) * add version 3.4.5 to r-processx (#20843) * add version 1.5-12.2 to r-cairo (#20842) * add version 0.2.3 to r-cubist (#20841) * add version 2.6 to r-rmarkdown (#20838) * add version 1.2.1 to r-blob (#20819) * add version 4.0.4 to r-bit (#20818) * add version 2.4-1 to r-bio3d (#20816) * add version 0.4.2.3 to r-bibtex (#20815) * add version 3.1-4 to r-bayesm (#20807) * add version 1.2.1 to r-backports (#20806) * add version 2.0.3 to r-argparse (#20805) * add version 5.4-1 to r-ape (#20804) * add version 0.8-18 to r-amap (#20803) * r-pixmap: added new package (#20795) * zoltan: source code location change (#20787) * refactor path logic * added some paths to make compilers and libs discoverable * add to LD_LIBRARY_PATH so that it finds libimf.so and cleanup PEP8 * refactor path logic * adding paths to LIBRARY_PATH so compiler wrappers will find -lmpi * added vals for CC=icx, CXX=icpx, FC=ifx to generated module * back out changes to intel-oneapi-mpi, save for separate PR * Update var/spack/repos/builtin/packages/intel-oneapi-compilers/package.py path is joined in _ld_library_path() Co-authored-by: Robert Cohn <rscohn2@gmail.com> * set absolute paths to icx,icpx,ifx * dang close parenthesis Co-authored-by: Robert Cohn <rscohn2@gmail.com> Co-authored-by: mic84 <mrosso@lbl.gov> Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja> Co-authored-by: Chuck Atkins <chuck.atkins@kitware.com> Co-authored-by: darmac <xiaojun2@hisilicon.com> Co-authored-by: Danny Taller <66029857+dtaller@users.noreply.github.com> Co-authored-by: Tomoyasu Nojiri <68096132+t-nojiri@users.noreply.github.com> Co-authored-by: Shintaro Iwasaki <siwasaki@anl.gov> Co-authored-by: Glenn Johnson <glenn-johnson@uiowa.edu> Co-authored-by: Kelly (KT) Thompson <KineticTheory@users.noreply.github.com> Co-authored-by: Henrique Mendonça <henrique@users.noreply.github.com> Co-authored-by: h-denpo <57649496+h-denpo@users.noreply.github.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Thomas Green <tomgreen66@hotmail.com> Co-authored-by: Tom Scogland <tom.scogland@gmail.com> Co-authored-by: Thomas Green <ca-tgreen@gw4a64fxlogin00.head.gw4.metoffice.gov.uk> Co-authored-by: Abhinav Bhatele <bhatele@cs.umd.edu> Co-authored-by: a-saitoh-fj <63334055+a-saitoh-fj@users.noreply.github.com> Co-authored-by: QuellynSnead <quellyn@lanl.gov>
2021-02-17adding environment to OneMKL packages so that examples will build (#21377)Frank Willmore2-0/+42
2021-02-17llvm: "master" branch is now "main" branch (#21411)eugeneswalker1-1/+1
2021-02-17py-hovorod: fix typo on variant name in conflicts directive (#20906)Henrique Mendonça1-1/+1
2021-02-17libyogrt: remove conflicts triggered by an invalid value (#20794)Massimiliano Culpo1-4/+2
fixes #20611 The conflict was triggered by an invalid value of the 'scheduler' variant. This causes Spack to error when libyogrt facts are validated by the ASP-based concretizer.
2021-02-17intel-oneapi-mpi: virtual provider support (#20732)Robert Cohn1-0/+14
Set up environment and dependent packages properly when building with intel-oneapi-mpi as a dependency MPI provider (e.g. point to mpicc compiler wrapper).
2021-02-17intel-oneapi-compilers package: correct module file (#20686)Frank Willmore1-0/+10
This properly sets PATH/CPATH/LIBRARY_PATH etc. to make the Spack-generated module file for intel-oneapi-compilers useful (without this, 'icx' would not be found after loading the module file for intel-oneapi-compilers).
2021-02-17fix mpi lib paths, add virtual provides (#20693)Robert Cohn4-0/+21
2021-02-17Remove hard-coded standard C++ library selection and add more releases in ↵Ye Luo1-2/+2
llvm package (#19933) * Restore OS based Clang default choice of C++ standard library. * Add LLVM 11.0.1 release
2021-02-17Add Intel oneAPI packages (#20411)Robert Cohn10-0/+305
This creates a set of packages which all use the same script to install components of Intel oneAPI. This includes: * An inheritable IntelOneApiPackage which knows how to invoke the installation script based on which components are requested * For components which include headers/libraries, an inheritable IntelOneApiLibraryPackage is provided to locate them * Individual packages for DAL, DNN, TBB, etc. * A package for the Intel oneAPI compilers (icx/ifx). This also includes icc/ifortran but these are not currently detected in this PR
2021-02-17package sanity: ensure all variant defaults are allowed values (#20373)Massimiliano Culpo16-20/+20
2021-02-17Tests: enable re-use of post-install tests in smoke tests (#20298)Tamara Dahlgren1-2/+3
2021-02-17VTK-m: update to specify correct requirements to kokkos (#20097)Robert Maynard1-5/+13
2021-02-17Fix hipcc once more (#20095)Harmen Stoppels6-63/+68
2021-02-17boost: disable find_package's config mode for boost prior to v1.70.0 (#20198)Massimiliano Culpo1-0/+13
2021-02-17Fixes compile time errors (#20006)MichaelLaufer1-2/+4
Co-authored-by: michael laufer <michael.laufer@toganetworks.com>
2021-02-17py-ipykernel: fix bug in phase method (#19986)Adam J. Stewart1-2/+3
* py-ipykernel: fix bug in phase method * Fix bug in executable calling
2021-02-17hip support for umpire, chai, raja, camp (#19715)Danny Taller5-43/+93
* create HipPackage base class and do some refactoring * comments and added conflict to raja for openmp with hip
2021-02-17py-ipykernel: fix install (#19617)Axel Huebl1-0/+6
There is a post-install routine in `ipykernel` that needs to be called for proper registration with jupyter.
2020-11-18clingo: add `master` branch version (#19958)Massimiliano Culpo1-1/+3
* updated @master to point to the master branch * also added a @spack that points to a fixed commit
2020-11-18spack test (#15702)Greg Becker73-47/+1162
Users can add test() methods to their packages to run smoke tests on installations with the new `spack test` command (the old `spack test` is now `spack unit-test`). spack test is environment-aware, so you can `spack install` an environment and then run `spack test run` to run smoke tests on all of its packages. Historical test logs can be perused with `spack test results`. Generic smoke tests for MPI implementations, C, C++, and Fortran compilers as well as specific smoke tests for 18 packages. Inside the test method, individual tests can be run separately (and continue to run best-effort after a test failure) using the `run_test` method. The `run_test` method encapsulates finding test executables, running and checking return codes, checking output, and error handling. This handles the following trickier aspects of testing with direct support in Spack's package API: - [x] Caching source or intermediate build files at build time for use at test time. - [x] Test dependencies, - [x] packages that require a compiler for testing (such as library only packages). See the packaging guide for more details on using Spack testing support. Included is support for package.py files for virtual packages. This does not change the Spack interface, but is a major change in internals. Co-authored-by: Tamara Dahlgren <dahlgren1@llnl.gov> Co-authored-by: wspear <wjspear@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-11-17Added -level_zero -rocm -opencl flags and sha256 for TAU v2.30. (#19962)sameershende1-1/+18
* Added -level_zero -rocm -opencl flags and sha256 for TAU v2.30. * Removed the depends_on clause for OpenCL and added a variant for OneAPI level_zero. * remove depends_on rocm * remove depends_on rocprofiler Co-authored-by: eugeneswalker <eugenesunsetwalker@gmail.com>
2020-11-17concretizer: handle conflicts with compiler ranges correctlyMassimiliano Culpo1-1/+1
As reported, conflicts with compiler ranges were not treated correctly. This commit adds tests to verify the expected behavior for the new concretizer. The new rules to enforce a correct behavior involve: - Adding a rule to prefer the compiler selected for the root package, if no other preference is set - Give a strong negative weight to compiler preferences expressed in packages.yaml - Maximize on compiler AND compiler version match
2020-11-17concretizer: added logic for preferred variantsMassimiliano Culpo1-5/+5
If preferred variants are present, they'll set the default value of a variant. Otherwise the default value is what is encoded in package.py
2020-11-17Build 7036 of Nag Fortran Compiler (#19954)Themos Tsikas1-1/+1
updated sha256sum of download .tgz
2020-11-17clfft: Fix for aarch64 (#19873)t-nojiri1-0/+3
* clfft: Fix for aarch64 * clfft: Changed the patch application conditions. * clfft: Changed Patch file
2020-11-17Metall package: add v0.7 (#19950)Keita Iwabuchi1-0/+2
* Metall: add version 0.2 * Add Metall v0.3 * Update Metall package to v0.4 and v0.5. * Metall package: add v0.6 * Metall package: add v0.7
2020-11-16[xerces-c] add netaccessor variant, new version (#19927)vvolkl2-2/+17
* [xerces-c] add netaccessor variant, new version * [geant4] add xerces-c netaccessor requirement * [xerces-c] format
2020-11-16[pythia6] needs CFLAGS/FFLAGS=-fcommon when %gcc@10: (#19947)Wouter Deconinck1-0/+5
2020-11-16node-js add gcc 4.8 conflict (#19945)Jordan Ogas1-0/+5
* add gcc 4.8 conflict * commit suggestion Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-11-16llvm: add variant: llvm_dylib (LLVM_BUILD_LLVM_DYLIB:Bool) (#19701)eugeneswalker1-0/+9
2020-11-16WRF: Add version 3.9.1.1 and improve recipe robustness (#19882)Phil Tooley8-101/+1561
* Add WRF 3.9.1.1 and improve recipe robustness * Include version 3.9.1.1 as common benchmarking workload * Fix compilation against recent glibc (detect spack installed libtirpc) * Detect and handle failed compilation (upstream use make -i) * WRF: PR changes round 1 fix build jobs fix maintainers fix pkgconfig dependency use Executable to run compile stage repair some overzealous autoformatting by black * WRF: make recipe py26 compatible * wrf: recipe review changes round 2 * more python 26 fixes
2020-11-16vgm: Switch all URLs to https (#19943)Dr. Christian Tacke1-3/+3
2020-11-16[acts] Add versions 1.2.1 and 2.0.0 (#19936)Hadrien G1-0/+2
2020-11-16texlive: Fix install of @live version (#19941)Ruben Di Battista1-1/+10
The unattended install using the pre-compiled binaries (tl-install) needs a .profile file or it goes in interactive mode blocking the install process forever
2020-11-16Trilinos: update 13.0.1 (#19944)Satish Balay1-1/+1
2020-11-16add new version py-wavelets@1.1.1 (#19930)Andreas Baumbach1-0/+3
* add new version py-wavelets@1.1.1 * also update dependencies * Update package.py
2020-11-16graphmap: Fix for aarch64 (#19935)t-nojiri1-0/+2
2020-11-16Added new versions for the py-attrs package (#19938)Matthieu Dorier1-1/+4
2020-11-16[dd4hep] switch to ninja generator to avoid running out of memory … (#19940)vvolkl1-0/+3
* [dd4hep] switch to ninja generator to avoid running out of memory while compiling ddparsers * [dd4hep] format
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