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2022-01-17NCCL: specify cuda_arch (#28433)Adam J. Stewart1-1/+10
2022-01-17zip: add external detection (#28434)Adam J. Stewart1-0/+10
2022-01-17Fixing pthread-stack-min-fix.patch patch version range (#28437)Vanessasaurus1-2/+2
pthread-stack-min-fix.patch should no be applied to 1.73.0 See https://github.com/spack/spack/issues/28436
2022-01-16expat: Add latest release 2.4.3 with security fixes (#28435)Sebastian Pipping1-4/+4
2022-01-16Kokkos: updating package list, maintainers and minimum cmake version (#28410)Luc Berger1-4/+7
* Kokkos: updating package list, maintainers and minimum cmake version * Kokkos: updating maintainers list Updating maintainers list to have the correct GitHub handle for Jan.
2022-01-16votca: add v2022 (#28431)Christoph Junghans1-2/+1
2022-01-15hwloc: added support to find external (#28348)Brian Van Essen1-0/+9
2022-01-15Fix boost build failures on newer glibcPeter Brady2-0/+19
2022-01-15chaco: new package (#28342)Peter Brady1-0/+27
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-01-15chaparral: add new package (#28343)Peter Brady1-0/+32
2022-01-15Add libdeflate as variant for htslib (#24141)Nicholas Knoblauch1-0/+7
2022-01-15rocm ecosystem: bump version for 4.5.2 release (#28358)Sreenivasa Murthy Kolam37-61/+129
2022-01-15snakemake: add v6.13.1 and new variant (#28393)Marcus Boden1-0/+8
2022-01-14charmpp: use CMake for versions 7.0.0+ (#28401)Nils Leif Fischer1-0/+4
2022-01-14Update copyright year to 2022Todd Gamblin6409-6496/+6496
2022-01-14kaldi: new version 2021-11-16 (#28154)Jen Herting2-2/+19
* [kaldi] Added version 2021-11-16 * [kaldi] Added logic for new version and when cuda 11 is used * [kaldi] Added patch file when cuda 11 as cub is now built into it * [kaldi] removed .999 and simplified some logic Co-authored-by: Doug Heckman <dahdco@rit.edu>
2022-01-14New Package: ATS (#28013)Chris White1-0/+27
* add py-ats package * add new 7.0.10 tag * add myself as a maintainer * add dependencies for python and setuptools * style * added todo for flux * words * update versions users should use
2022-01-14CDO package: add version 2.0.3 (#28416)Brian Spilner1-0/+1
2022-01-14Python: add ensurepip variant (#28205)Adam J. Stewart2-6/+31
2022-01-14valgrind: default to ~ubsan (#28389)Adam J. Stewart1-1/+1
2022-01-14gdbm@1.22: fix build on MacOS (#28379)Satish Balay1-1/+1
2022-01-14scorpio: add new package (#28375)Peter Brady1-0/+29
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2022-01-14PythonPackage: install packages with pip (#27798)Adam J. Stewart325-844/+1083
* Use pip to bootstrap pip * Bootstrap wheel from source * Update PythonPackage to install using pip * Update several packages * Add wheel as base class dep * Build phase no longer exists * Add py-poetry package, fix py-flit-core bootstrapping * Fix isort build * Clean up many more packages * Remove unused import * Fix unit tests * Don't directly run setup.py * Typo fix * Remove unused imports * Fix issues caught by CI * Remove custom setup.py file handling * Use PythonPackage for installing wheels * Remove custom phases in PythonPackages * Remove <phase>_args methods * Remove unused import * Fix various packages * Try to test Python packages directly in CI * Actually run the pipeline * Fix more packages * Fix mappings, fix packages * Fix dep version * Work around bug in concretizer * Various concretization fixes * Fix gitlab yaml, packages * Fix typo in gitlab yaml * Skip more packages that fail to concretize * Fix? jupyter ecosystem concretization issues * Solve Jupyter concretization issues * Prevent duplicate entries in PYTHONPATH * Skip fenics-dolfinx * Build fewer Python packages * Fix missing npm dep * Specify image * More package fixes * Add backends for every from-source package * Fix version arg * Remove GitLab CI stuff, add py-installer package * Remove test deps, re-add install_options * Function declaration syntax fix * More build fixes * Update spack create template * Update PythonPackage documentation * Fix documentation build * Fix unit tests * Remove pip flag added only in newer pip * flux: add explicit dependency on jsonschema * Update packages that have been added since this was branched off of develop * Move Python 2 deprecation to a separate PR * py-neurolab: add build dep on py-setuptools * Use wheels for pip/wheel * Allow use of pre-installed pip for external Python * pip -> python -m pip * Use python -m pip for all packages * Fix py-wrapt * Add both platlib and purelib to PYTHONPATH * py-pyyaml: setuptools is needed for all versions * py-pyyaml: link flags aren't needed * Appease spack audit packages * Some build backend is required for all versions, distutils -> setuptools * Correctly handle different setup.py filename * Use wheels for py-tomli to avoid circular dep on py-flit-core * Fix busco installation procedure * Clarify things in spack create template * Test other Python build backends * Undo changes to busco * Various fixes * Don't test other backends
2022-01-14hsakmt-roct@4.5.0: needs pkgconf (#28400)eugeneswalker1-0/+1
2022-01-13Python: improve site_packages_dir handling (#28346)Adam J. Stewart43-192/+159
* Python: improve site_packages_dir handling * Replace all site_packages_dir with purelib/platlib
2022-01-13Python: add maintainers for Python 2 (#28386)Adam J. Stewart1-1/+1
2022-01-13Add new survey package to spack. (#25518)Jim Galarowicz1-0/+101
* Add new package to spack. survey is a lightweight application performance tool that also gathers system information and stores it as metadata. * Add maintainer and note about source access. * Update the man path per spack reviewer suggestion. * Remove redundant settings for PYTHONPATH, PATH, and MANPATH. * Move to a one mpi collector approach for cce/tce integration. * Add pyyaml dependency * Make further spack reviewer changes to python type specs, mpi args, build type variant. * Add reviewer requested changes. * Add reviewer docstring requested changes. * Add more updates from spack reviewer comments. * Update the versions to use tags, not branches * Redo dashes to fix issue with spack testing. Co-authored-by: Jim Galarowicz <jgalarowicz@newmexicoconsortium.org>
2022-01-13AMReX Smoke Test (#27411)Erik1-0/+56
2022-01-13musl: set syslibdir correctly, new versions (#28373)Andrew W Elble1-0/+5
2022-01-12fenics: specify python exe (#28323)Adam J. Stewart1-1/+7
2022-01-12libogg: patch stdint include, add v1.3.5 (#28332)Nils Leif Fischer1-0/+7
Backport a patch for v1.3.4 that fixes an unsigned typedef problem on macOS: https://github.com/xiph/ogg/pull/64 Also add v1.3.5 that has this issue fixed.
2022-01-12grace: workaround for buffer overflows (#28232)Andrew W Elble1-0/+8
spack paths can be long and this overflows (at least) these buffers inside of the bundled T1lib inside of the grace distribution, leading to crashes on startup.
2022-01-12ECP-DAV: Propagate adios2 variant to paraview (#26747)kwryankrattiger1-2/+1
Depends on #26728 and #26175
2022-01-12gptune: fix build by setting compilers to mpi wrappers (#28235)Matthieu Dorier1-0/+3
2022-01-12lmod: add v8.6.5 (#28353)Harmen Stoppels1-0/+2
2022-01-12charmpp: disable pre-7.0.0 macOS builds with clang@7: (#28221)Nils Leif Fischer1-0/+10
Charm++ versions below 7.0.0 have build issues on macOS, mainly due to the pre-7.0.0 `VERSION` file conflicting with other version files on the system: https://github.com/UIUC-PPL/charm/issues/2844. Specifically, it conflicts with LLVM's `<version>` header that was added in llvm@7.0.0 to comply with the C++20 standard: https://en.cppreference.com/w/cpp/header/version. The conflict only occurs on case-insensitive file systems, as typically used on macOS machines.
2022-01-12py-torch: use conditional variants (#28242)Adam J. Stewart1-111/+77
2022-01-12package_hash: add test to ensure that every package in Spack can be unparsedTodd Gamblin1-1/+4
- [x] add option to canonical source to *not* filter multimethods - [x] add test to unparse every package in builtin
2022-01-12perl-tk: add missing dependencies (#28240)Andrew W Elble1-0/+6
2022-01-12e2fsprogs: fix non-root install (#28255)Dylan Simon1-0/+6
2022-01-12poamsa: fix build errors for gcc10+ (#28262)snehring1-0/+4
2022-01-12yarn: add runtime dependency on `node-js@4.0:` (#27654)Danny McClanahan2-0/+6
2022-01-12HDF5 GPU VFD: add new package. (#28272)H. Joe Lee1-0/+35
2022-01-12ITensor: add v3.1.10 and 'shared' variant (#28370)Melven Roehrig-Zoellner1-0/+9
2022-01-12py-async-timeout: fix checksum issue (#28329)Adam J. Stewart1-3/+3
2022-01-12libtheora: disable docs by default (#28330)Nils Leif Fischer1-1/+8
2022-01-12curl: add support for external detection (#28331)Nils Leif Fischer1-0/+32
2022-01-11Packaging: Virtual package for libllvm (#27200)kwryankrattiger2-0/+25
Add an abstraction around libllvm to allow libllvm providers to be specified for all packages. This is targeting allowing mesa to build against llvm-amdgpu or intel-llvm or llvm or any other custom llvm variant that arises for specific GPU toolchains
2022-01-11memkind: add v1.12.0 (#28306)Erik Schnetter1-0/+1
2022-01-11openblas: New version 0.3.19 (#28308)Erik Schnetter1-0/+1
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