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2022-01-10Deprecate Python 2 installations (#28003)Adam J. Stewart109-413/+409
* Deprecate Python 2 installations * Deprecate py-python-meep * Deprecate older easybuild backend libs * Deprecate Python 3.6 * Deprecate miniconda2
2022-01-10automake: New version 1.16.5 (#28299)Erik Schnetter1-0/+1
2022-01-10gawk: New version 5.1.1 (#28301)Erik Schnetter1-0/+1
2022-01-10gdbm: New version 1.22 (#28302)Erik Schnetter1-0/+1
2022-01-10grep: New version 3.7 (#28303)Erik Schnetter1-0/+1
2022-01-10lorene: Beautify package title in documentation (#28305)Erik Schnetter1-1/+1
2022-01-10wi4mpi: New version 3.5.0 (#28313)Erik Schnetter1-0/+1
2022-01-10wget: New version 1.21.2 (#28312)Erik Schnetter1-0/+1
2022-01-10openssl: New version 1.1.1m (#28310)Erik Schnetter1-1/+3
2022-01-10stage.steal_source: preserve symlinksPeter Scheibel1-1/+1
This avoids dangling symlink errors. ignore_dangling_symlinks option would be more-targeted but is only available for Python >= 3.2 (#28318)
2022-01-10Python: set default config_vars (#28290)Adam J. Stewart2-43/+68
* Python: set default config_vars * Add missing commas * dso_suffix not present for some reason * Remove use of default_site_packages_dir * Use config_vars during bootstrapping too * Catch more errors * Fix unit tests * Catch more errors * Update docstring
2022-01-10New packages: google-crc32c and py-google-crc32c (#28293)Marcus Boden2-0/+52
2022-01-10z3: New version 4.8.14 (#28314)Erik Schnetter1-0/+1
2022-01-10hwloc: New version 2.7.0 (#28298)Erik Schnetter1-0/+1
2022-01-09New package: petaca (#28326)Peter Brady1-0/+49
* Add the petaca fortran/c package * Adopt date for version name and remove variants
2022-01-08blaspp: set BLA_VENDOR for cray (#28104)luker1-1/+7
* for Cray's libsci in blaspp, set BLA_VENDOR=all * Update package.py * Update package.py * Update package.py
2022-01-08SQLite: add new version/variant (#28204)Adam J. Stewart2-25/+27
2022-01-08openssh: New version 8.8p1 (#28325)Erik Schnetter1-0/+1
2022-01-08Damask improvements (#28178)Martin Diehl4-18/+15
2022-01-07Dalton package: add versions and variants (#28226)Jógvan Magnus Haugaard Olsen5-26/+225
* Update existing 2020.0 version to use tag * Add versions 2018.2 and master * Add patches for GCC/Intel * Use MPI compiler wrappers when +mpi * Constrain CMake build dependency (need >= 3.1) * Add variants for optional components (e.g QFIT library)
2022-01-07ELPA package: don't check threading support during build (#28227)Anton Kozhevnikov1-0/+1
./configure tries to execute an MPI test, which is not possible on most HPC platforms (if you don't build on a compute node), so this check is disabled to allow the build to proceed. Ideally we could check this by placing constraints on the MPI that Spack builds (e.g. require building a version that is guaranteed to have threading support).
2022-01-07Catch2 package: add versions 2.13.8 and 3.0.0-preview4 (#28297)Peter Brady1-1/+3
2022-01-07petsc, py-petsc4py: add versions 3.16.3 (#28277)Satish Balay2-0/+2
2022-01-07py-pyzmq: adjust constraints for python-3.9 (#28264)Glenn Johnson1-2/+3
Version 18.1 builds with python-3.9
2022-01-07NVIDIA HPC SDK package: add version 22.1 (#28288)Filippo Spiga1-0/+4
2022-01-07r-kegg-db: mark deprecated, removed from bioconductor-3.13 (#28271)Glenn Johnson1-3/+5
2022-01-07py-matplotlib: fix config for oneapi compiler (#28265)Robert Cohn1-1/+2
* py-matplotlib: fix config for oneapi compiler * Small change to trigger CI restart
2022-01-07r-illuminahumanmethylationepicmanifest: remove invalid homepage (#28269)Glenn Johnson1-1/+0
2022-01-07uriparser: Add latest release 0.9.6 with security fixes (#28291)Sebastian Pipping1-2/+3
2022-01-06ip package: add v4.0.0 (#28237)Kyle Gerheiser1-1/+2
Keep 3.3.3 the preferred version until other packages can be updated
2022-01-06viennarna package: add version 2.5.0 (#28261)snehring1-1/+2
2022-01-06Update the rocm recipes for 4.5.0 release (#27535)Sreenivasa Murthy Kolam49-120/+684
* rocm recipes updates for 4.5.0 * update to rocm recipes for 4.5.0 release * updates to the rocm recipes for rocm-4.5.0 release * fix style errors * update to rocm-validation-suite for rocm-4.5.0 release * bump up rccl recipe for rocm-4.5.0 * bump up version for rdc for rocm-4.5.0 * update miopengemm, miopen-opencl,rocm-opencl recipes for 4.5.0 release * bump up version for mivisiox for rocm-4.5.0 release * update the rocm-validation-suite recipe * no need to change the perl path for 4.5.0 * fix the build failure with the recent change made for hip package * modify checksum for the llvm-amdgpu for 4.5.0 * fix the build issue aftere recent changes made for enabling test * fix the build issue with 4.5.0 * add new recipe for hipsolver * address review comments
2022-01-06bazel: python executable required (#28286)Adam J. Stewart2-1/+8
* bazel: python executable required * python: add autodetection of +pythoncmd
2022-01-06GDAL: add new version (#28238)Adam J. Stewart1-9/+15
* GDAL: add new version * Use conflicts for PCRE
2022-01-06lapackpp: set BLA_VENDOR for cray (#28125)luker1-1/+12
2022-01-06r-genomeinfodbdata: add version 1.2.7 (#28266)Glenn Johnson1-7/+12
Also adjust formatting.
2022-01-06r package: add version 4.1.2 (#28244)Glenn Johnson1-1/+2
Set +libidn2 for the curl dependency. This is necessary after #25166.
2022-01-06Fix spack install --v[tab] spec (#28278)Harmen Stoppels3-2/+12
2022-01-06Fix double space in prompt after 'spack env activate -p' (#28279)Harmen Stoppels1-1/+1
2022-01-06r-illuminahumanmethylationepicanno-ilm10b4-hg19: remove invalid homepage ↵Glenn Johnson1-3/+2
(#28267)
2022-01-05WarpX: 22.01 (#28225)Axel Huebl2-19/+33
* WarpX: 22.01 Update `warpx` & `py-warpx` to the latest release, `22.01`. * Python in 22.01+: Relax even further See: https://github.com/ECP-WarpX/WarpX/pull/2664
2022-01-05GCC package: allow building gcc-5 on newer Linux (#27386)Glenn Johnson2-0/+85
Remove cyclades support so gcc-5 can build against newer glibc versions (e.g. 2.31).
2022-01-05llvm: make targets a multivalued variant (#27735)Harmen Stoppels5-37/+69
* llvm: make targets a multivalued variant * Fix the targets variant values 1. Make them lowercase and add a mapping to cmake equivalent 2. auto -> all 2. Restore composability by using a multivalued variant, so that `targets=all` and `targets=x86` is combined to `targets=all,x86` which is then transformed into LLVM_TARGETS_TO_BUILD=all. * use targets=x86 in iwyu * Default to nvptx/amdgpu/host arch targets * default to none * Update var/spack/repos/builtin/packages/zig/package.py
2022-01-05Add function to determine Linux kernel version (#27855)Andrew W Elble2-1/+22
This reports the kernel version (vs. the distro version) on Linux and returns a valid Version (stripping characters like '+' which may be present for custom-built kernels).
2022-01-05Address legion package build issue on macOS with apple-clang-12 (#28241)Pat McCormick1-1/+11
* Added C++ standard variant as a primary work-around for issues with apple-clang 12.x but could also be helpful for broader uses.
2022-01-05py-pyzmq: fix deptype of libzmq (#28254)Dylan Simon1-2/+2
2022-01-05py-appdirs: patch for encoding issue (#28253)Severin Strobl2-0/+22
Reading appdirs.py without explicitly requesting UTF-8 decoding results in the build process to fail for Python 3.6. See https://github.com/ActiveState/appdirs/pull/152 for the upstream fix.
2022-01-05Snakemake: New Version 6.12.3 (#28252)Marcus Boden2-3/+52
* snakemake: New version The newer versions of snakemake have a lot of new dependencies. The optional dependencies still have to be added. * removed comment * some changes * added reports variant * deprecate older version and add me as maintainer * Added dependency py-ratelimiter
2022-01-05py-zipfile-deflate64: add new package (#27971)Adam J. Stewart1-0/+19
2022-01-05VTK: Patch ADIOS2 module to fix cyclic dependency (#27784)kwryankrattiger4-1/+59
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