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2020-09-17[arrow] added cuda variant (#18715)Jen Herting1-1/+3
2020-09-17Add bart-0.6.00 (#18717)Glenn Johnson3-1/+110
This PR adds version 0.6.00 of bart.
2020-09-17py-nbconvert: add new version (#18636)Adam J. Stewart1-27/+25
2020-09-17py-nbclient: add new package (#18628)Adam J. Stewart1-0/+23
2020-09-17py-matplotlib: add v3.2.2 (#18681)Adam J. Stewart1-2/+3
2020-09-17bowtie : Fix for aarch64 (#18709)t-nojiri2-5/+5
2020-09-17gpu-burn: allow to build with non-gcc compilers (#18707)Glenn Johnson1-2/+2
This PR modifies the patch to use $(CXX) rather than g++ to allow the spack compiler to be used.
2020-09-17Update libbeagle (#18703)Glenn Johnson1-4/+12
This PR fixes a couple of things with the libbeagle package. - libbeagle can only be built for one GPU type. Add a test for that. - version 2 had the arch statement in libhmsbeagle/GPU/kernels/Makefile.am but version 3 has it in configure.ac. Put the variant specified value in configure.ac for consistency.
2020-09-17Rocm 3.7 miopen, miopengemm, rocalution and rocm-opencl (#18690)Ganesh Kumar5-17/+32
* ROCm 3.5 miopen recipe * fixing flake8 issues * cmake variant fix * min support fix * variant possible values * rocm3.7 change for miopen, rocalution and rocm-opencl * review comments
2020-09-17aws-parallelcluster: add 2.9.1 and 2.9.0 releases (#18676)Enrico Usai1-6/+24
Checked all the third party dependencies for all the versions.
2020-09-16Hipify clang with AMD rocm 3.7.0 update (#18672)arjun-raj-kuppala1-2/+3
* Hipify clang with rocm 3.7.0 update * Update var/spack/repos/builtin/packages/hipify-clang/package.py Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com> Co-authored-by: Harmen Stoppels <harmenstoppels@gmail.com>
2020-09-16seacas: Force use of non-mpi-enabled hdf5 (#18702)Greg Sjaardema1-0/+1
Due to recent changes in the `netcdf-c` package, it is now necessary to explicitly request a non-mpi-enabled hdf5 build if building a non-mpi-enabled seacas.
2020-09-16lustre: Adding external support. Closing #18698 (#18700)Robert Blake1-0/+9
2020-09-16spla: Add version 1.1.1 and fix cmake flag when build with +cuda (#18699)Simon Frasch1-4/+2
2020-09-16bump CGAL version (#18693)Sajid Ali1-13/+44
* bump CGAL version * Address reviewer comments * flake8 fix * Address reviewer comments * Address reviewer comments
2020-09-16[dd4hep]: add variant lcio (#18691)Andre Sailer1-0/+3
2020-09-16libvdwxc: unbreak concretization, request fftw-api (#18688)Tiziano Müller2-26/+6
* libvdwxc: unbreak concretization, request fftw-api mixing both fftw and fftw-api in a dependency tree can trigger the following: ``` $ spack spec cp2k@master +sirius ==> [2020-09-16-12:36:06.552981] sirius applying constraint gsl ==> [2020-09-16-12:36:06.554270] sirius applying constraint openblas@0.3.10%gcc@7.5.0~consistent_fpcsr~ilp64+pic+shared threads=none arch=linux-opensuse_leap15-sandybridge Traceback (most recent call last): File "./bin/spack", line 64, in <module> sys.exit(spack.main.main()) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/main.py", line 762, in main return _invoke_command(command, parser, args, unknown) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/main.py", line 490, in _invoke_command return_val = command(parser, args) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/cmd/spec.py", line 103, in spec spec.concretize() File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2228, in concretize user_spec_deps=user_spec_deps), File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2716, in normalize visited, all_spec_deps, provider_index, tests) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2654, in _normalize_helper dep, visited, spec_deps, provider_index, tests) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2613, in _merge_dependency visited, spec_deps, provider_index, tests) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2654, in _normalize_helper dep, visited, spec_deps, provider_index, tests) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2554, in _merge_dependency provider = self._find_provider(dep, provider_index) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/spec.py", line 2489, in _find_provider providers = provider_index.providers_for(vdep) File "/data/tiziano/debug-spack/spack2/lib/spack/spack/provider_index.py", line 80, in providers_for return sorted(s.copy() for s in result) File "/data/tiziano/debug-spack/spack2/lib/spack/llnl/util/lang.py", line 249, in <lambda> lambda s, o: o is not None and s._cmp_key() < o._cmp_key()) TypeError: '<' not supported between instances of 'str' and 'NoneType' ``` while at the same point disallowing MKL as a fftw provider. Solving both issues by depending on `fftw-api@3` instead and adding a conflict on `^fftw~mpi` when using `+mpi` (thanks to alalazo). * cp2k: use conflicts instead of runtime checks for fftw/openblas variants
2020-09-16fraggenescan: Modify build_targets for aarch64 (#18687)t-nojiri1-1/+1
2020-09-16environment-modules: add version 4.6.0 (#18686)Xavier Delaruelle1-1/+2
2020-09-16Added spackage for cosmoflow-benchmark proxy app (#18685)Robert Pavel1-0/+38
* Initial Draft of Cosmoflow Spackage Need to add in logic to streamline cpu/gpu builds * Added ~cuda logic to cosmoflow spackage Added logic to support a ~cuda build for cosmoflow * Requested Changes to Cosmoflow Spackage Made requested changes to cosmoflow spackage
2020-09-16Likwid versions >= 5.0.0 depend on Lua 5.2. (#18675)Severin Strobl1-1/+2
* Likwid versions >= 5.0.0 depend on Lua 5.2. According to https://github.com/RRZE-HPC/likwid/issues/324 recent versions of Likwid require Lua 5.2. * Update var/spack/repos/builtin/packages/likwid/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-09-15jemalloc: Use AutotoolsPackage and allow for arbitrary public API prefixes ↵Jason Lee1-14/+16
(#18680) Removed je variant
2020-09-15MatIO: Update repository and add new versions (#18683)Greg Sjaardema1-3/+6
MatIO development has switched to github from sourceforge. Updated the `git` and `url` variables and added the four new versions (1.5.14 -- 1.5.17) that have been released since the last update of this package.
2020-09-15AMD ROCmValidationSuite recipe for 3.5.0 and 3.7.0 (#18678)arjun-raj-kuppala2-0/+85
* AMD ROCmValidationSuite recipe for 3.5.0 and 3.7.0 * Updated the PR comments for rocmvalidationsuite recipe
2020-09-15namd: Added optimization auto-selection for skylake-X+ CPU for 2.14 and ↵Nikolay Simakov1-6/+68
2.15a1 (AVX512 tile) (#18671)
2020-09-15CLAW: update the package (#18673)Sergey Kosukhin2-9/+46
2020-09-15Qbox minor issues 18664 (#18665)Tom Payerle2-5/+121
* qbox: install to correct directory structure * qbox: Have qb executable put in bin rather than src subdir * qbox: Fix python script shebangs to use python from path * qbox: Add dependencies on gnuplot, python2 for utilities * qbox: fix flake8 issue * qbox: Add $prefix/util to PATH
2020-09-15nseg: add return 0; to void functions (#18481)ketsubouchi1-0/+10
2020-09-15fish: add dependencies, patch MacOS (#18526)Adam J. Stewart2-6/+52
2020-09-15py-cmocean: added new package at v2.0 (#18614)Adam J. Stewart1-0/+18
2020-09-15Add setuptools run-time dependency to various Python packages (#18616)Adam J. Stewart13-13/+13
2020-09-15py-jupyterlab-pygments: added new package at v0.1.1 (#18627)Adam J. Stewart1-0/+16
2020-09-15py-nest-asyncio: add new package at v1.4.0 (#18629)Adam J. Stewart1-0/+16
2020-09-15py-ipykernel: added v5.3.4, moved url to PyPI (#18630)Adam J. Stewart1-21/+25
2020-09-15py-ipython: added v7.18.1 (#18631)Adam J. Stewart1-24/+31
2020-09-15py-jupyter-client: added v6.1.7, moved url to PyPI (#18632)Adam J. Stewart1-14/+15
2020-09-15py-jupyter-core: updated the type of the setuptools dependency (#18633)Adam J. Stewart1-2/+1
2020-09-15py-jupyterlab-server: added v1.2.0 (#18634)Adam J. Stewart1-3/+4
2020-09-15py-argon2-cffi: added new package at v20.1.0 (#18626)Adam J. Stewart1-0/+21
2020-09-15py-jupyterlab: added v2.2.7 (#18635)Adam J. Stewart1-9/+6
2020-09-15py-nbformat: add v5.0.7, moved url to PyPI (#18637)Adam J. Stewart1-9/+8
2020-09-15py-terminado: added v0.8.3 (#18639)Adam J. Stewart1-4/+3
2020-09-15py-traitlets: added v5.0.4, moved url to PyPI (#18640)Adam J. Stewart1-12/+15
2020-09-14Added Missing Tag to Cradl Spackage (#18669)Robert Pavel1-0/+2
Added missing proxy apps tag to cradl spackage
2020-09-14CRADL Machine Learning Proxy Spackage (#18668)Robert Pavel3-0/+72
* Initial CRADL Spackage Work Currently resolving ```--single-version-externally-managed``` error * Fixed GPUtil Issues Thanks to Vinay Ramakrishnaiah for overwriting install * Finished CRADL Install Function Finished CRADL install function which is basically copying the scripts to the install directory. Also resolved flake8 issues for PR purposes
2020-09-14SIRIUS: Update dependencies (#18622)Simon Frasch1-1/+12
* sirius: Fixed dependency spfft when build with +rocm * sirius: Added new dependency spla for develop build * sirius: Added maintainer
2020-09-14Add new package: webbench (#18650)darmac1-0/+28
* Add new package: webbench * Update var/spack/repos/builtin/packages/webbench/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-09-14cpio: add --rtlib=compiler-rt for %fj (#18619)ketsubouchi1-4/+5
* cpio: add --rtlib=compiler-rt for %fj * cpio: simplify if * Update var/spack/repos/builtin/packages/cpio/package.py This seems better. Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-09-13ngmlr: support for aarch64 (#18621)t-nojiri3-0/+59
* ngmlr: support for aarch64 * ngmlr: Fixed patch file
2020-09-13nek5000: Support Fujitsu fortran (#18659)ketsubouchi2-0/+49
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