Commit graph

19833 commits

Author SHA1 Message Date
Adam J. Stewart
f570d7a45c
graphviz: fix build with Apple Clang 12.0.0 (#18797) 2020-09-19 16:29:42 -05:00
Adam J. Stewart
36e9c1eba3
fish: relax ncurses dependency constraints (#18796) 2020-09-19 16:29:27 -05:00
Massimiliano Culpo
fcb4dfc307
Ensure variant defaults are parsable from CLI. (#18661)
- Add a unit test to check if there are unparsable defaults
- Fix 'rust' and 'nsimd' variants
2020-09-19 07:54:26 +02:00
Larry Knox
fff2f34de8
Hdf5 1.10.7 (#18712)
* Update hdf5/package.py for HDF5 1.10.7 release and obsolete home url.
Add maintainer to hdf/package.py.

* remove stray space.

* Remove unnecessary /diplay/support from homepage urls.
2020-09-18 21:38:56 -05:00
Tom Payerle
e36498cb46
bedtools2: Add missing python build dependency (#18744) (#18746)
Makefile invokes python to build some scripts
See #18744
2020-09-18 21:38:21 -05:00
Michael Kuhn
6198963ede
popt: Add missing libiconv dependency (#18731)
Without this dependency, the build fails due to undefined references.
2020-09-18 18:00:00 -04:00
Adam J. Stewart
b44cf08cb2
py-notebook: add new version (#18638) 2020-09-18 14:46:12 -05:00
Greg Becker
7585b37865
do out of source builds in hashed directories (#18574) 2020-09-18 12:21:13 -07:00
Shahzeb Siddiqui
58fb6cdaad
trigger ascent e4s pipeline on merge to spack develop (#18655)
* trigger ascent e4s pipeline on merge to spack develop

* change pipeline name ecpcitest/e4s is the pipeline that will be triggered for merge on develop its the E4S use-case.
2020-09-18 10:38:29 -07:00
Glenn Johnson
6e82776773
Add mumax-3.10 release version (#18740)
This PR adds the current release version of mumax and tweaks the install
of the previous beta version.

- Set the url parameter to reflect the release version over the beta
  version. Hopefully, this will be consistent going forward.
- Set an explicit url for the previous beta version.
- Accept values for `cuda_arch`. The previous version had its own list
  but the release version does not.
- Replace the built in cuda compute capabilities list with the one
  provided by Spack for the 3.10beta version.
2020-09-18 13:36:00 -04:00
Seth R. Johnson
71c7e28ca7
swig: add version 4.0.2 and 4.0.2-fortran (#18741) 2020-09-18 13:35:33 -04:00
Greg Becker
2e4892c111
env view failures: print underlying error message (#18713) 2020-09-18 10:21:14 -07:00
Jen Herting
44c7826892
[py-pyarrow] added variant cuda (#18716)
* [py-pyarrow] added variant cuda

* [py-pyarrow] simplifying variant dependencies
2020-09-18 10:28:28 -05:00
darmac
8cb1192050
util-linux: fix build error (#18647)
* util-linux: fix build error

* refine install stage
2020-09-18 10:04:28 -05:00
darmac
a4cdf664c6
Add new package: shiro (#18541)
* Add new package: shiro

* refine description and dependencies
2020-09-18 10:03:32 -05:00
ketsubouchi
403ea4384e
ocaml: support 4.11 (#18705) 2020-09-18 10:02:50 -05:00
Toyohisa Kameyama
7d0a46c051
iwyu: Require llvm+all_targets on non-x86_64 systems (#18710) 2020-09-18 10:31:03 -04:00
Axel Huebl
a8b6faf430
py-recommonmark: fix URL and docutils version (#18714) 2020-09-18 12:07:57 +02:00
Axel Huebl
275583c02f
py-breathe: added v4.21.0 (#18722) 2020-09-18 07:44:54 +02:00
Mark W. Krentel
80fe51046c
libpfm4: add version 4.11.0 (#18720)
Add version 4.11.0 for libpfm4.
Add myself as maintainer.
2020-09-17 15:58:23 -05:00
Jen Herting
e329e13f32
[arrow] added cuda variant (#18715) 2020-09-17 15:26:51 -05:00
Glenn Johnson
4b41d56bc3
Add bart-0.6.00 (#18717)
This PR adds version 0.6.00 of bart.
2020-09-17 15:25:08 -05:00
Adam J. Stewart
f9699fd3ff
py-nbconvert: add new version (#18636) 2020-09-17 15:23:59 -05:00
Adam J. Stewart
69d8417d8a
py-nbclient: add new package (#18628) 2020-09-17 12:54:03 -07:00
Adam J. Stewart
01df552149
py-matplotlib: add v3.2.2 (#18681) 2020-09-17 12:46:20 -07:00
t-nojiri
b66d756da6
bowtie : Fix for aarch64 (#18709) 2020-09-17 11:42:32 -05:00
Glenn Johnson
7c01c64d53
gpu-burn: allow to build with non-gcc compilers (#18707)
This PR modifies the patch to use $(CXX) rather than g++ to allow the
spack compiler to be used.
2020-09-17 17:24:22 +02:00
Glenn Johnson
2576d8d767
Update libbeagle (#18703)
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.
2020-09-17 10:04:21 -05:00
Ganesh Kumar
0f332c73a6
Rocm 3.7 miopen, miopengemm, rocalution and rocm-opencl (#18690)
* 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
2020-09-17 10:00:45 -05:00
Enrico Usai
91bd99b4b2
aws-parallelcluster: add 2.9.1 and 2.9.0 releases (#18676)
Checked all the third party dependencies for all the versions.
2020-09-17 09:59:11 -05:00
arjun-raj-kuppala
7fb83047fd
Hipify clang with AMD rocm 3.7.0 update (#18672)
* 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>
2020-09-16 22:18:48 -05:00
Greg Sjaardema
9a5f043ce6
seacas: Force use of non-mpi-enabled hdf5 (#18702)
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.
2020-09-16 16:37:13 -05:00
Robert Blake
f95d7959b2
lustre: Adding external support. Closing #18698 (#18700) 2020-09-16 16:29:59 -05:00
Simon Frasch
91649763ab
spla: Add version 1.1.1 and fix cmake flag when build with +cuda (#18699) 2020-09-16 16:27:00 -05:00
Sajid Ali
7c23498f1d
bump CGAL version (#18693)
* bump CGAL version

* Address reviewer comments

* flake8 fix

* Address reviewer comments

* Address reviewer comments
2020-09-16 16:22:40 -05:00
Andre Sailer
635b8243fe
[dd4hep]: add variant lcio (#18691) 2020-09-16 17:33:14 +01:00
Tiziano Müller
0d5c065678
libvdwxc: unbreak concretization, request fftw-api (#18688)
* 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
2020-09-16 10:41:46 -05:00
t-nojiri
cb218058bc
fraggenescan: Modify build_targets for aarch64 (#18687) 2020-09-16 10:40:33 -05:00
Xavier Delaruelle
0b3e860608
environment-modules: add version 4.6.0 (#18686) 2020-09-16 10:39:55 -05:00
Robert Pavel
2f0565de64
Added spackage for cosmoflow-benchmark proxy app (#18685)
* 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
2020-09-16 10:18:01 -05:00
Severin Strobl
e41c3ad1fc
Likwid versions >= 5.0.0 depend on Lua 5.2. (#18675)
* 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>
2020-09-16 10:16:08 -05:00
Jason Lee
1a9f97fd0d
jemalloc: Use AutotoolsPackage and allow for arbitrary public API prefixes (#18680)
Removed je variant
2020-09-15 20:37:05 -05:00
Greg Sjaardema
6a3583f181
MatIO: Update repository and add new versions (#18683)
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.
2020-09-15 16:43:45 -05:00
arjun-raj-kuppala
bad9f2bc28
AMD ROCmValidationSuite recipe for 3.5.0 and 3.7.0 (#18678)
* AMD ROCmValidationSuite recipe for 3.5.0 and 3.7.0

* Updated the PR comments for rocmvalidationsuite recipe
2020-09-15 13:16:41 -05:00
Nikolay Simakov
1b1bfd883a
namd: Added optimization auto-selection for skylake-X+ CPU for 2.14 and 2.15a1 (AVX512 tile) (#18671) 2020-09-15 10:08:26 -05:00
Sergey Kosukhin
5cff304809
CLAW: update the package (#18673) 2020-09-15 10:04:59 -05:00
Tom Payerle
6752a1c377
Qbox minor issues 18664 (#18665)
* 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
2020-09-15 09:54:26 -05:00
ketsubouchi
33e8dcad99
nseg: add return 0; to void functions (#18481) 2020-09-15 10:24:51 +02:00
Adam J. Stewart
5e6875008c
fish: add dependencies, patch MacOS (#18526) 2020-09-15 08:43:53 +02:00
Adam J. Stewart
5f0c3427ae
py-cmocean: added new package at v2.0 (#18614) 2020-09-15 08:36:26 +02:00