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Author SHA1 Message Date
Nichols A. Romero
fa57f1da29
QE Update May 2020 (#16627) 
* Clarify comments about QMCPACK-to-QE converter.

* Allow hdf5=serial with QE 6.4.1 + qmcpack, but apply filter_file.

* Ammend comments about the use of the filter_file.
 2020-05-13 12:41:16 -05:00
lpritch-lanl
043d507540
py-pint: added versions up to v0.11 (#16537) 
Co-authored-by: Lori Pritchett-Sheats <lpritch@pn2002926.lanl.gov>
 2020-05-13 16:47:01 +02:00
Michael Kuhn
308f016f31
parallel-netcdf: fix build with gcc@10: (#16620) 2020-05-13 16:44:50 +02:00
Amjad Kotobi
f6fbf8b8d3
r-xml2: new version & updated dependencies (#16604) 
* r-xml2: new version & updated dependencies

* r-xml2: updated dependencies
 2020-05-13 09:22:53 -05:00
Tomoki, Karatsu
a740c361cd
ppopen-appl-fdm: added support to Fujitsu compilers. (#16616) 2020-05-13 15:10:07 +02:00
Toyohisa Kameyama
4777284f08
charmpp: support for aarch64. (#16619) 2020-05-13 15:06:25 +02:00
Michael Kuhn
b4052eb3b8
tcsh: fix build with gcc@10: (#16621) 2020-05-13 14:57:12 +02:00
Michael Kuhn
aaf3388cfe
esmf: fix build with gcc@10: (#16622) 2020-05-13 14:53:49 +02:00
Chris White
fdf38ec991
Fix axom install target (#16613) 2020-05-12 16:57:25 -07:00
Pariksheet Nanda
f43b7824ca
py-plotly: unfix dependency versions (fixes #16544) (#16546) 
* py-plotly: unfix dependency versions (fixes #16544)

* py-plotly: add missing dependencies for #16546

* py-plotly: match setup.py instead of requirements.txt for #16546
 2020-05-12 17:06:18 -05:00
Justin S
0f2a581276
velvetoptimiser: new package at 2.2.6 (#16611) 2020-05-12 17:05:19 -05:00
Amjad Kotobi
ab92407940
r-testthat : dependencies and version updated (#16576) 
* r-testthat : dependencies and version updated

* Adding version conditions for dependencies

* r-testthat: Fix dependecies condition
 2020-05-12 17:05:01 -05:00
Adam J. Stewart
b4e587bd0b
py-scikit-learn: add new version (#16607) 2020-05-12 16:43:56 -05:00
Justin S
1d76067d7a
zstd: add 1.4.4 (#16608) 2020-05-12 16:43:43 -05:00
Adam J. Stewart
6b41fb88a9
py-threadpoolctl: add new package (#16606) 2020-05-12 14:33:10 -05:00
Nick Booher
9bdf4564db
revbayes: update for 1.1.0 (#16603) 
* revbayes: update for 1.1.0

* revbayes: Fix flake8
 2020-05-12 14:26:44 -05:00
Amjad Kotobi
154c0f5771
new version r-rcurl (#16550) 
* new version r-rcurl

* RCurl dependency R version updated

* Adding version conditions
 2020-05-12 11:42:58 -05:00
Amjad Kotobi
78d8dd0815
new version r-cli (#16553) 
* new version r-cli

* r-cli : dependencies updated

* Adding version conditions for dependencies
 2020-05-12 11:42:20 -05:00
Amjad Kotobi
bfa707dfc4
new version r-ellipsis (#16556) 
* new version r-ellipsis

* r-ellipsis : R dependency updated

* Adding version conditions for dependencies
 2020-05-12 11:41:41 -05:00
Amjad Kotobi
d4c8c8b80d
r-rematch2 : new package (#16563) 
* r-rematch2 : new package

* Updating URL
 2020-05-12 11:41:20 -05:00
Amjad Kotobi
b99a5369ce
r-roxygen : dependencies and version updated (#16565) 
* r-roxygen : dependencies and version updated

* Dependencies updated for condition
 2020-05-12 11:40:55 -05:00
Amjad Kotobi
7528e1eb45
r-purrr : dependencies and version update (#16566) 
* r-purrr : dependencies and version update

* Dependencies updated for condition
 2020-05-12 11:39:39 -05:00
Amjad Kotobi
173823e77d
r-rversions : new package (#16572) 
* r-rversions : new package

* URL updated r-rversions
 2020-05-12 11:39:08 -05:00
Amjad Kotobi
14b80ecaf2
r-withr : dependencies and version updated (#16577) 
* r-withr : dependencies and version updated

* Adding version conditions for dependencies
 2020-05-12 11:36:25 -05:00
Amjad Kotobi
7c327ed447
r-knitr : dependencies and version updated (#16579) 
* r-knitr : dependencies and version updated

* Adding version conditions for dependencies
 2020-05-12 11:35:41 -05:00
Tomoki, Karatsu
278f8eb7fe
modylas: Add flag to use preprocessor when building with Fujitsu compiler. (#16598) 2020-05-12 11:34:28 -05:00
Jose E. Roman
8b06bd7198
New patch release SLEPc 3.13.2 (#16601) 2020-05-12 11:33:46 -05:00
Andrew W Elble
e36aa96392
py-horovod: link dependency for py-torch (#16600) 
fix for same reasons as #16495.
 2020-05-12 11:24:30 -05:00
Toyohisa Kameyama
7813e41464
caffe: fixed build error (#16520) 
* opencv 3.2 requires cmake 3.11 or older.
caffe dependency is changed.

* revert opencv variant to caffe.
backport to opencv errors.
 2020-05-12 09:39:19 -05:00
Sergey Kosukhin
d1a5dc792e
py-dask: new version (#16531) 
* py-dask: new version

* py-dask: update the constraints.

* py-dask: add a list of maintainers.
 2020-05-12 09:35:11 -05:00
Michael Kuhn
15112f9dba
gcc: fix several issues (#16599) 
- GCC has moved to Git
- The develop/master version requires flex
- Add myself as a maintainer
- Set the library path in the zstd patch
 2020-05-12 13:56:58 +02:00
Todd Gamblin
a44f487a1d
z3: update python dependency (#16597) 
-[x] `z3` needs a dependency on `py-setuptools`
-[x] `z3` has a run dependency on `python`, so we might as well make
     building with the python bindings default
 2020-05-12 11:15:42 +02:00
Justin S
80e7a61597
prokka: new package at v1.14.6 (#16282) 2020-05-12 10:09:01 +02:00
Todd Gamblin
269bcfe1c8
clingo: update package (#16594) 
`clingo` has some undocumented dependencies:
- `bison`, for which the default macos version is too old
- `re2c`, which isn't always available

Also, the python installation was not set up properly. Clingo by default
does an install in `~/.local`, so we need to disable that and add a few
other options to get things right.

- [x] add `bison` dependency
- [x] add `re2c` dependency
- [x] make `doxygen` dependency optional (and patch if needed)
- [x] add options to fix `python` build
- [x] make python build optional but on by default
 2020-05-12 09:41:31 +02:00
Tomoki, Karatsu
a59b92d303
xabclib: added support for Fujitsu compiler. (#16596) 
- Added Fujitsu compiler options that have the same functions as the options added for GCC
- Added option to link C objects
 2020-05-12 09:40:11 +02:00
Sajid Ali
b526a90220
Charm++: fix build prefix; add ucx/pmi support (#15666) 
* Add pmi support (required by ucx, ofi, and gni backends)
* Add support for ucx backend
* Add dependency on MPI for pmi=simplepmi, slurmpmi, or slurmpmi2
* Remove charmpp as an MPI provider since the changes in this PR can
  add MPI as a dependency (mentioned previously)
* Install into transport_protocol-OS-arch subdirectory to match
  default charmpp installation behavior (which helps dependents find it)
 2020-05-11 16:27:38 -07:00
Greg Becker
fa702b8311
python: add -fwrapv to cflags for python@3.8.0: %intel (#16592) 2020-05-11 18:02:56 -05:00
Michael Kuhn
35c3478fcd
fio: Add 3.19 (#16571) 
Earlier versions are not compatible with gcc@10:.
 2020-05-11 16:54:28 -05:00
Michael Kuhn
97779e3539
adios: Fix build with gcc@10: (#16569) 2020-05-11 16:54:08 -05:00
asmaahassan90
1367b63e99
Add avizo version 2020.1 (#16567) 2020-05-11 12:56:50 -05:00
Adam J. Stewart
98fd62254f
py-plac: remove erroneous argparse dependency (#16584) 2020-05-11 12:56:07 -05:00
Michael Kuhn
5ed5c55ebd
mpich: Fix build with gcc@10: (#16568) 2020-05-11 12:55:36 -05:00
Amjad Kotobi
4c666034dc
r-rstudioapi : new version (#16574) 2020-05-11 12:49:27 -05:00
Amjad Kotobi
3ddf6c0845
r-rlang : new version (#16575) 2020-05-11 12:48:51 -05:00
Amjad Kotobi
5e348f7133
r-digest : version updated (#16578) 2020-05-11 12:43:38 -05:00
Andrew Gaspar
2c009a3226
Map the spack skylake arch to Kokkos BDW, rather than SKX (#16583) 
SKX includes AVX-512 extensions that consumer Skylake processors do
not have. Therefore, map Skylake to the prior arch to work on
these systems. Skylake-X processors will still map as the
skylake_avx512 spack arch and get the correct optimzations.
 2020-05-11 12:33:34 -05:00
Justin S
20a4e5efe8
stata: add new libpng dependency (#16582) 2020-05-11 12:32:36 -05:00
Michael Kuhn
cd2e906702
netcdf-fortran: Fix build with gcc@10: (#16573) 2020-05-11 12:31:40 -05:00
Jen Herting
c220a22b69
New package: py-mmcv (#16536) 
* [py-mmcv] Created template

* [py-mmcv] added description and homepage

* [py-mmcv] requires python 3.6+

* [py-mmcv] added dependencies

* [py-mmcv] depends on opencv

* [py-mmcv] cleaned up fixmes

* [py-mmcv] requires numpy >= 1.11.1
 2020-05-11 12:14:22 -05:00
Michael Kuhn
03d0a7ee1e
gcc: added v10.1.0 (#16525) 2020-05-11 16:22:19 +02:00
Sinan
ff6a0fc7b0
py-configobj: remove url function (#16522) 
It seems the pypi version of the package somehow compiles just fine

Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
 2020-05-11 10:43:56 +02:00
takanori-ihara
e08792cbcb
py-jupyterlab: added package at v2.1.0 (#16562) 2020-05-11 10:35:44 +02:00
takanori-ihara
fa8dede6cd
Add new package:py-jupyterlab-server (#16561) 2020-05-10 21:32:53 -05:00
Adam J. Stewart
c03d4688e4
PyTorch: fix master and mkldnn builds (#16560) 2020-05-10 19:40:00 -05:00
Amjad Kotobi
7d3b40fba4
new version r-rcpp (#16549) 2020-05-10 17:39:20 -05:00
Amjad Kotobi
6c820dd6b5
new version r-glue (#16558) 2020-05-10 17:38:51 -05:00
Amjad Kotobi
36941e3d94
new version r-pkgbuild (#16559) 2020-05-10 17:38:38 -05:00
Amjad Kotobi
5dc51c21bb
new version r-jsonlite (#16557) 2020-05-10 17:38:26 -05:00
Amjad Kotobi
f32d561e9b
new version r-dt (#16555) 2020-05-10 15:31:58 -05:00
Amjad Kotobi
3210e5999e
new version r-covr (#16554) 2020-05-10 15:31:08 -05:00
Amjad Kotobi
ff869a7d68
new version r-callr (#16552) 2020-05-10 15:29:18 -05:00
Adam J. Stewart
358242d2a8
DGL: add new version (#16547) 2020-05-10 10:04:28 -05:00
vvolkl
69ea6de069
[dd4hep] variant and run env updates (#16524) 
* [dd4hep] variant and run env updates

* address comments from #16524
 2020-05-09 14:54:07 -05:00
Larry Knox
6e46603470
Add maintainers and variants for building with default earlier api versions. (#16534) 
* Add maintainers.
Add variants for building with default earlier api versions.

* Update var/spack/repos/builtin/packages/hdf5/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-05-09 13:05:55 -05:00
Jen Herting
54fee4b400
New package: py-addict (#16535) 
* [py-addict] created template

* [py-addict] added homepage and description

* [py-addict] cleaned up fixmes

* [py-addict] depends on py-setuptools
 2020-05-09 13:05:33 -05:00
Nichols A. Romero
a868b1c756
QMCPACK Update May 2020 (#16542) 
* Add naromero77 as a maintainer for QMCPACK Spack package.

* Add QMCPACK 3.9.2

* Remove QE-to-QMCPACK wave function converter from QMCPACK Spack package. Already been moved to QE Spack package.
 2020-05-09 13:05:11 -05:00
iarspider
b668bde7ec
Fix dependency of geant4 (amends #16497) (#16504) 
* Fix dependency of geant4 (amends #16497)

* Update geant4-data dependencies

* Reviewer comments (part 1/2)

* Reviewer comments (part 2/2)

* Update var/spack/repos/builtin/packages/geant4-data/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-05-09 19:04:20 +01:00
Cyrus Harrison
8671ac6a1a
update visit package with 3.1.1 release and add comments (#16498) 2020-05-09 10:28:33 -07:00
Adam J. Stewart
790e9ac6de
spaCy: add new package for en_core_web_sm model (#16539) 2020-05-08 22:20:38 -05:00
Keita Iwabuchi
4c42946201
Metall: add version 0.2 (#16502) 2020-05-08 12:31:20 -05:00
takanori-ihara
89c92a0206
Add new package:py-pytest-check-links (#16503) 2020-05-08 12:30:47 -05:00
Sergey Kosukhin
e1c49d11bf
py-netcdf4: a couple of improvements (#16505) 
* py-netcdf4: avoid recompilation and make the older versions to work with HDF5@1.10:

* py-netcdf4: add a new version and introduce a maintainer list.
 2020-05-08 12:27:28 -05:00
Frédéric Simonis
1e9313a191
precice: Fix conflict with boost 1.73.0 (#16507) 2020-05-08 12:26:37 -05:00
Christoph Junghans
b9415c6b53
graphviz: fix cairo backend (#16511) 2020-05-08 12:25:38 -05:00
iarspider
08528a7379
Gaudi: separate variant for building documentation (#16515) 
* Gaudi: separate variant for building documentation

* Update package.py
 2020-05-08 12:24:42 -05:00
h-denpo
fae55550f9
New package (#16519) 
Large Scale Assembly, Structural Correspondence,
       Multi Dynamics Simulator.In this program,
       a part of functions of ADVENTURE_Solid ver.1.1 module
 2020-05-08 12:22:04 -05:00
iarspider
652e179ae6
Gaudi: syntax fix (#16523) 2020-05-08 12:17:48 -05:00
Amjad Kotobi
33e88db2d6
new version xrootd-4.12.0 (#16528) 2020-05-08 12:05:54 -05:00
Amjad Kotobi
9eaf7e42c8
new version r-git2r-0.27.1 (#16529) 2020-05-08 12:05:30 -05:00
Elizabeth Fischer
bff5708a4f
Revert changes to qt (#16516) 
Co-authored-by: Elizabeth Fischer <elizabeth.fischer@alaska.edu>
 2020-05-07 18:32:44 -05:00
Adam J. Stewart
d7bd070ae9
GDAL: add 3.1.0 (#16509) 2020-05-07 14:41:38 -05:00
Themos Tsikas
3c3d431492
NAG Compiler 7.0 (Build 7017) download checksum (#16510) 2020-05-07 14:41:21 -05:00
Andrew Gaspar
0103084558
Add Rust 1.43.1 (#16512) 2020-05-07 14:38:21 -05:00
h-denpo
4b65efa8ae
ADD New package revocap-refiner (#16499) 
* ADD New package revocap-refiner
    """The University of Tokyo, CISS Project:
        Geometric processing, mesh processing, mesh generation"""

* Modify     homepage = "https://github.com/FrontISTR/REVOCAP_Refiner"
Modify    version('master', branch='master')
Modify    depends_on('swig', type='build')
Modify        install_tree('Refiner', prefix.include.refine)
Delete         mkdirp(prefix.include)
 2020-05-07 08:44:23 -05:00
darmac
762e74e1e3
Add new package: ganglia (#16382) 
* Add new package: ganglia

* ganglia: fix the libexpat depends
 2020-05-07 08:41:28 -05:00
Hadrien G
14685ae552
Adapt to the latest Acts developments (#16385) 
* Adapt to the latest Acts developments

A long time ago, the Acts project (whose name was then capitalized ACTS) used
to maintain multiple software repositories:

- The heart of the tracking toolkit was located in the `acts-core` repository
- Fast simulation extensions were located in the `acts-fatras` repository
- Advanced usage examples were located in the `acts-framework` repository

This multi-repository organization, however, has been a source of constant
pain, which is why the various projects were gradually merged into a single
mono-repo, called `acts`. Today, with the integration of `acts-framework`,
this merging process is reaching completion.

The present pull request adapts the Acts package to this evolution by...

- Renaming the package to `acts`, reflecting the new repository name
- Renaming the `test` variant to `unit_tests`, reflecting current CMake naming
- Adding the new build variants that were inherited from `acts-framework`
- Acknowledging the change of semantics of the `examples` variant, and only
  supporting the new ones (as the former variant was almost unused)
- Liberally using alphabetical order to make the package code more readable
- Recording a large number of conflicts, some of which are introduced by the
  merging of `acts-framework` and some of which already existed before
- Using the new capitalization of "Acts"

* Add acts v0.23

* Update dd4hep version requirement

* Add acts v0.22.1 bugfix
 2020-05-07 08:40:31 -05:00
asmaahassan90
edd60f95c3
Add PGI version 19.7 and export OMPI variables (#16484) 
* add PGI version 19.7

* use openmpi in pgi

exporting openmpi enviroment variables when installed with pgi

* fix lint
 2020-05-07 08:38:05 -05:00
Eisuke Kawashima
05dcfe829e
neovim: added v0.4.3 (#16410) 
Use neovim's vendored dependencies for 0.4 and later
 2020-05-07 10:29:27 +02:00
Tomoki, Karatsu
830f3f79d9
openfoam: correspond to build with Fujitsu compiler. (#15941) 
* openfoam: correspond to build with Fujitsu compiler.

* openfoam: add rules for Fujitsu compiler (on linuxARM64)

- the Fujitsu compiler is a clang derivative, so use a modified
  version of the clang rules if upstream does not supply anything
 2020-05-06 21:55:09 -05:00
takanori-ihara
50a2690ce1
Add new package:py-json5 (#16273) 
* Add new package:py-json5

* Remove unnecessary line
 2020-05-06 21:53:16 -05:00
iarspider
8845358f10
New version of pylint + fix dependencies (#16443) 
* New version of pylint + fix dependencies

* Update package.py

* Update package.py
 2020-05-06 21:51:04 -05:00
Glenn Johnson
9c218079f0
Install RMPISNOW wrapper in prefix.bin for r-snow (#16479) 
If using mpirun, the R sessions can be started with a wrapper script
that helps set up the R session cluster. Put this wrapper in the PATH so
it is easily accessible.
 2020-05-06 21:49:46 -05:00
Adam J. Stewart
18e1e2424f
py-shapely: fix unit tests (#16500) 2020-05-06 20:44:55 -05:00
Sergey Kosukhin
2139c8e53e
py-netcdf4: make sure we don't use system hdf5. (#16492) 2020-05-06 18:14:10 -05:00
Adam J. Stewart
b14befe61a
Bazel: add new versions (#16493) 2020-05-06 18:12:40 -05:00
Adam J. Stewart
d2709fd376
TensorFlow: add new version (#16494) 2020-05-06 18:12:28 -05:00
Kevin Manalo
e8753fe972
OpenMPI - Update to 3.1.6 (#16496) 2020-05-06 18:12:14 -05:00
iarspider
638784e4c3
Add new version of Geant4 (#16497) 2020-05-06 18:11:40 -05:00
Adam J. Stewart
74b3ae4803
PyTorch/Torchvision: fix deptype (#16495) 2020-05-06 18:05:26 -05:00
yellowhat
d1983d7395
blis: FIX threads option, HPL: enable opemp variant for 2.3 (#16476) 
* blis: FIX threads option

* HPL: openmp variant is ignored for 2.3

* blis: FIX flake8

* blis: FIX spacing

* Update var/spack/repos/builtin/packages/hpl/package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>

* hpl: FIX spec --> self.spec, FIX blas with amdblis

* HPL: fix flake8

* HPL: FIX flake8

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
 2020-05-06 15:36:29 -05:00