Commit graph

13931 commits

Author SHA1 Message Date
Brian Spilner
3eb19b142f new CDO release 1.9.8 (#13674) 2019-11-11 12:52:06 -06:00
Pieter Ghysels
6fc3e73f8d Update ButterflyPACK and STRUMPACK (#13661)
* Add new strumpack version (3.2.0), with new
dependency on ButterflyPACK.

* add ButterflyPACK version 1.1.0

* Add strumpack version 3.3.0, add dependency on ButterflyPACK 1.1.0

* Sort ButterflyPACk versions from newest to oldest

* Add a shared variant for STRUMPACK

* Also allow possible newer versions of ButterflyPACK
2019-11-11 12:24:13 -06:00
Phil Carns
4934448065 pmdk: fix x86_64 arch check (#13676) 2019-11-11 15:46:44 +01:00
Adam J. Stewart
bd9907809e environments: don't try to modify run-env if a spec is not installed (#13589)
Fixes #13529
Fixes #13509
2019-11-11 13:02:36 +01:00
Adam J. Stewart
e10f8fe531 py-numpy: added version 1.17.4 (#13670) 2019-11-11 11:26:21 +01:00
Adam J. Stewart
901da240f3 CMake: added version 3.13.5 (#13671) 2019-11-11 11:25:50 +01:00
Axel Huebl
86202a5ad0 nlohmann-json 3.7.2 (#13672)
Add the latest bugfix release.
2019-11-11 11:23:50 +01:00
Adam J. Stewart
60070759a0
Improve spack checksum formatting (#13666)
* Improve spack checksum formatting

* Add colon

* Fix Python 2 bug
2019-11-10 16:47:56 -06:00
Adam J. Stewart
1ca91d728a
Update default PyTorch variants (#13667) 2019-11-10 16:46:04 -06:00
Adam J. Stewart
ff330631ed
Add py-scipy 1.3.2 (#13663) 2019-11-09 19:41:44 -06:00
Adam J. Stewart
834a8be933
Add grass 7.8.1 (#13664) 2019-11-09 19:41:29 -06:00
Kelly (KT) Thompson
550e9907f5 New Package: py-pyside2 (#13647)
* New Package: py-pyside2

https://wiki.qt.io/Qt_for_Python

The Qt for Python project aims to provide a complete port of the PySide module
to Qt 5. The development started on GitHub in May 2015. The project managed to
port Pyside to Qt 5.3, 5.4 & 5.5. During April 2016 The Qt Company decided to
properly support the por

* Address review comments:

+ Add a variant for `+doc` and only depned on some packages if this variant is
  active.
+ Enable building the tests if requested.
+ Correct registered required verions for python and qt.

* Remove dead code, fix depends_on command args.

* fix one more flake8 issue.

* One more fix to  arguments and change  version name to .
2019-11-09 18:22:30 -06:00
Teodor Nikolov
3db3395ed1 hpx: fix incompatible cxxstd with boost and compiling tests (#13660)
* Add a variant for tests and parallelize builds

- Fix a bug with boost defaulting to cxxstd=98 when cxxstd=11 is the
  minimum for hpx
- Disable tests by default and use a variant to enable them if requested
- Enable parallel builds: each process takes up to 1Gb when tests are
  not enabled.

* Remove tests variant

- The variant doesn't change what gets installed. Testing can be
  activated using `spack install --test=root hpx`
2019-11-09 18:21:40 -06:00
Seth R. Johnson
d01a8f7cd6 Fix visit+ (#13652)
* Propagate MPI option in VTK to NetCDF

This fixes a conflict message reads as though NetCDF always requires
hdf5+mpi. It allows `visit~mpi` to resolve correctly without an
additional `^netcdf~mpi`.

* Tell VisIt not to look for 'hdf5_mpi' library
2019-11-09 12:47:04 -06:00
Michael Kuhn
eee3a63a3e graphviz: Fix patch URL (#13654)
* graphviz: Fix patch URL

* Switch setup_environment to setup_build_environment
2019-11-09 12:46:29 -06:00
Figroc Chen
9a4797b74c grpc: update to 1.24.3 (#13658) 2019-11-09 12:42:34 -06:00
Mark Olesen
e27d7479a3 update openfoam versions, sha256 values and download directory (#13653)
- patched versions are located in the same directory as the
  original release. For example, 1906_191103 is located in
  the 'v1906/' directory, not in 'v1906_191103/'.

- add master branch as a known version
2019-11-08 14:46:33 -06:00
Marc Mengel
2584639e34 New Package py-portend (#13584)
* package py-portend

* package py-portend

* autopep8, docutils cleanup

* dependency in wrong package

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* license bits

* dependencies again
2019-11-08 14:44:29 -06:00
Marc Mengel
148566ebd5 new package: py-zc-buildout (#13585)
* package py-zc-buildout

* package py-zc-buildout

* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* license bits

* Update var/spack/repos/builtin/packages/py-zc-buildout/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-08 14:43:49 -06:00
Marc Mengel
ec6b2f7bb1 New Package: py-cherrypy (#13587)
* package py-cherrypy

* package py-cherrypy

* autopep8, docutils cleanup

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* portend depends on tempora, not cherrypy directly

* setuptools_scm bits

* dependency one level up

* license bits

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-08 14:41:59 -06:00
Adam J. Stewart
b189d10f1f
py-torchvision: add 0.4.2 (#13651) 2019-11-08 14:33:46 -06:00
Axel Huebl
c1ee069d1b openPMD-api: JSON Always On (#13641)
JSON is not a compile-time variant anymore and a mandatory
dependency from now on.
2019-11-08 11:00:10 -06:00
t-karatsu
3c2542f387 fluxbox: fix the comparison method with zero. (#13642) 2019-11-08 10:45:36 -06:00
Jonathan R. Madsen
2eb65f8a5d Timemory (#13503)
* Create timemory/package.py

* Update package.py

* mpi default to on

* Update package.py

* Update package.py

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* Update package.py

* Update package.py

* Update package.py

- cleanup
- python deps specify type
- python 2.6 compatibility
- double quotes to single quotes

* Update package.py

* Update package.py
2019-11-08 10:35:14 -06:00
Frédéric Simonis
3f7fd4037f precice: add compiler conflicts (#13644) 2019-11-08 10:33:00 -06:00
Mark Olesen
f4a1666b1a Update openfoam to use new environment api (ref: #11115, 9ddc98e46a) (#13645)
- build:
  no special treatment - already addressed in the spack-Allwmake script

- run:
  use environment from the OpenFOAM etc/bashrc
2019-11-08 10:32:14 -06:00
Daryl W. Grunau
ae6229dee2 llvm: fix PythonString::GetString for >=python-3.7 (#13631)
* llvm: fix PythonString::GetString for >=python-3.7

* llvm/package.py: fix when the patch should be applied
2019-11-07 19:05:16 -06:00
Marc Mengel
119af6d71b new package: py-tempora (#13582)
* package py-tempora

* package py-tempora

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* missing deps

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* license bits
2019-11-07 18:59:38 -06:00
Marc Mengel
a2627da7d9 New package: py-uwsgi (#13619)
* package py-uwsgi

* package py-uwsgi

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* license bits
2019-11-07 18:58:47 -06:00
Marc Mengel
fd01ac0ff1 New package: py-jaraco-functools (#13581)
* package py-jaraco-functools

* package py-jaraco-functools

* autopep8, docutils cleanup

* Update var/spack/repos/builtin/packages/py-jaraco-functools/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* missing deps

* license bits

* ...and later versions

* lru cache dep change from adamjstewart
2019-11-07 18:52:32 -06:00
Satish Balay
ff307aa86c Balay/ginkgo 1.1.0 (#13632)
* ginkgo: add version 1.1.0

* Ginkgo: add conflict for gcc older than version 5.3
2019-11-07 18:51:20 -06:00
Todd Gamblin
c9c267518f
bugfix: mirror path works for unknown versions (#13626)
`mirror_archive_path` was failing to account for the case where the fetched version isn't known to Spack.

- [x] don't require the fetched version to be in `Package.versions`
- [x] add regression test for mirror paths when package does not have a version
2019-11-07 17:13:51 -07:00
Kelly (KT) Thompson
719ebd18c3 py-pyside: fix setup files to support python 3.5. (#13613)
This fix already exists in the development branch of pyside. See
https://github.com/pyside/pyside-setup/pull/55.
2019-11-07 15:43:49 -06:00
Justin S
8139d7cb69 elmer-fem: add devel branch (#13630) 2019-11-07 15:41:43 -06:00
Adam J. Stewart
9936c8269f
PyTorch: Add 1.3.1 (#13629) 2019-11-07 13:47:13 -06:00
Andreas Baumbach
0616c6ada1 (py)arrow: new versions (#13561)
* (py)arrow: new versions

* move py-arrow source to github as not all versions are on pypi
  same checksum as pypi, adding build_directory

* move back to pypi sources

* drop 0.15.0 and 0.14.1 as only .whl are available on pypi

* add new dependencies

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-07 11:52:29 -06:00
Andreas Baumbach
76c15f11e0 new package: py-convertdate (#13573)
* new package: py-convertdate

* Update docstring
2019-11-07 11:51:53 -06:00
Adam J. Stewart
344e4e0d1c
Speed up PyTorch build (#13621) 2019-11-07 10:05:50 -06:00
健美猞猁
be56fe0677 bam-readcount: a new package. (#13628) 2019-11-07 10:00:43 -06:00
Josh Deaton
d748df73a3 m4: fixed macOS version identification on patch (#13623)
Patch was not being applied in recent versions of macOS. Homebrew is still applying patch to any version after High Sierra.
2019-11-07 09:43:59 -06:00
Andreas Baumbach
45eecbdbc2 py-jupyter-core add new version and setuptools dependency (#13424)
* py-jupyter-core add new version and setuptools dependency

* update checksums to use pypi

* fixup url and python dep type

* Update var/spack/repos/builtin/packages/py-jupyter-core/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-06 13:30:59 -06:00
Andreas Baumbach
12da0e7152 new package: py-jdatetime (#13569)
* new package: py-jdatetime

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-06 13:25:01 -06:00
Michael Kuhn
6d6716e302 ncview: Fix dependency check (#13615)
netcdf has been renamed to netcdf-c.
2019-11-06 13:24:33 -06:00
Christoph Junghans
0d35ae7f5f gromacs: add v2019.4 and others (#13617)
* gromacs: add v2019.4 and others

* gromacs: fix patch applying
2019-11-06 13:24:14 -06:00
Andreas Baumbach
52afcfac4d new package: py-dateparser (#13574)
* new package: py-dateparser

* take setup.py dependencies into account

* fixup help->description

* reorder dependencies

* drop version constraints not enforced in setup.py
2019-11-06 13:18:37 -06:00
Andreas Baumbach
6b7a51587b new package: py-nodeenv (#13594)
* new package: py-nodeenv

* drop python version requirements, not enforced by setup.py
2019-11-06 13:16:49 -06:00
Andreas Baumbach
4ed56573c4 py-tatsu: new package (#13566)
* py-tatsu: new package

* drop unnecessary dependencies

* drop kanji, add variant, and restrict to future releases
2019-11-06 13:16:05 -06:00
Michael Kuhn
52eba8fb00 netcdf-fortran: Fix parallel builds (#13612)
netcdf-fortran@4.5: will error if netcdf-c has been built with MPI
support:
```
configure: error:
      -----------------------------------------------------------------------
        The NetCDF C library is built with parallel I/O feature enabled, but
        the Fortran compiler '.../lib/spack/env/gcc/gfortran' supplied in this configure command
        does not support MPI-IO. Please use one that does. If parallel I/O
        feature is not desired, please use a NetCDF C library with parallel
	I/O feature disabled. Abort.
      -----------------------------------------------------------------------
```

Copy logic from netcdf-c to add an `mpi` variant.
2019-11-06 11:14:35 -06:00
Michael Kuhn
95bc677445 cdo: Fix with_or_without calls (#13614)
netcdf has been renamed to netcdf-c and udunits2 has been renamed to
udunits.
2019-11-06 11:13:21 -06:00
Andreas Baumbach
e292bef411 new package: py-pymeeus (#13572)
* new package: py-pymeeus

* drop unnecessary dependencies
2019-11-06 11:02:19 -06:00