Commit graph

9815 commits

Author SHA1 Message Date
Justin S
a24498f7ba r-ldheatmap: new package at 0.99-7 (#14405) 2020-01-07 15:33:41 -06:00
Adam J. Stewart
c40ee08c8d
NumPy 1.18.1 requires Cython 0.29.14 (#14418) 2020-01-07 15:22:27 -06:00
Sinan
e4f56378b1 Package/opencv: cudacodec fix (#14409)
* create new variant, fix build error

* flake8

* add conflict, re-arrange config arg for cudacodec
2020-01-07 13:19:18 -06:00
Matthias Diener
777812df4e gdb: add version 8.3.1 (#14413) 2020-01-07 12:38:05 -06:00
Michael Kuhn
be3482de09 ncl: Add missing fontconfig dependency (#14411)
Moreover, cairo needs to have its freetype variant enabled.
2020-01-07 10:55:34 -06:00
Michael Kuhn
a5ae5aca36 gdal: Fix libgeotiff dependency (#14410)
gdal@2.4.3 is missing the libgeotiff dependency.
2020-01-07 10:55:01 -06:00
Adam J. Stewart
d2ed01a12c
Add py-numpy 1.18.1 (#14406) 2020-01-06 17:48:27 -06:00
Justin S
e49a5adf04 r-snpstats: new package at 1.34.0 (#14404) 2020-01-06 16:21:38 -06:00
Justin S
e04a9031b0 r-genetics: new package at 1.3.8.1.2 (#14403) 2020-01-06 16:20:34 -06:00
Thom Troy
0950f5ffa3 Add updated kaldi and openfst (#14398)
* add openfst v1.6.7 and kaldi from 2019-09-29

* revert openfst package version in url
2020-01-06 16:19:42 -06:00
George Hartzell
37b11d0468 Add singularity@3.5.2 (#14401) 2020-01-06 16:12:50 -06:00
darmac
f3c0d23a3c Fastdfs (#14378)
* add new package : fastdfs

* refine install()

* remove redundant fastdfs/fastdfs/package.py

* fix install() error
2020-01-06 16:12:08 -06:00
Justin S
627fd1949d py-ujson: new package at 1.35 (#14279)
* py-ujson: new package at 1.35

* py-ujson: use PyPI mirror, add missing deps

* py-ujson: use short PyPI url
2020-01-06 15:53:26 -06:00
Seth R. Johnson
47750c8800 Fix QT on Linux+clang (#13684)
* Add platform flag to QT for linux+clang

* Extend QT platform support to more compilers and systems

* Unify QT5 configure options

* fixup! Unify QT5 configure options

* fixup! Unify QT5 configure options

* fixup! Unify QT5 configure options

* Fix newer flake8 and mac qt5 configure
2020-01-06 15:47:16 -06:00
Erik Schnetter
7cde359eb8 Nsimd: New package (#14226)
* Nsimd: New package

* Various cleanups as suggested during review
2020-01-06 15:40:58 -06:00
asmaahassan90
c0672eb641 Add py-thirdorder recipe (#12791)
* Add Thirdorder recipe

* Remove white spaces

* Converting recipe to a PythonPackage base class

* remove trailing spaces

* remove line at end of file

* enhance recipe as per reviewer

* fix post_install as requested by reviewer

* rename dir to py-thirderorder

* change checksum to sha256
2020-01-05 12:28:10 -06:00
Adam J. Stewart
f7f4d1a02e
Overhaul py-pillow package (#14385)
* Overhaul py-pillow package

* Fix bug where zlib and jpeg were always disabled
2020-01-04 22:49:39 -06:00
Adam J. Stewart
f0532e27da
libwebp: CMakePackage -> AutotoolsPackage (#14384) 2020-01-04 22:48:45 -06:00
Glenn Johnson
8c8f3f228c Adjust constraints of gcc-5 (#14388)
This PR adjusts the constraints on isl with GCC-5. GCC-5.1 and GCC-5.2
need isl-0.14, not isl-0.15.
2020-01-04 22:47:06 -06:00
Adam J. Stewart
90f4860402
Add libs property to openjpeg package (#14383) 2020-01-04 16:46:53 -06:00
Adam J. Stewart
4d85979ec4
Add libs property to lcms package (#14382) 2020-01-04 16:46:40 -06:00
Adam J. Stewart
378016d350
py-torchvision 0.4.X does not support py-pillow 7.X.Y (#14381) 2020-01-04 14:21:29 -06:00
Xavier Delaruelle
d83d7ce694 environment-modules: add version 4.4.1 (#14379) 2020-01-04 12:56:09 -06:00
darmac
c22329c5e8 add new package : lucene (#14316)
* add new package : lucene

* update lucene version url
2020-01-04 11:34:28 -06:00
darmac
66bb19a593 add new package : kafka (#14315)
* add new package : kafka

* move url_for_version after depens_on()

* refine list_depth for kafka
2020-01-04 11:33:52 -06:00
darmac
c9729aaab7 add new package : tajo (#14314)
* add new package : tajo

* refine list_depth for tajo
2020-01-04 11:33:09 -06:00
Justin S
b9dc263801 py-intervaltree: new package at 3.0.2 (#14277)
* py-intervaltree: new package at 3.0.2

* py-intervaltree: fix checksum

* py-intervaltree: add py-setuptools dep

* py-intervaltree: use inclusive ranges

* py-intervaltree: change py-test dep type
2020-01-03 15:52:59 -06:00
Satish Balay
f7b9592eb9 petsc: add version 3.12.3 (#14374) 2020-01-03 13:35:54 -06:00
xfzhao
100593b83a new package: bref3 (#14256) 2020-01-03 10:22:09 +01:00
Glenn Johnson
729e43ffac Get py-numpy > 1.16 to build with Intel compiler (#14360)
Beginning with numpy > 1.16 when using older versions of gcc the
`std=c99` flag must be used. The Intel compiler depends on gcc for its
language extensions so the version of gcc is important. If the version
of gcc used by the Intel compiler is one that requires the `-std=c99`
flag then that flag will have to be used for a build with the Intel
compiler as well.

This PR tests the version of gcc used by the Intel compiler and will
abort the build if the gcc version is < 4.8 and inject the `-std=c99`
flag if >= 4.8 and < 5.1. This will cover the system gcc compiler and
any gcc environment module loaded at build time.
2020-01-02 19:30:13 -06:00
Sinan
39a09691c5 package/opencv fix mistake in conflict statement involving gcc (#13959)
* fix mistake in conflict

* extend CudaPackage to resolve cuda-gcc conflicts
2020-01-02 19:18:27 -06:00
Jonathan R. Madsen
e46548c3b8 Updated version to include v3.0.1 (#14353)
* Updated version to include v3.0.1

- this patch has a rather critical MT fix

* Update package.py

- Moved 3.0.1 above 3.0.0
2020-01-02 19:17:54 -06:00
Christoph Junghans
70184c6ea2 fix url for mantevo packages (#14366) 2020-01-02 19:17:32 -06:00
Glenn Johnson
ba0e144b07 Set preferred version of perl-bioperl (#14354)
Due to formatting differences, the older version of perl-bioperl was
getting picked up as the preferred version. This PR explicitly sets the
newer version to be preferred.
2020-01-02 15:29:35 -06:00
Matthieu Dorier
8e70fa52df added verbose variant to mercury package (#14355) 2020-01-02 15:29:18 -06:00
Gilles Gouaillardet
19c1312eb4 gromacs: depend on hwloc v1 (#14343)
Because of a bug in the current concretizer,
spack install gromacs
fails because gromacs depends on hwloc (default is v2), and Open MPI
(the default MPI library) depends on hwloc v1.
As discussed in https://github.com/spack/spack/issues/14339, this
workaround should be removed once the concretizer is fixed

Signed-off-by: Gilles Gouaillardet <gilles@rist.or.jp>
2020-01-02 15:16:22 -06:00
Adam J. Stewart
e26f517daf
py-scikit-learn: add 0.22.1 (#14350) 2020-01-02 15:15:49 -06:00
Mike Kiernan
85fc6448f8 osu-micro-benchmarks: added version 5.6.2 (#14352) 2020-01-02 15:15:21 -06:00
Sinan
456aae2627 new package: py-zarr (#14326)
* create package py-zarr

* specify setuptools versions

* add more dependencies, improve style

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

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

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

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

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

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

* add dependencies, remove python version constraint

* remove windows specific dependency

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-01-02 13:07:48 -06:00
Adam J. Stewart
3f190a432e
MKL: set appropriate CMake env vars (#14274) 2020-01-02 12:41:42 -06:00
Sinan
de73121ebd new package: py-numcodecs (#14330)
* new package: py-numcodecs

* make msgpack variant
2020-01-01 23:09:29 -06:00
Adam J. Stewart
7a97dc3770
py-numpy: add 1.17.5 (#14341) 2020-01-01 15:05:23 -06:00
Sinan
5ddbd2fa6c new package: py-msgpack (#14329)
* new package: py-msgpack

* remove python dependency

* remove cython dependency
2019-12-31 15:14:40 -06:00
Jonathan R. Madsen
026534dadb Updated versions and more variants (#14310)
* Updated versions and more variants

- Added 'develop' and '3.0.0' versions
- Added 'tau', 'upcxx', 'gotcha', and 'likwid'

* Added conflict handling for +cupti~cuda

* Removed extra cmake args line
2019-12-31 13:33:41 -06:00
darmac
b70a5245f2 add new package : libfastcommon (#14303)
* add new package : libfastcommon

* update libfastcommon install()
2019-12-31 11:46:07 -06:00
darmac
e92f6c70a6 add new package : moosefs (#14305)
* add new package : moosefs

* remove no-need depens : zlib
2019-12-31 11:45:45 -06:00
darmac
9ff6079986 add new package : opentsdb (#14317)
* add new package : opentsdb

* remove redundant url_for_version()
2019-12-31 11:43:27 -06:00
Glenn Johnson
9a0fd8db9a New package - zziplib (#14318)
This PR adds the zziplib package.
2019-12-31 11:42:59 -06:00
Sinan
62cd7e4490 new package: py-asciitree (#14327)
* new package: py-asciitree

* fix typo
2019-12-31 11:39:43 -06:00
Mark Olesen
3bf7998bb5 Add OpenFOAM 1912 (#14322) 2019-12-31 11:19:05 -06:00