Commit graph

11954 commits

Author SHA1 Message Date
Amjad Kotobi
1d2754c3f6
r-usethis: new version and dependencies (#17411)
* r-usethis: new version and dependencies

* r-usethis: fix in dependency
2020-07-08 08:44:47 -05:00
tcojean
ae2a867a7f
Ginkgo: new versions (#17413)
* Add new Ginkgo versions with HIP support.

* Drop HIP support until more ROCm packages are integrated.
2020-07-08 08:42:56 -05:00
ketsubouchi
f0391db096
typhon: fix build with Fujitsu compilers (#17424) 2020-07-08 09:28:41 +02:00
TZ
084994db9c
ncl: fix compilation errors with Intel compilers (#17391)
The Intel compilers are more strict and require special command
line options (like -std=c99) to properly compile NCL.
2020-07-08 08:42:49 +02:00
iarspider
f1f31e3dfe
Fix YODA and Rivet recipes (#17412)
* Fix Rivet recipe; restrict Yoda versions for a give Rivet version

* Fix YODA recipe

* More tweaks to YODA version requirements

* Flake-8
2020-07-07 22:24:48 -05:00
Adam J. Stewart
a63761f875
oneDNN: add v1.5.1 (#17419) 2020-07-07 16:38:47 -05:00
Adam J. Stewart
3ce16c89b7
GDAL: add v3.1.2 (#17416) 2020-07-07 15:45:25 -05:00
Christoph Junghans
90285c7d61
votca-tools: fix build with mkl (#17414) 2020-07-07 13:27:10 -05:00
Frank Willmore
6c300ab717
snappy: added v1.1.8 (#17397) 2020-07-07 17:25:26 +02:00
g-mathias
05d8ba170b
jube: added v2.4.0 (#17404)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-07 16:11:53 +02:00
figroc
51f65152a5
abseil-cpp: added v20200225.2 (#17383) 2020-07-07 14:02:21 +02:00
Harmen Stoppels
1113357e35
libtree: fixed checksums (#17393)
The hash was wrongly computed for the `tar.gz` 
that Github provides, not the custom tarball which 
includes submodules as well.
2020-07-07 12:56:57 +02:00
ketsubouchi
d65a076c0d
bliss: add spaces to __DATE__ (#17385)
C++11 requires a space between literal and string macro.
2020-07-07 11:28:55 +02:00
Glenn Johnson
845139740f
mumax: new package at v3.10beta (#17398)
This PR creates a new spack package for

mumax: GPU accelerated micromagnetic simulator.

This uses the current beta version because
- it is somewhat dated, ~2018
- it is the only one that supports recent GPU kernels
2020-07-07 11:01:59 +02:00
TZ
1f87b07689
nco: added v4.8.[0,1] and v4.9.[0-3] (#17389) 2020-07-07 10:18:27 +02:00
TZ
cbaa1bca1c
ncview: added v2.1.8 (#17388) 2020-07-07 10:09:27 +02:00
Sinan
5fb6a06c37
gunrock: improved package recipe (added variants for applications and others) (#17340)
Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-07-07 10:02:37 +02:00
Adam Moody
6e38fc56f6 mpifileutils: add v0.10.1 2020-07-06 18:19:29 -07:00
cedricchevalier19
f0275d7e1b
Fix gcc + binutils compilation. (#9024)
* fix binutils deptype for gcc

binutils needs to be a run dependency of gcc

* Fix gcc+binutils build on RHEL7+

static-libstdc++ is not available with system gcc.
Anyway, as it is for bootstraping, we do not really care depending on
a shared libstdc++.

Co-authored-by: Michael Kuhn <michael@ikkoku.de>
2020-07-06 13:02:35 -05:00
iarspider
e62ddcb582
Add Rivet and YODA (#17372)
* Add Rivet and YODA

* Add patches

* Flake-8

* Set level for Rivet patches

* Syntax fix

* Fix dependencies of Rivet

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-07-06 10:51:36 -05:00
TZ
b3bc538df6
esmf: set ESMF_COMM=intelmpi also for ^intel-mpi (#17387)
Not only intel-parallel-studio+mpi provides Intel MPI but also
intel-mpi.
2020-07-06 11:40:11 +02:00
fcannini
29fc94e29e
psi4: fix "filter_compilers" signature (#17375) 2020-07-06 09:07:26 +02:00
Adam J. Stewart
466f7fd996
GMT: add v6.1.0 (#17384) 2020-07-05 21:06:05 -05:00
darmac
58cfe4e078
acl: fix depends error (#17341) 2020-07-05 15:28:29 -05:00
darmac
00f7577273
brpc: fix depends issue (#17347) 2020-07-05 15:27:49 -05:00
Wouter Deconinck
4e6d189a94
[opencascade] depends_on freetype, tcl, tk, gl (#17357)
* [opencascade] depends_on freetype, tcl, tk, gl

* [opencascade] new version 7.4.0p1 and url_for_version
2020-07-05 15:25:38 -05:00
iarspider
9abadd4985
New version of LHAPDF: 6.3.0 (#17367) 2020-07-05 15:23:03 -05:00
figroc
66d4bc3f3c
protobuf: add versions (#17381) 2020-07-05 15:22:31 -05:00
yellowhat
52cafe6c96
amdblis bump to 2.2. (#17369) 2020-07-05 15:22:11 -05:00
g-mathias
8d5aa46765
package Amber: amber tools 20 (#17374)
* package amber: added amber_tools 20 hash; added minor version for amber_tools

* fix flake8 issues

Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-05 15:17:38 -05:00
Gilles Gouaillardet
e5ec89ad5b
openblas: fix fj compiler support in 0.3.10 (#17376)
The latest 0.3.10 version openblas changed how Fortran libraries
are detected, and this broke Fujitsu compiler support.

This (new) openblas patch addresses that issue.
2020-07-05 15:14:36 -05:00
Timo Heister
7bba9cd2a5
update aspect to 2.2.0 (#17379) 2020-07-05 15:13:22 -05:00
Adam J. Stewart
cce629e791
SciPy: add v1.5.1 (#17380) 2020-07-05 14:58:26 -05:00
TZ
bb15addad5
inel-mpi: fix for wrong structure name instroduced in ea8a0be4 (#17382)
it's    mpi_compiler_wrappers
and not mpi_compiler._wrappers

fixes 2nd part of #17371
2020-07-05 11:10:28 -05:00
Adam J. Stewart
e9e3e88f63
Fix Intel MPI super invocation, again (#17378) 2020-07-05 11:09:24 -05:00
fcannini
c797a0611c
dtfbplus: New package. (#15191)
* dtfbplus: New package.

* dftbplus: Addresses @adamjstewart's comments on PR #15191

* dftbplus: Fixes format() calls that slipped in previous commit.

* dftbplus: Appease flake8.

* dftbplus: Change 'url' and misc. fixes.

* Add a resource to do the job of './utils/get_opt_externals'
2020-07-04 08:27:32 -05:00
Amjad Kotobi
f3eba3c482
py-python-swiftclient: added v3.10.0 (#17352) 2020-07-03 12:25:54 +02:00
g-mathias
02fa7b680f
elpa: added v2019.11.001 and v2020.05.001 (#17368)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-03 11:52:02 +02:00
Paul R. C. Kent
8fcd917e51
libelf: added extra url (#17358) 2020-07-03 11:49:58 +02:00
g-mathias
9c85d87b90
jube: added v2.3.0 (#17366)
Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-03 10:13:37 +02:00
yellowhat
b45fc97564
Package request: HPCG (#17350)
* use patch from upstream

Co-authored-by: Michael Kuhn <michael.kuhn@informatik.uni-hamburg.de>
2020-07-03 10:05:24 +02:00
ketsubouchi
986f68f7ed
blktrace: use Spack compiler wrappers (#17365) 2020-07-02 23:39:04 -07:00
ketsubouchi
2cd9e1eb62
blat: use SPACK_CC (#17364) 2020-07-02 23:38:23 -07:00
darmac
61804f201a
glusterfs: add pkgconfig dependency (#17343) 2020-07-02 23:35:38 -07:00
g-mathias
cf104b0f10
jmol: add version 14.31.0 (#17351)
Also:

* Add url_for_version function
* Add Java to PATH for run environment
* Update `install` method to handle old and new version

Co-authored-by: lu64bag3 <gerald.mathias@lrz.de>
2020-07-02 23:34:00 -07:00
Kelly (KT) Thompson
17106a131d
Random123: add versions 1.10, 1.13.2 (#17361) 2020-07-02 23:25:53 -07:00
Christoph Junghans
cc0dda95c4 quicksilver: add v1.0 2020-07-02 23:24:44 -07:00
takanori-ihara
7679e20e83
py-tensorflow: Fix for tensorflow issue #40688 (#17324)
* py-tensorflow: Fix for #40688

* py-tensorflow:  Fix for tensorflow issue #40688
2020-07-02 21:49:29 -05:00
Michio Ogawa
4349c091e7
FrontISTR: add version 5.1 (#17349) 2020-07-02 15:34:25 -07:00
darmac
ff60f51a7a
keepalived: openssl is a link and build dependency (#17346) 2020-07-02 15:13:24 -07:00
Amjad Kotobi
06da1f195c
openmpi: add singularity variant (#17288) 2020-07-02 15:10:06 -07:00
iarspider
3d98ad3f4c
New packages: heputils and mcutils (#17330)
heputils is a (conditional) dependency of mcutils
2020-07-02 15:05:20 -07:00
Harmen Stoppels
f1bb8999ab
cpprestsdk: add version 2.10.16 (#17331)
Also

* Patch is only needed for 2.9.1
* Add openssl dependency
* Build with -DWERROR:BOOL=Off
2020-07-02 15:02:12 -07:00
Sinan
1e75dde7b2
mapnik: add version 3.0.23, update boost dependency (#17338) 2020-07-02 14:56:36 -07:00
manifest
f780839b87
examl + (#17265)
* examl +

* examl style fix

* examl flake8 fix

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

using `working_dir`

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-07-02 09:43:47 -05:00
Andrew Gaspar
204f15b4c1
py-fortran-language-server: new package at v1.11.1 (#17318)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-07-02 10:22:01 +02:00
Michael Kuhn
a4fff39d7e
py-shroud: added v0.12.1 (#17332)
py-setuptools is also needed at runtime, otherwise we get errors:
```
ModuleNotFoundError: No module named 'pkg_resources'
```
2020-07-02 10:14:57 +02:00
Sinan
e133b44da6
py-opt-einsum: added v3.2.1, v3.2.0 and v2.3.2 (#17339)
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-07-02 09:14:39 +02:00
Paul R. C. Kent
5732d8de50
py-sphinxcontrib-bibtex: added v1.0.0 (#17336) 2020-07-02 08:32:26 +02:00
mic84
509b3c3016
amrex: added v20.07 (#17337)
Also added support for hdf5, petsc and hypre
2020-07-02 08:28:57 +02:00
ketsubouchi
8a9fa9bd18
biobloom: use the correct standard library for Fujitsu compilers (#17327) 2020-07-02 08:11:56 +02:00
darmac
aaf6f80d4c
hbase: refine url , java and version (#17306)
* hbase: refine url , java and version

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-30 22:22:32 -05:00
Andrew Gaspar
c12885768d
cmake v3.17.3 (#17313) 2020-06-30 11:37:06 -05:00
Andrew W Elble
78ac36204e
half: fix __F16C__ include of immintrin.h (#17272)
Small fix so that immintrin.h gets included properly when the
compiler sets __F16C__. Upstream has been notified.
2020-06-30 11:27:34 -05:00
darmac
463d0d7bd9
filebench:remove autoreconf() (#17305) 2020-06-30 11:05:39 -05:00
albestro
55796203c4
add constrain for hpx 1.4.* and boost 1.73.0 (#17307)
https://github.com/STEllAR-GROUP/hpx/issues/4728#issuecomment-640685308
2020-06-30 11:03:26 -05:00
Tomoki, Karatsu
0fd71d24ba
cleverleaf: Add C++ link flags for Fujitsu. (#17308) 2020-06-30 11:02:18 -05:00
Mark Olesen
c4c010c0bf
Add OpenFOAM 2006 (2020-06) release (#17309)
Co-authored-by: Mark Olesen <Mark.Olesen@esi-group.com>
2020-06-30 11:01:00 -05:00
Andrew Gaspar
e74008bcce
Catch2 v2.12.3 (#17312)
Added master branch, too
2020-06-30 10:59:12 -05:00
vvolkl
b9385998a8
[whizard] Fix Runtime Compiler Paths (#17300)
* [whizard] fix runtime compilers

fix

* [whizard] flake8

* [whizard] add master branch
2020-06-30 10:38:15 -05:00
Jen Herting
b329f10c7b
[py-mdanalysis] new version and added dependencies (#16819)
* [py-mdanalysis] new version and added dependencies

Original commit message:

Author: Andrew Elble <aweits@rit.edu>
Date:   Thu Nov 14 08:35:14 2019 -0500

    mdanalysis

* [py-mdanalysis] python is type build/run

* [py-mdanalysis] updated numpy version requirement for all listed versions of py-mdanalysis

* [py-mdanalysis] updated biopython version requirement for all listed versions of py-mdanalysis

* [py-mdanalysis] updated py-griddataformats version requirement for all listed versions of py-mdanalysis

* [py-mdanalysis] gsd only required after version 1.17.0 and requires gsd@1.4.0

* [py-mdanalysis] only requires mmtf-python after version 0.16.0 and requires version 1.0.0

* [py-mdanalysis] has required py-joblib since version 0.16

* [py-mdanalysis] updated py-scipy version requirement for all listed versions of py-mdanalysis

* [py-mdanalysis] updated py-matplotlib version requirement for all listed versions of py-mdanalysis

* [py-mdanalysis] has required py-mock since version 0.18.0

* [py-mdanalysis] py-scikit-learn only required after version 0.16.0 and only for +analysis variant

* [py-mdanalysis] Reordered and reformatted for readability

* [py-mdanalysis] flake8 fixes

* [py-mdanalysis] proactively adding version 1.0.0 while I'm here since major release

* [py-mdanalysis] fixing some forgotten colons
2020-06-30 09:29:45 -05:00
Jen Herting
14894a7b09
[py-crossmap] added version 0.3.9 (#17233)
* [py-crossmap] added version 0.3.9

* [py-crossmap] py-numpy not required

* [py-crossmap] py-cython must be >= 0.17
2020-06-30 09:28:13 -05:00
Jen Herting
f25d6e64f6
[ruby] fixing path to gcc such that users can use gem to install nati… (#17141)
* [ruby] fixing path to gcc such that users can use gem to install native gems to their home directory

* [ruby] working on making flake8 happier

* [ruby] Line can't really be split cleanly. Enhancing flake8's calm.

ya learn something new every day...

* [ruby] line break where requested

* [ruby] make raw string

* [ruby] only running for x86_64-linux everything else is untested

* [ruby] finding rbconfig.rb in a cross platform manner
2020-06-30 09:27:48 -05:00
Sinan
6d46fbb6f7
New package/graphblast (#17289)
* new package: GraphBlast

* polish

* add cuda_arch setup

* flake8

* the package requires cuda variant and dependency

* add comments

* define cuda_arch

* implement multiple and custom cuda arches

* tidy up, improve

* flake8

* improve style

* add variant description

* use patch method, add new version for latest commit building since master now fails

* remove gcc conflict, tidy up

* also indicate build range for boost

Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
Co-authored-by: Sinan81 <Sinan81@github>
2020-06-30 08:05:08 -05:00
Harsh Bhatia
6fb30acb77
dssp: new package at v3.1.4 (#17188)
Renamed xspp to hspp
2020-06-30 08:58:13 +02:00
Sinan
01dc8d6fc8
postgis: added package at v3.0.1 (#12635)
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Sinan81 <Sinan81@github>
2020-06-30 08:14:33 +02:00
Sebastian Gottfried
5e1cb24bec
py-mpi4py: Implement headers Property (#17295)
py-mpi4py installs its header files at a difficult-to-predict location:

    $prefix/lib/python-x.y/site-packages/mpi4py/include

With the new `headers` properties, dependent packages have now an easy
way to obtain this location:

    spec['py-mpi4py'].headers.directories[0]
2020-06-29 21:36:38 -05:00
iarspider
2de0053c08
New package: hepmcanalysis (#17296)
* [WIP] Add hepmcanalysis package

* Implement install() for hepmcanalysis

* Flake-8

Co-authored-by: iarspider <iarpsider@gmail.com>
2020-06-29 21:35:25 -05:00
Amjad Kotobi
17985959a4
R: new versions (#17297) 2020-06-29 21:33:57 -05:00
Adam J. Stewart
c8e2529eae
GDAL: add v3.1.1 (#17302) 2020-06-29 21:26:49 -05:00
h-denpo
17fa1edf32
Some files could not be created due to errors, which have been fixed. (#17250)
added support for Fujitsu compiler.
2020-06-29 21:26:26 -05:00
Fabien Bruneval
6f824b598c
cp2k: variant tuning lmax was broken (#17266)
* cp2k: variant tuning `lmax` was broken

- `spack install cp2k lmax=6` now works

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

* Update var/spack/repos/builtin/packages/cp2k/package.py

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-29 21:24:25 -05:00
Fabian Brandt
4a10faff87
New package py-networkit (6.1, 7.0) (#17195) 2020-06-29 21:23:53 -05:00
iarspider
49f19e1710
New package: coin3d (#17251)
* New package: coin3d

* Update package.py

* Flake-8

* Update var/spack/repos/builtin/packages/coin3d/package.py

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

* Add link-time dependencies

* Add configure flags for boost; remove version 4.0.0 (doesn't compile)

Co-authored-by: iarspider <iarpsider@gmail.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-29 21:23:02 -05:00
darmac
7161b33364
nfs-utils: fix compile error on debian (#17292)
use pkgconfig to detect libtirpc
2020-06-29 15:18:51 +02:00
iarspider
01357d4925
New package: fjcontrib + new variants for fastjet (#17255)
* New package: fjcontrib + new variants for fastjet

* Flake-8

* Flake-8 once more

* Update package.py

* Allow choosing which plugins to build

Build all plugins by default.

* Flake-8

* Always build all plugins

* Update package.py

Co-authored-by: iarspider <iarpsider@gmail.com>
2020-06-29 09:46:44 +01:00
Kshitij Mehta
d27ea3be1c
codar-cheetah: added v1.1.0 and v1.0.0 (#17286) 2020-06-29 08:10:30 +02:00
Wouter Deconinck
4ea4c2e63f
geant4: depends on "qt@5: +opengl" when +qt (#17264)
The Geant4 cmake check requires Qt5OpenGL_FOUND, so we must require
the Qt5 +opengl variant. If not, the cmake phase fall through to Qt4
and fails due to a missing Qt4::QtGui target.

In Geant4InterfaceOptions.cmake:
```
  if(Qt5Core_FOUND
      AND Qt5Gui_FOUND
      AND Qt5Widgets_FOUND
      AND Qt5OpenGL_FOUND
      AND Qt5PrintSupport_FOUND)
```

Ref: https://github.com/Geant4/geant4/blob/master/cmake/Modules/Geant4InterfaceOptions.cmake#L90
(5baee230e93612916bcea11ebf822756cfa7282c, Import Geant4 10.6.0 source tree)
2020-06-29 08:09:29 +02:00
Tomoki, Karatsu
4425e83750
fujitsu-mpi: added "headers" and "libs" methods (#17253) 2020-06-29 08:06:09 +02:00
Seth R. Johnson
56db9647b1
Prevent libffi 3.3 from adding contradictory tuning flags (#17285)
Fixes #17187
2020-06-28 13:31:59 -05:00
Sinan
9a8e9f265e
package/qgis: add new versions (#17284)
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-28 13:30:58 -05:00
Amjad Kotobi
02d5b8c425
intel: added new versions (#17287) 2020-06-28 13:30:21 -05:00
Dr. Christian Tacke
7aac150617
vmc: New Package (#17282)
"""The Virtual Monte Carlo (VMC) library"""
2020-06-28 13:28:42 -05:00
darmac
68633fac5c
redis: add config file from source code (#17225)
* redis: add config file from source code

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

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-28 13:26:04 -05:00
Axel Huebl
064618e1ea
WarpX: Development Branch (#17163)
* WarpX: Development Branch

Update the name of our development branch.

* WarpX version: develop keyword

development is not a "newest"-like keyword, but `master`/`develop`/`dev` are.

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

* Renamed: develop version

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-28 01:23:11 -07:00
Greg Becker
cc28493449
make gcc build on aarch64 (#17280) 2020-06-27 18:51:11 -05:00
Axel Huebl
d7c46d8c57
CUDA: CUDAHOSTCXX Env (#16869)
This is a general CMake CUDA language hint to use the CXX
compiler has host compiler for NVCC. Seems like a good
default since we do not express the CUDA compiler in Spack
otherwise yet (e.g. no `self.compiler.cuda` or
`self.compiler.cudahostcxx`).
2020-06-27 15:36:18 -05:00
Dr. Christian Tacke
f7aecd9d6e
perl-date-manip: New Package Date::Manip (#17259) 2020-06-27 14:54:50 -05:00
vvolkl
0ddfcf097b
[gaudi] new version, cleanup (#17268) 2020-06-27 14:42:23 -05:00
Fabian Brandt
a640befb60
Patch needed also for version 7.0 (#17269) 2020-06-27 14:41:24 -05:00
Hans Pabst
1345d30750
LIBXSMM 1.16.1 (#17274) 2020-06-27 14:39:35 -05:00
albestro
81b4c03f56
migrate to git and update commit (#17276) 2020-06-27 14:39:01 -05:00
David Gardner
00fd63f5ee
superlu-mt: add pic and int64 variants (#11361)
* add pic and int64 variants

* update to Language-specific PIC flags
2020-06-27 09:52:32 -05:00
Adam J. Stewart
c8e6a9e535
Fix super invocation in Intel packages (#17248) 2020-06-26 14:04:35 -05:00
Adam J. Stewart
cecd300693
py-azureml-sdk: add new package (and deps) (#17261) 2020-06-25 20:15:21 -05:00
Axel Huebl
e6bf0b01c4
Ascent & Conduit: ~python default (#17230)
* Ascent: ~python default

Packages that build optional python bindings do not build them by default in Spack:
https://spack.readthedocs.io/en/latest/packaging_guide.html#variant-names

This reduces long dependency trees and build times, e.g. for apps just using C/C++/Fortran bindings of a library.

* Conduit: ~python default

Packages that build optional python bindings do not build them by
default in Spack:
  https://spack.readthedocs.io/en/latest/packaging_guide.html#variant-names

This reduces long dependency trees and build times, e.g. for apps
just using C/C++/Fortran bindings of a library.
2020-06-25 20:14:57 -05:00
Dr. Christian Tacke
49b0ac804b
munge: Update homepage URL (#17257) 2020-06-25 22:33:38 +02:00
Ge Wenjun
740a9d88f9
add new package: datatransferkit (#17158)
* add new package: datatransferkit

* fix style

* remove the build type;add~dtk;'shared' variant;homepage

* add maintainer
2020-06-25 14:57:31 -05:00
manifest
d2b56dbce3
add sra-toolkit@2.10.7 (#16947)
* sra-tools

* sra-tools style fix

* sratoolkit version update
2020-06-25 14:33:26 -05:00
Michael Kuhn
e8465ce81c
libtirpc: Add 1.2.6 (#17209)
Earlier versions do not compile with gcc@10:.
2020-06-25 14:32:34 -05:00
Andrey Prokopenko
9f3e542d30
Update ArborX for new Kokkos (#17213)
* Update ArborX for new Kokkos

* Set maintainer
2020-06-25 14:20:31 -05:00
Greg Becker
096bd69a94
prevent multiple version sigils in the same spec (#17246)
* prevent multiple version sigils in the same spec

* fix packages with malformed versions
2020-06-25 12:34:09 -05:00
Erik Schnetter
e04c89f086
mpich: Allow building with external hwloc library (#15305)
This is in principle supported already, but requires a patch to avoid build errors.

Closes #15302

Co-authored-by: Michael Kuhn <michael.kuhn@informatik.uni-hamburg.de>
2020-06-25 18:27:48 +02:00
Massimiliano Culpo
14599f09be
Separate Apple Clang from LLVM Clang (#17110)
* Separate Apple Clang from LLVM Clang

Apple Clang is a compiler of its own. All places
referring to "-apple" suffix have been updated.

* Hack to use a dash in 'apple-clang'

To be able to use autodoc from Sphinx we need
a valid Python name for the module that contains
Apple's Clang code.

* Updated packages to account for the existence of apple-clang

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

* Added unit test for XCode related functions

Co-authored-by: Gregory Becker <becker33@llnl.gov>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-25 11:18:48 -05:00
manifest
5c712a03a1
msmc2: added package at v2.1.2 (#17170)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-25 10:43:33 +02:00
Brian Van Essen
089a21dd1d
Update the version of Cereal. (#17244) 2020-06-24 23:00:06 -05:00
John Jolly
d8a7cfc36a
chill: Patch to include gmp, isl, and libquadmath (#16996)
The rose library uses the `strtoflt128` and `quadmath_snprintf`
functions. In order to successfully link the rose library, chill must
also link the GCC libquadmath library to resolve the two functions. This
patch changes the chill build to include this library.

Chill will also not compile unless headers from the gmp and isl
libraries are found in the includes path. Two patches - one each for gmp
and isl - modify the chill build process to add options to specify those
paths. These options follow the similar pattern as seen with BOOSTHOME
and ROSEHOME options which already exist in the chill build process.

Because of the addition of GMPHOME and ISLHOME options, build
requirements for gmp and isl are also added.
2020-06-24 22:53:09 -05:00
Tomoki, Karatsu
b2a4af764c
vtk: Add patch for finding Fujitsu-MPI wrapper commands. (#17069) 2020-06-24 22:52:31 -05:00
Michael Kuhn
cee24fbc98
mvapich2: Fix build with gcc@10: (#17114) 2020-06-24 22:49:30 -05:00
Sergey Kosukhin
8d67279181
openjdk and jdk: extend the list of provided versions of java (#17151) 2020-06-24 22:43:30 -05:00
vvolkl
b8270559d9
[podio] patch to correctly load dictionaries in v00-10 (#17157) 2020-06-24 22:42:41 -05:00
Jen Herting
fe14c201dc
New package: py-mmtf-python (#17201)
* mdanalysis

* [py-mmtf-python] fixed copyright

Co-authored-by: Andrew Elble <aweits@rit.edu>
2020-06-24 22:24:16 -05:00
oracleLee
e81533eb9b
Update a supported package 'user-meamc' for lammps (#17207)
* Update package.py

* edit confliction when add package 'meam' 

 The USER-MEAMC fully replaces the MEAM package, which has been removed from LAMMPS after the 12 December 2018 version.
2020-06-24 22:23:17 -05:00
cedricchevalier19
a928f44fc0
Fix missing dependency in Mono (#17208)
* Add missing dependency on Python for Mono.

At build time

* Adding version 6.8.0.123 for mono
2020-06-24 22:22:40 -05:00
Cyrus Harrison
eee56295ce
add cond py-mpi4py dep to conduit (#17211) 2020-06-24 22:19:28 -05:00
Chuck Atkins
30958649fb
ecp-io-sdk: remove deprecated numa variant from unify-fs (#17212) 2020-06-24 22:18:49 -05:00
Glenn Johnson
7717532d14
The lapack-0.3.9-xerbl patch is no longer needed (#17217)
The lapack-0.3.9-xerbl patch is not needed for versions 0.3.10 and
above.
2020-06-24 22:12:48 -05:00
Jonathan R. Madsen
bed11a5a54
timemory: Updated nearly all options to default to OFF (#17221)
* Updated nearly all options to default to OFF

* Fixed imported but unused module flake error
2020-06-24 22:10:43 -05:00
Michio Ogawa
95f351de7e
Updated MUMPS(5.3.3) (#17223)
* Updated MUMPS-5.3.3

* fixed E741 error(l -> ltr)
2020-06-24 22:09:44 -05:00
Adam J. Stewart
791267c3dc
NCCL: add latest version (#17234) 2020-06-24 21:59:32 -05:00
Adam J. Stewart
cd2e945e4e
py-horovod: add latest version (#17235) 2020-06-24 21:59:10 -05:00
Adam J. Stewart
ad708cde53
GPyTorch: add new package (#17237) 2020-06-24 21:58:31 -05:00
Adam Moody
b00bc2a18e
dtcmp: add v1.1.1 (#17240)
Signed-off-by: Adam Moody <moody20@llnl.gov>
2020-06-24 21:58:09 -05:00
Adam Moody
e12784bcb1
lwgrp: add v1.0.3 (#17242) 2020-06-24 21:57:37 -05:00
Nichols A. Romero
ec58f28c20
quantum-espresso: fix for scalapack with openmpi (#17179) 2020-06-24 16:30:00 +02:00
Gilles Gouaillardet
577a88880e
gromacs: fix fftw and update cmake dependencies (#17226)
* gromacs: fix fftw dependency

Only depend on fftw+mpi when gromacs is built with mpi,
and depend on fftw~mpi otherwise.

* gromacs: fix cmake dependency

master branch depends on cmake 3.11 (as specified in CMakeLists.txt
cmake dependency is also bumped to 3.11 when fj compilers are used
in order to fix OpenMP detection.
2020-06-24 05:47:55 -06:00
Michael Kuhn
fe0d3c22c6
perl: added v5.30.3 and v5.32.0 (#17220)
perl.org still recommends 5.30.3, so keep it as the preferred version.
2020-06-24 11:01:48 +02:00
Nichols A. Romero
4c055630d5
quantum-espresso: correctly cross-compile code for Cray and BG/Q (#17180) 2020-06-24 09:52:27 +02:00
victorusu
94cce5f963
Enable mysql for macos (#17177)
I get the following error message, if I do not use editline from the system.

```
>> 3090    Undefined symbols for architecture x86_64:
     3091      "_tgetent", referenced from:
     3092          _terminal_set in libedit.a(terminal.c.o)
     3093      "_tgetflag", referenced from:
     3094          _terminal_set in libedit.a(terminal.c.o)
     3095      "_tgetnum", referenced from:
     3096          _terminal_set in libedit.a(terminal.c.o)

     ...

     3110          _terminal_insertwrite in libedit.a(terminal.c.o)
     3111          _terminal_clear_EOL in libedit.a(terminal.c.o)
     3112          _terminal_clear_screen in libedit.a(terminal.c.o)
     3113          _terminal_beep in libedit.a(terminal.c.o)
     3114          ...
     3115    ld: symbol(s) not found for architecture x86_64
```
2020-06-23 21:29:45 +02:00
Michio Ogawa
0493e133c5
revocap-refiner: updated package (#17192) 2020-06-23 18:26:47 +02:00
Justin S
404ff9eb32
dock: new package at 6.9 (#17138) 2020-06-23 10:34:47 +02:00
darmac
91693ef32e
strace: added v5.3 to v5.7 (#17193) 2020-06-23 10:20:28 +02:00
Amjad Kotobi
cfc390b41f
r-spatialEco: added v1.3-2 (#17194) 2020-06-23 10:19:00 +02:00
Michael Kuhn
c41f13ef97
parallel-netcdf: add missing perl dependency (#17156)
parallel-netcdf's buildiface script needs perl during build.
2020-06-23 10:18:27 +02:00
Mosè Giordano
561f6d6c21
swfft: Add patch to make it build (#17196) 2020-06-23 10:17:32 +02:00
Jen Herting
6fdf5913ab
py-gsd: new package at v1.9.3 (#17200)
Co-authored-by: Andrew Elble <aweits@rit.edu>
2020-06-23 09:49:05 +02:00
Howard Pritchard
07b6834ec5
OpenMPI: added v4.0.4 (#17202)
Bug fix release:

4.0.4 -- June, 2020
-----------------------
- Fix a memory patcher issue intercepting shmat and shmdt.  This was
  observed on RHEL 8.x ppc64le (see README for more info).
- Fix an illegal access issue caught using gcc's address sanitizer.
  Thanks to  Georg Geiser for reporting.
- Add checks to avoid conflicts with a libevent library shipped with LSF.
- Switch to linking against libevent_core rather than libevent, if present.
- Add improved support for UCX 1.9 and later.
- Fix an ABI compatibility issue with the Fortran 2008 bindings.
  Thanks to Alastair McKinstry for reporting.
- Fix an issue with rpath of /usr/lib64 when building OMPI on
  systems with Lustre.  Thanks to David Shrader for reporting.
- Fix a memory leak occurring with certain MPI RMA operations.
- Fix an issue with ORTE's mapping of MPI processes to resources.
  Thanks to Alex Margolin for reporting and providing a fix.
- Correct a problem with incorrect error codes being returned
  by OMPI MPI_T functions.
- Fix an issue with debugger tools not being able to attach
  to mpirun more than once.  Thanks to Gregory Lee for reporting.
- Fix an issue with the Fortran compiler wrappers when using
  NAG compilers.  Thanks to Peter Brady for reporting.
- Fix an issue with the ORTE ssh based process launcher at scale.
  Thanks to Benjamín Hernández for reporting.
- Address an issue when using shared MPI I/O operations.  OMPIO will
  now successfully return from the file open statement but will
  raise an error if the file system does not supported shared I/O
  operations.  Thanks to Romain Hild for reporting.
- Fix an issue with MPI_WIN_DETACH.  Thanks to Thomas Naughton for reporting.

Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2020-06-23 09:46:50 +02:00
Adam J. Stewart
f8e3e8289d
py-torchvision: added v0.6.1 (#17203) 2020-06-23 09:45:36 +02:00
Wouter Deconinck
0ffbd79bd0
[hepmc3] gcc@9.3.0 patch for @3.1.2:3.2.1, conflicts for earlier @:3.1.1 (#17182)
See ba38f14d8f, which is included in master and released as of hepmc3@3.2.2
2020-06-23 09:44:44 +02:00
vvolkl
36e603c7d6
whizard: added zlib as a dependency (#17205) 2020-06-23 08:56:23 +02:00
Tomoki, Karatsu
1d10c6c730
caffe: use MPI compiler when using hdf5+mpi (#17125) 2020-06-23 08:54:54 +02:00
Michael Kuhn
55f26b0ccb
lua: fix linking to ncurses (#17206)
PR #17108 broke the build. Spack's ncurses package does not provide a
libtermcap, so we need to use libtinfow.
2020-06-23 08:30:45 +02:00
vvolkl
735416dbf4
HEP generator update: evtgen, tauola, photos, pythia8, lhapdf, whizard (#16880)
* add package evtgen

fix formatting

add evtgen dependencies and update pythia8

fix formatting

* [evtgen] update versions

* [pythia8] add 'without-PACKAGE' args

* fix formatting

* Add LHAPDF

Co-authored-by: iarspider

* Add package whizard

fix formatting

* [pyhtia8, evtgen] add conflict msg re: circular dependencies

* [pyhtia8, evtgen] fix conflicts

* [pyhtia8, evtgen] fix msg string

* Set pythia8 default to ~evtgen
2020-06-22 13:16:06 -05:00
Jen Herting
985c5c7792
[py-macs2] new version and dependency (#16817)
* [py-macs2] Combined commit

- Added version 2.1.3.3
- added dependency py-cython

Author: Jen Herting <jen@herting.cc>
Date:   Tue May 26 16:41:28 2020 -0400

[py-macs2] added sha256=

Author: Andrew Elble <aweits@rit.edu>
Date:   Tue Oct 29 10:34:33 2019 -0400

migrated repos

* [py-macs2] fixed copyright

* [py-macs2] py-cython is build dependency
2020-06-22 13:15:46 -05:00
Joseph Ciurej
42f2c168d2
swig: fix older builds on newer platforms by updating config files (#16854)
* swig: revise 'autotools' automated 'config.*' update mechanism to support 'config.sub' and adapt 'swig' accordingly
2020-06-22 10:44:29 -05:00
Brian Van Essen
4e9a98997a
Added 8.0 RC to the versions (#17176) 2020-06-22 08:22:14 -05:00
G-Ragghianti
54cfec025f
blaspp: moved to new git repo (#17184)
Extended the list of maintainers
2020-06-22 14:21:46 +02:00
darmac
a76545b813
dos2unix: add build dependency on gettext (#17191) 2020-06-22 13:37:26 +02:00
Brian Van Essen
0d08e18df5
Minor cleanup for conduit and hydrogen (#17136)
* Fix how the Conduit detects that the MPI compiler is the same as the
CC compiler and is more careful when it sets the MPI compilers to be
the Cray PE system compilers.

* Remove unnecessary push of the MPI compilers to the C compilers for Hydrogen.
2020-06-22 09:32:55 +02:00
Wouter Deconinck
3fc963b1f9
delphes: better specify the dependency on root (#17175)
Compiling delphes with default root cxxstd=11 fails, see e.g. https://sft.its.cern.ch/jira/si/jira.issueviews:issue-html/ROOT-9492/ROOT-9492.html
2020-06-22 09:31:57 +02:00
iarspider
0b74285a14
py-pyheadtail: added new package at v1.14.1 (#17159)
Co-authored-by: iarspider <iarpsider@gmail.com>
2020-06-22 08:52:19 +02:00
Hans Pabst
73b3bbbd22
libxsmm: added v1.16 (#17185) 2020-06-22 08:36:46 +02:00
Christoph Junghans
e91d7988e5
votca-*: added v1.6.1 (#17186) 2020-06-22 08:36:01 +02:00
Michael Kuhn
0cddfb9d8a
meson: added v0.54.3 (#17190) 2020-06-22 08:30:17 +02:00
Adam J. Stewart
4bfa844de0
SciPy: add v1.5.0 (#17189) 2020-06-22 08:20:04 +02:00
Adam J. Stewart
c7f6608f5e
NumPy: add v1.19.0 (#17183) 2020-06-20 17:46:10 -05:00
Chris White
a20ba315f5
Axom/Conduit: Fix error when fortran is not defined (#17171)
* Fix error when fortran is not defined

* Guard more ~fortran cases
2020-06-19 14:31:09 -05:00
G-Ragghianti
844312f213
Updated slate package to use new git repo. Added maintainer. (#17165)
* Updated slate package to use new git repo.  Added maintainer.
2020-06-19 11:10:03 -05:00
Alexander Knieps
b73536b4ad
Update to swipl package (#17173)
* Added version 8.2.0, added dependency for documentation build, added variants for documentations

* Renamed variant '+man' to '+html'

Co-authored-by: Alexander Knieps <a.knieps@fz-juelich.de>
2020-06-19 11:03:25 -05:00
Adam J. Stewart
b80d5e74e5
PyTorch: add v1.5.1 (#17167) 2020-06-18 17:24:38 -05:00
Adam J. Stewart
5a0c5de50b
py-pandas: add v1.0.5 (#17161) 2020-06-18 17:24:27 -05:00
Adam J. Stewart
33e6d0f378
py-matplotlib: add v3.2.2 (#17160) 2020-06-18 17:24:14 -05:00
Massimiliano Culpo
6d9f0262de
libjpeg-turbo: fixed sha256 (#17154) 2020-06-18 14:44:32 +02:00
lorddavidiii
68c13d76f9
arpack-ng: fix build with gcc@10: (#17131) 2020-06-18 14:43:52 +02:00
darmac
2a13bad8eb
atop: fix ld error (#17150) 2020-06-18 14:42:52 +02:00
Sinan
1de20f00b6
arrayfire: added cudnn as a dependency when +cuda (#17146)
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-18 11:20:17 +02:00
Shintaro Iwasaki
910d258706
argobots, bolt: updates to package.py (#17117) 2020-06-18 11:11:59 +02:00
Itaru Kitayama
4fe78bceaa
cube and libjpeg-turbo: added cube v4.5 and libjpeg-turbo v2.0.4 (#17132) 2020-06-18 10:40:54 +02:00
Toyohisa Kameyama
58e20430b1
minimap2: fix a typo in the recipe (#17148) 2020-06-18 09:43:06 +02:00
Seth R. Johnson
1bb94f2913
glib: fix 2.56 build with python@2 (#17144)
* glib: fix 2.56 build with python@2

* flake8
2020-06-17 23:32:25 -05:00
Joseph Ciurej
c8199ece65
python: fix patch issue for 2.7.X, 3.7.X (#17140)
* python: fixing patch issue for 2.7.X, 3.7.X versions (#17128)

* python: fixing the C/C++ 'distutils' patching for @3.7.0:3.7.1
2020-06-17 23:30:41 -05:00
Adam J. Stewart
c0cdc00409
oneDNN: add v1.5.0 (#17137) 2020-06-17 16:01:46 -05:00
Michael Kuhn
f7008f37d4 slurm: Fix build with gcc@10:
gcc@10: defaults to -fno-common, which breaks slurm up to version
20-02-1. For more details, see https://gcc.gnu.org/gcc-10/porting_to.html
2020-06-17 13:42:00 -07:00
Sergey Kosukhin
01b277ad0f
openmpi: options for local transport (#16831) 2020-06-17 14:41:24 -05:00
Chris White
506f31b7a7
axom conduit mfem build fixes (#17121)
* honor global compiler flags

* Honor debug variant when using global compiler flags

* Add cppflags to c/cxx flags, clarify flag handling
2020-06-17 12:43:47 -05:00
vvolkl
03880f5413
Split hepmc Into hepmc and hepmc3 (#16892) 2020-06-17 12:13:27 -05:00
Michio Ogawa
ad18933ef4
FrontISTR: various updates to the package (#17089)
* Added maintainers
* Refined dependencies
* Changed git url
2020-06-17 17:45:51 +02:00
Sergey Kosukhin
eca08c77e3
openmpi: fixes for NAG compiler (#17073)
* openmpi: fixes for NAG compiler

* openmpi: more fixes
2020-06-17 10:32:08 -05:00
Seth R. Johnson
e90c229dab
Fix/clarify some trilinos variants/dependencies (#17006)
- Parallel HDF5 isn't required -- the comment seems to be about a
  transitive dependency with pnetcdf.
- Boost usage should respect the variant, not automatically be reenabled
  when choosing DTK.
2020-06-17 09:34:53 -05:00
takanori-ihara
eb5f1886b7
py-tensorflow: Update for use with Fujitsu compiler (#17088)
* py-tensorflow: Update for use with Fujitsu compiler

* py-tensorflow: remove -march option

* fix flake8 error
2020-06-17 08:00:36 -05:00
darmac
dc0dfe9220
New package: lynx (#17099) 2020-06-16 23:04:00 -07:00
Muhammad Haseeb
d2b745b3d6
lua: requires -ltermcap when building (#17108) 2020-06-16 22:55:46 -07:00
Fabian Brandt
494a523636
libnetworkit: add version 7.0 (#17111) 2020-06-16 22:44:43 -07:00
Ryan Mast
0c28d8932f helics: Add version 2.5.2 2020-06-16 22:43:27 -07:00
Seth R. Johnson
93fcca900f
vecgeom: add version 1.1.7 (#17120) 2020-06-16 22:42:56 -07:00
h-denpo
fd8971feec
Modified for Fujitsu compiler. (#17124) 2020-06-16 22:36:08 -05:00
Glenn Johnson
8e6f0c353c
Add patch for older versions of py-tensorflow (#17122)
Versions of py-tensorflow between versions 1.1 and 1.14 need a patch to
avoid an import error on the cloud package even if built without support
for the cloud package.
2020-06-16 22:35:03 -05:00
Toyohisa Kameyama
6e467d13a4
mxnet: avoid GNU parallel shuffle without openmp. (#17095) 2020-06-16 22:24:38 -05:00
takanori-ihara
b0c73c3325
bazel: Update for use with Fujitsu compiler (#16860)
* bazel: Update for use with Fujitsu compiler

* bazel: Fix for use with Fujitsu compiler

* bazel: Fix flake8 error

* bazel: add conflicts setting for use with Fujitsu compiler

* fix flake8 error

* fix flake8 error
2020-06-16 22:18:04 -05:00
takanori-ihara
84e117b497
Add compiler option to use with Fujitsu compiler (#17067)
* Add compiler option to use with Fujitsu compiler

* Fix flake8 error

* remove 1-1_fcc_tf_patch.patch

* fix flake8 error
2020-06-16 21:59:20 -05:00
Geoffrey Oxberry
4652b217cf
pango: add libffi, glib, and other dependencies (#12384) 2020-06-16 15:34:18 -07:00
Andrew W Elble
ff816f76b3
ruby: add version 2.7.1 (#17112) 2020-06-16 21:35:49 +02:00
Tom Payerle
4a948060cf
VTK: add version 9.0.0; update Python dependency constraints (#17019)
In Python 3.8, the reserved "tp_print" slot was changed from a function
pointer to a number, which broke the Python wrapping code in vtk@8
(causing "cannot convert 'std::nullptr_t' to 'Py_ssize_t'" errors in
various places).  This is fixed in vtk@9.0.0.

This patch:

1) adds vtk@9.0.0
2) updates depends_on constraints to only use python@3.8: for vtk@9:
   vtk@:8 depends on python@2, and vtk@8.0.1:8.9.9 depends on python@:3.7
3) Adds CMake flag VTK_PYTHON_VERSION=3 when using python@3 with vtk@9
2020-06-16 11:33:35 -07:00
Joseph Ciurej
0095c4c25c
python: fix distutils for python modules (e.g. matplotlib) with C and C++ source files (#16856)
* python: adding a distutils fix to improve build compatibility for C++ extension modules (e.g. py-matplotlib)

* python: added C/C++ distutils patches for python@3.6:3.8
2020-06-16 12:45:36 -05:00
Tomoki, Karatsu
4b48f70393
gobject-introspection: build sequentially when using the Fujitsu compiler. (#17092) 2020-06-16 14:51:29 +02:00
victorusu
0f484380f5
reframe: fix package bugs with v3.0 (#17104)
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-16 13:49:47 +02:00
vvolkl
e28561241b
ROOT: set LD_LIBRARY_PATH when ~rpath (#16899)
Allow Spack to build with ROOT as an external dependency by setting
LD_LIBRARY_PATH: given that the external package was not built by
Spack, dependents would not be able to locate libraries using RPATHs
when running ROOT binaries.
2020-06-15 23:31:41 -07:00
darmac
9f73e60ba9
Add new package: lzop (#17098) 2020-06-16 08:28:44 +02:00
John Jolly
8882dc0d96 chill: Update dependency versions
Specified Python to be v2.7 only, as Python3 support is not currently
implemented in chill.

Update chill dependency versions for the following libraries to the
specific versions:

* rose:  v0.9.13.0
* bison: v3.4.2

Both rose and iegenlib are build time dependencies, but are also run
time dependencies. Added 'run' to the build type for both dependencies.
2020-06-15 23:08:34 -07:00
Sergey Kosukhin
a492187973
hdf5: fix libtool files (#17009) 2020-06-15 23:05:46 -07:00
Andrew W Elble
7e322b3184
CUDA: remove preexisting log file before install (#17018)
cuda: 10.1 and onward, installers will crash if /tmp/cuda-installer.log
exists

Try to help if user owns the file, otherwise try to provide useful
info. Clean up the file post-install to try to avoid the whole issue.
2020-06-15 22:57:00 -07:00
Jen Herting
d4f0a8f70b
[py-torchvision] added dependency of ffmpeg (#17032)
* [py-torchvision] added dependency of ffmpeg

* [py-torchvision] needs ffmpeg >= 3.1. See: https://github.com/pytorch/vision/issues/1597

* [py-torchvision] ffmpeg dependency is only for py-torchvision versions >= 0.4.2.
2020-06-15 22:46:35 -07:00
Amjad Kotobi
0111f2932f
pcre2: add version 10.35; JIT support (#17037) 2020-06-15 22:44:04 -07:00
Jose E. Roman
f54c9ae305
SLEPc: added v3.13.3 (#17085) 2020-06-16 06:25:30 +02:00
Kai Torben Ohlhus
e8fc7871da
openblas: added v0.3.10. (#17086)
[OpenBLAS 0.3.10](https://github.com/xianyi/OpenBLAS/releases/tag/v0.3.10) was released.
2020-06-16 06:22:48 +02:00
Sinan
06c06a5665
arrayfire: added new package at v3.7.0 (#15598)
Co-authored-by: Sinan81 <Sinan81@github>
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-16 06:15:50 +02:00
darmac
6f07f8ae3e
netdata: added new package at v1.22.1 (#17094) 2020-06-16 06:08:45 +02:00
darmac
d1aa54115c
cyrus-sasl: added new package at 2.1.27 (#17096) 2020-06-16 06:00:53 +02:00
darmac
70be1038fd
memtester: added new package at v4.3.0 (#17097) 2020-06-16 05:59:31 +02:00
Miroslav Stoyanov
32558525f6
heffte: added v1.0 (#17102) 2020-06-16 05:44:47 +02:00
David Beckingsale
cb028aaf12
Update master to main for RAJA and Umpire (#17107) 2020-06-16 05:35:23 +02:00
h-denpo
01d9063bb1
ffb: prevent the architecture to be always "x86_64" (#17093) 2020-06-16 05:29:35 +02:00
Matthias Diener
24ff34335b
dateutils: add version 0.4.7 (#17106) 2020-06-15 22:50:56 +02:00
Itaru Kitayama
eb26b4666f
Add 4.5 release to cubelib (#17090) 2020-06-15 15:21:35 -05:00
darmac
6c2e14dfca
grafana: added new package at v6.7.3 (#16788) 2020-06-15 15:56:29 +02:00
Sinan
1501de59ed
Package/py-lmfit: add new version (#16975)
* save edits

* tidy up

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

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

* add python version constraints

Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
Co-authored-by: Sinan81 <Sinan81@github>
2020-06-14 08:36:10 -05:00
Mark W. Krentel
aa50c2c7d0
hpctoolkit: add version 2020.06.12 (#17081)
Add versions 2020.06.12 and develop.
Switch default for variant papi to true.
2020-06-13 09:01:42 -05:00
Sinan
59e4caad1d
add dependency for icd variant, or else build fails (#17079)
Co-authored-by: Sinan81 <Sinan81@github>
2020-06-13 09:00:46 -05:00
Sinan
b9cf50d571
New package: ocl-icd (#17078)
* new package: ocl-icd

* flake8

Co-authored-by: Sinan81 <Sinan81@github>
2020-06-12 21:23:55 -05:00
victorusu
82f84fb61b
Reframe 3.0 (#17005)
* Add pygelf Python package

* Update ReFrame package version

* Address styling remarks

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

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

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

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

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

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

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

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

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

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

* Address PR remarks

* Remove setuptools runtime dependency

* Address PR remarks

* Address PR remarks

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-12 20:38:17 -05:00
健美猞猁
50a50875f9
py-healpy: a new package. (#17001)
* py-healpy: a new package.

* Use internal libraries within py-healpy.

* Fix python dependencies.

* Fix python dependency.
2020-06-12 20:36:24 -05:00
Ross Miller
a69a213b9b
New recipe for building the Log4C package (#17038)
* New recipe for building the Log4C package

* Update Copyright notice
2020-06-12 20:19:28 -05:00
darmac
4053036388
fix depends issue and support for aarch64 (#17045) 2020-06-12 20:18:38 -05:00
Peter Scheibel
2b58b3a1bf
replace 'no' with 'none' as possible value of 'threads' variant (#17063) 2020-06-12 20:12:35 -05:00
Amjad Kotobi
416e94be72
xrootd: new versions (#17076) 2020-06-12 20:06:15 -05:00
Greg Becker
ea8a0be465
add compilers to mpi setup_run_environment methods forall mpi implementations (#17015) 2020-06-12 14:05:12 -07:00
Andrew W Elble
67b86623a2
bazel: patch to allow py-tensorflow (and likely other bazel packages) to build. (#17013)
bazel uses gcc's -MF option to write dependencies to a
file. Post-compilation, bazel reads this file and makes some
determinations.

"Since gcc is given only relative paths on the command line,
 non-system include paths here should never be absolute. If they
 are, it's probably due to a non-hermetic #include, & we should stop
 the build with an error."

Spack directly injects absolute paths, which appear in this file and
cause bazel to fail the build despite the fact that compilation
succeeded.

This patch disables this failure mode by default, and allows for it
to be turned back on by using the '~nodepfail' variant.
2020-06-12 13:25:34 -07:00
h-denpo
0c1f1af571
New package: FrontFlow Blue (#16901)
* New package: FrontFlow Blue
       Computational Fluid Dynamics Software for aeroacoustics

* Modify Package ->MakefilePackage

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

Co-authored-by: Greg Becker <becker33@llnl.gov>

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

Co-authored-by: Greg Becker <becker33@llnl.gov>

Co-authored-by: Greg Becker <becker33@llnl.gov>
2020-06-12 12:31:04 -07:00
John Jolly
b90780d256 cscope: Link tinfow instead of tinfo
Whenever attempting to use any ncurses functionality within cscope, a
page fault would result within the ncurses library.

    Program received signal SIGSEGV, Segmentation fault.
    0x00007ffff7fad3cf in termattrs_sp () from .../lib/libncursesw.so.6
    (gdb) bt
    #0  0x00007ffff7fad3cf in termattrs_sp () from .../lib/libncursesw.so.6
    #1  0x00007ffff7faa794 in _nc_setupscreen_sp () from .../lib/libncursesw.so.6
    #2  0x00007ffff7fa614c in newterm_sp () from .../lib/libncursesw.so.6
    #3  0x00007ffff7fa65b9 in newterm () from .../lib/libncursesw.so.6
    #4  0x00007ffff7fa2970 in initscr () from .../lib/libncursesw.so.6
    #5  0x0000000000403dc2 in main (argc=<optimized out>, argv=0x7fffffffcea8) at main.c:574

This is due to a conflict between libtinfo.so and libtinfow.so. Both are
linked into cscope:

    $ ldd $(which cscope)
    /bin/bash: .../lib/libtinfo.so.6: no version information available (required by /bin/bash)
        linux-vdso.so.1 (0x00007fff5dbcb000)
        libncursesw.so.6 => .../lib/libncursesw.so.6 (0x00007f435cc69000)
        libtinfo.so.6 => .../lib/libtinfo.so.6 (0x00007f435cc2c000)
        libc.so.6 => /lib/x86_64-linux-gnu/libc.so.6 (0x00007f435ca29000)
        libtinfow.so.6 => .../lib/libtinfow.so.6 (0x00007f435c9e8000)
        /lib64/ld-linux-x86-64.so.2 (0x00007f435cca7000)

Specifically linking libtinfow.so instead of libtinfo.so resolves the
issue.

All instances of '...' above represent the path to the installed ncurses
for Spack.
2020-06-12 12:29:43 -07:00
Sinan
f44a93e4f7
New package: alps (#17023) 2020-06-12 12:27:40 -07:00
Harsh Bhatia
cb20f0152c
pygpu: fix linking with gpuarray (#17033)
* add build_ext_args to link pygpu with gpuarray
* libgpuarray: add version 0.7.6
2020-06-12 12:20:57 -07:00
Harmen Stoppels
804b6f2483
libtree package: add version 1.2.0, 1.1.4, and 1.1.3 (#17035) 2020-06-12 11:39:40 -07:00
Matthias Diener
c4756159f3
New package: clinfo (#17042) 2020-06-12 11:37:34 -07:00
Axel Huebl
42e6cb769e
Geant4 +Python: fix module load (#17046)
Adding `extends('python')` makes sure that a

```
spack load -r geant4 +python
python -c "import Geant4"
```

find the module.
2020-06-12 11:28:05 -07:00
Axel Huebl
34fb4b30dc
libffi 3.3: float128 ppc patch (#17043)
Apply a patch to fix builds on Power7 and 8, wrongly requesting
float128 support.

Upstream patch: libffi/libffi#561
2020-06-12 11:25:06 -07:00
Adam J. Stewart
4e39dc7174 readline: fix linking to ncurses 2020-06-12 11:05:28 -07:00
Robert Blake
50aba2729b
New package: antimony (#17061) 2020-06-12 10:42:59 -07:00
Brian Van Essen
dcd22517c7
hydrogen: add version 1.3.4 (#17066) 2020-06-12 09:53:50 -07:00
Tom Payerle
e1e455ef3f
magics: add version 4.2.4 (#17054)
* Add version 4.2.4
* Update checksum for 4.1.0
* Version @4: requires python and py-jinja2 to build
2020-06-12 09:53:08 -07:00
Michael Kuhn
f2ae9ffdf5 gcc: Add 7.5.0 2020-06-12 09:37:53 -07:00