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1823 commits

Author SHA1 Message Date
Adam J. Stewart
b66f5b6231 Add latest version of cURL 2016-06-22 10:05:20 -05:00
Erik Schnetter
e398c0dc5b Update Julia to 0.4.6 2016-06-22 11:00:00 -04:00
Adam J. Stewart
060fb596f7 Add latest version of netcdf-fortran 2016-06-22 09:52:17 -05:00
Nicolas Richart
97feca0888 Merge branch 'develop' into packages/foam-extend 2016-06-22 14:51:57 +02:00
Todd Gamblin
e41d67e031 Merge pull request #1078 from adamjstewart/features/pillow 
Allow py-pillow to link to Spack-built libraries
 2016-06-22 01:11:25 -07:00
Todd Gamblin
8b5467e65d Merge pull request #1049 from glennpj/newR_database 
New R database packages
 2016-06-21 13:23:58 -07:00
Adam J. Stewart
a7ffb2c1a4 Flake8 2016-06-21 15:21:53 -05:00
Todd Gamblin
bbe2db5814 Merge pull request #1087 from LLNL/bugfix/new-harfbuzz-fix 
Bugfix/new harfbuzz fix
 2016-06-21 13:10:50 -07:00
Adam J. Stewart
66089c89aa Depend on pil 2016-06-21 14:55:49 -05:00
Adam J. Stewart
2efc67da60 Remove +tk variant, provide pil 2016-06-21 14:50:33 -05:00
Gregory L. Lee
e0fbf14f99 consolidated f2py regex 2016-06-21 09:23:58 -07:00
Gregory L. Lee
8f3954c1bd flake 8 fixes for cairo, freetype, and harfbuzz 2016-06-21 08:47:22 -07:00
Gregory L. Lee
4041f45b6c fixed conflicts in python package 2016-06-21 08:47:11 -07:00
Todd Gamblin
f18e1a9371 Merge branch 'features/cantera' of https://github.com/adamjstewart/spack into adamjstewart-features/cantera 2016-06-20 23:53:48 -07:00
Glenn Johnson
77cd474a2d Make all packages lowercase. 2016-06-20 20:10:44 -05:00
alalazo
b86e3047f3 openmpi : revert part of #1079 (OpenMPI can be built without fortran) 
Building OpenMPI without fortran is possible, and was already handled.
 Raising an install error we effectively renounce at clang+OpenMPI.

 build_environment : sets 'CC', 'CXX', and similar variables only if a compiler is found
 2016-06-20 20:46:11 +02:00
Todd Gamblin
f74d4b0660 Merge pull request #1052 from adamjstewart/features/psi4 
Add Psi4 Package
 2016-06-20 10:49:45 -07:00
Todd Gamblin
9b299cb2bb Merge pull request #1023 from epfl-scitas/packages/mumps 
Corrected the shared libraries and tests in mumps package
 2016-06-20 10:48:12 -07:00
Todd Gamblin
cec283f608 Merge pull request #1059 from epfl-scitas/packages/mpi_wrappers_with_rpath 
MPI : have wrappers set RPATH instead of RUNPATH
 2016-06-20 10:47:24 -07:00
Todd Gamblin
c2d0870924 Merge pull request #1063 from eschnett/eschnett/openmpi-1.10.3 
Update OpenMPI to 1.10.3
 2016-06-20 10:45:56 -07:00
Todd Gamblin
31bb47356f Merge pull request #1022 from glennpj/r-devtools 
new package: r-devtools
 2016-06-20 10:34:23 -07:00
Todd Gamblin
b3881701c5 Merge pull request #1021 from glennpj/packrat 
new package: r-packrat
 2016-06-20 10:33:55 -07:00
Todd Gamblin
0fbd2fe224 Merge pull request #1000 from glennpj/new_R 
Add version 3.3.0 of R and extensions
 2016-06-20 10:33:43 -07:00
Todd Gamblin
c09111bbef Merge pull request #1053 from davydden/pkg/dealii_suite_update 
update Petsc, Slepc, Trilinos, Superlu-dist and deal.II
 2016-06-20 10:32:52 -07:00
Todd Gamblin
8047edfb56 Merge pull request #1029 from adamjstewart/features/armadillo 
Add Armadillo and SuperLU packages
 2016-06-20 10:29:29 -07:00
Todd Gamblin
265b9bcb0f Merge pull request #1076 from JRWynneIII/ferret 
Added spec to build Ferret
 2016-06-20 10:28:42 -07:00
Adam J. Stewart
c9eb5f8173 Use non-checksummed PyPi download URLs 2016-06-20 12:24:45 -05:00
Adam J. Stewart
7e1ee463ca Install examples for sundials 2016-06-20 12:24:45 -05:00
Adam J. Stewart
81ac3b62fc Filter compilers and link boost properly 2016-06-20 12:24:45 -05:00
Adam J. Stewart
a21e845ce7 Flake8 2016-06-20 12:24:45 -05:00
Adam J. Stewart
2220784eda Add scons support, .zip support, and Cantera package 2016-06-20 12:24:45 -05:00
Todd Gamblin
12b9d6da10 Merge pull request #1083 from robertdfrench/tmux-2.2 
Tmux 2.2
 2016-06-20 09:36:55 -07:00
Robert.French
83b0c16728 Tmux 2.2 with PEP8 
Tmux 2.2

Provide variant to skip utempter

Remove utempter variant; 2.2 doesn't need it

Flake8ify
 2016-06-20 16:26:49 +00:00
Denis Davydov
cf4a34c657 openmpi: raise an error without Fortran compiler 2016-06-19 11:59:29 +02:00
Denis Davydov
1cc04cff27 openblas: raise an error without Fortran compiler 2016-06-19 11:59:10 +02:00
Adam J. Stewart
652a5eb592 Allow py-pillow to link to Spack-built libraries 2016-06-17 18:09:03 -05:00
Todd Gamblin
62b2f2a7c9 Merge pull request #1065 from epfl-scitas/packages/espresso_update 
espresso : update to 5.4.0
 2016-06-17 14:51:45 -07:00
Todd Gamblin
9a8d109650 Merge pull request #1044 from adamjstewart/features/sncosmo 
Add py-sncosmo package
 2016-06-17 14:50:37 -07:00
Todd Gamblin
0bbbfc2ef7 Merge pull request #946 from LLNL/features/intel2 
Intel software packages and license enhancements
 2016-06-17 14:28:39 -07:00
Adam J. Stewart
536fa73d5f Python flake8 overhaul 2016-06-17 13:33:09 -05:00
Robert D. French
448f8c43d4 Added working Ferret spec 
Fixed ferret spec. It builds now

Made ferret spec more flake8-y

Fixed homepage and info text about Ferret

Removed vim swap file

Reverted changes to netcdf-fortran spec and added netcdf~mpi dependency to ferret spec to compensate for it

Fixed flake8 issues!
 2016-06-17 14:23:50 -04:00
Adam J. Stewart
80d444624b Fix activation of sites.py for sncosmo 2016-06-17 11:08:16 -05:00
Adam J. Stewart
24f65c502e Add additional Astropy dependencies 2016-06-17 10:45:10 -05:00
Adam J. Stewart
b2aa78d6ab Remove version constraints 2016-06-17 10:45:10 -05:00
Adam J. Stewart
4eeaff175c Allow packages to build 2016-06-17 10:44:28 -05:00
Adam J. Stewart
a660c60eb1 Add py-sncosmo package 2016-06-17 10:43:34 -05:00
Glenn Johnson
8970785d33 Add 'jdk' as a dependency. 
Add jdk as a dependency so that R has support for java and allow
packages that need java to work.
 2016-06-16 23:08:55 -05:00
Glenn Johnson
a813f03955 Add list_url for old versions. 2016-06-16 23:08:55 -05:00
Glenn Johnson
4850b9d4d1 Make install comment consistent with actual call. 2016-06-16 23:08:55 -05:00
Glenn Johnson
7da405e630 Add validator for bioconductor packages 
This commit adds a validator function to make sure the versions of R and
bioconductor are in sync.
 2016-06-16 23:08:55 -05:00
Glenn Johnson
7213b12324 Tweak how R packages are built. 
Add bzip2 as a dependency to base R.

Switch from installing the R packages from tar files to installing from
the extracted directory. This is more in line with a standard install
and also allows installing from VCS.

Use the Bioconductor version for BiocGenerics and future Bioconductor
packages. Suffix the package with 'bioc-$version' to indicate which
Bioconductor release the package is a part of. This is actually more
important than the actual version attached to individual packages
although those are subject to change within the Bioconductor branch.
 2016-06-16 23:08:55 -05:00
Glenn Johnson
0e64c25ffc Fix flake8 errors 
Use Bioconductor provided Short URL for homepage in BiocGenerics.
Wrap description text for utf variant in pcre.
 2016-06-16 23:08:54 -05:00
Glenn Johnson
37dc13edaf Update version of BiocGenerics 
The BioConductor repositories only keep the most recent version so this
has to be bumped.
 2016-06-16 23:08:54 -05:00
Glenn Johnson
8704a4ed35 Use configure_args rather than options 
Replaced 'options' with 'configure_args'. That seems like a better name
and is consistent with the packaging guide.
 2016-06-16 23:08:54 -05:00
Glenn Johnson
fe256870b4 Add variant for UTF support to pcre 
This will build PCRE with UTF support by default. That seems to be
reasonable for most environments.
 2016-06-16 23:08:54 -05:00
Glenn Johnson
cb3505769b Clean up R extensions 
Run the existing R extension packages through autopep8 to clean up.
 2016-06-16 23:07:13 -05:00
Glenn Johnson
6649f9edc2 Add version 3.3.0 of R 
This commit adds the 3.3.0 version of R and adds dependencies on curl
and pcre.
 2016-06-16 23:07:13 -05:00
Glenn Johnson
64acbbfcf0 Clean up R package files 
- remove unused imports
- apply pep8
- reformat text strings
 2016-06-16 23:07:13 -05:00
Todd Gamblin
9ee6cbfb40 Merge pull request #944 from adamjstewart/features/bertini 
Add bertini package
 2016-06-16 16:57:50 -07:00
Todd Gamblin
344280154a Merge pull request #962 from adamjstewart/features/hpl 
Add HPL benchmark package
 2016-06-16 16:57:24 -07:00
Todd Gamblin
88b73bacdb Merge branch 'features/newarch' into develop 
Conflicts:
	lib/spack/spack/config.py
	var/spack/repos/builtin/packages/lua/package.py
 2016-06-16 03:03:26 -07:00
alalazo
a1cbb73f8b qa : fixed flake8 issues 2016-06-16 11:24:18 +02:00
alalazo
8d9ffcf565 espresso : updated to 5.4.0, added Parallel=False 2016-06-16 11:22:26 +02:00
Todd Gamblin
76dfaa71a7 fix up packages for new architecture. 2016-06-16 01:47:20 -07:00
Todd Gamblin
40d25d9062 Add libxcb dependencies. Fix up packages to get py-basemap and stat to build. 2016-06-16 00:56:53 -07:00
Erik Schnetter
a7ab064a9e Update OpenMPI to 1.10.3 2016-06-15 18:05:23 -04:00
Massimiliano Culpo
daa46105a7 mpich based providers : shortened filter_compilers 2016-06-15 21:37:12 +02:00
Adam J. Stewart
44e188f111 Remove MPI support, fix INCLUDE filters 2016-06-15 14:17:30 -05:00
Adam J. Stewart
7b97ea248a More template filtering 2016-06-15 14:17:29 -05:00
Adam J. Stewart
9cf1257be4 Filter compilers 2016-06-15 14:17:29 -05:00
Adam J. Stewart
deb4f919cf Psi4 tweaks 2016-06-15 14:17:29 -05:00
Adam J. Stewart
9d99042fed Add Psi4 package 2016-06-15 14:17:29 -05:00
Denis Davydov
0e04e65ae0 trilinos: specify superlu-dist version dependency 2016-06-15 18:44:59 +02:00
Denis Davydov
5fe531050c flake8 fixes for dealii 2016-06-15 18:33:34 +02:00
Denis Davydov
e76083205f flake8 fixes for slepc 2016-06-15 18:33:08 +02:00
Denis Davydov
6390acc660 flake8 fixes for petsc 2016-06-15 18:32:42 +02:00
Denis Davydov
6d714e4425 flake8 fixes for superlu-dist 2016-06-15 18:31:39 +02:00
Denis Davydov
d0d83cfe1e slepc: build by default with Arpack 2016-06-15 18:21:13 +02:00
Denis Davydov
d04dc8440f dealii: specify petsc/slepc version dependencies 2016-06-15 18:21:13 +02:00
Denis Davydov
4d40f86bd3 trilinos: add 12.6.2 and 12.6.3 2016-06-15 18:21:13 +02:00
Denis Davydov
5358ffbe5a slepc: add 3.6.3 and 3.7.1; specify petsc version dependency 2016-06-15 18:21:13 +02:00
Denis Davydov
9ceb8fea78 petsc: add 3.6.4 and 3.7.2; specify superlu-dist version dependency 2016-06-15 18:21:13 +02:00
Denis Davydov
a860a3d614 superlu-dist: avoid harcoding blas/lapack/mpi; remove preferred version 2016-06-15 18:21:13 +02:00
Todd Gamblin
c803f7ae98 Merge pull request #1045 from eschnett/eschnett/openmpi-verbs-usr 
Do not pass "/usr" or "/usr/local" as path to configure
 2016-06-15 09:06:12 -07:00
Todd Gamblin
4ede87a8b0 Merge pull request #1058 from eschnett/eschnett/blosc 
Add packages c-blosc and hdf5-blosc
 2016-06-15 09:04:48 -07:00
Todd Gamblin
9dd1f2747a Merge pull request #1028 from JRWynneIII/boost-graph-parallel-fix 
Add variant for boost graph and parallel graph
 2016-06-15 09:03:01 -07:00
Todd Gamblin
08badb5a35 Merge pull request #1040 from KineticTheory/pkg-trilinos 
Make Boost an optional feature of Trilinos.
 2016-06-15 08:57:38 -07:00
Todd Gamblin
ff3469385b Merge pull request #1037 from KineticTheory/develop 
Package serf also depends on zlib.
 2016-06-15 08:57:14 -07:00
Todd Gamblin
bfedeadacb Merge pull request #1031 from opoplawski/pcre 
Add patch to compile pcre with Intel 16.0.3 compiler
 2016-06-15 08:56:53 -07:00
alalazo
b09bee8158 qa : fixed flake8 issues 2016-06-15 13:29:30 +02:00
alalazo
b59d4f243b openmpi, mvapich2, mpich : filtered out "--Wl,--enable-new-dtag" in wrappers, as it turns RPATH into RUNPATH 
Apart from that turned `os.path.join` into `join_path` and `os.environ` into `env` in the packages
 2016-06-15 13:21:39 +02:00
Erik Schnetter
05d7378da5 Install shared libraries correctly on Linux 2016-06-14 17:13:20 -04:00
Erik Schnetter
ca5180f7a2 Correct Blosc install on Darwin 2016-06-14 17:03:00 -04:00
Erik Schnetter
e6ec372926 Add packages c-blosc and hdf5-blosc 
c-blosc provides the Blosc compression filter, and hdf5-blosc provides a plugin for HDF5 to use that filter.
 2016-06-14 09:59:48 -04:00
Glenn Johnson
e226837d33 Fix flake8 error. 2016-06-13 23:04:26 -05:00
Glenn Johnson
8861c99333 New package - r-foreign 2016-06-13 22:50:07 -05:00
Glenn Johnson
5ba5ef6c46 Add list_url for older versions. 2016-06-13 17:50:27 -05:00
Glenn Johnson
94d0f21823 New package - r-xlsxjars 2016-06-13 17:50:06 -05:00
Glenn Johnson
4767185082 New package - r-xlsx 2016-06-13 17:48:59 -05:00
Glenn Johnson
5cd09af066 New package - r-XLConnect 2016-06-13 17:48:44 -05:00