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Author SHA1 Message Date
Greg Lee
3df0f1902d clean up suitesparse deps 2016-07-06 12:15:20 -07:00
Greg Lee
4e27d91351 flake 8 fixes 2016-07-06 11:51:32 -07:00
Denis Davydov
57eaea2e8c oce: add 0.17.2; fix running tests 2016-07-06 20:35:59 +02:00
Paul Hopkins
61fe89bda0 Add ucs4 unicode variant to Python package 2016-07-06 18:29:54 +01:00
Denis Davydov
3d755a148b arpack-ng: fix binaries for macOS 2016-07-06 18:30:38 +02:00
alalazo
379f23be02 swiftsim : fixed configuration for metis 2016-07-06 17:51:46 +02:00
Denis Davydov
c8fc56686c arpack-ng: fix corrupted parpack_cmake.patch 2016-07-06 13:42:59 +02:00
Denis Davydov
63e45c586c arpack-ng: flake8 fixes and minor update of incode comments 2016-07-06 13:27:02 +02:00
Denis Davydov
a47b3ba01b arpack-ng: use spec['mpi'].mpif77 2016-07-06 13:23:51 +02:00
Denis Davydov
f5f7abd71f arpack-ng: add 3.4.0 with cmake build 2016-07-06 12:59:42 +02:00
Greg Lee
4c063c6055 kludge to get suite-sparse-4.5.1 to link with -lstdc++ 2016-07-05 13:48:32 -07:00
Greg Lee
976b2b4d25 added suitesparse version 4.5.3 2016-07-05 13:45:22 -07:00
Erik Schnetter
79b3ef0362 Don't enforce hdf5~mpi 2016-07-05 10:58:11 -04:00
alalazo
55c4a676ad gts : added package 2016-07-05 14:30:48 +02:00
Todd Gamblin
d687e332ad Fix compile bugs for gcc on Mac OS X with macports. 
- add macports to things that are cleaned out of the environment.
- linker incompatibilities cause issues with packages like OpenSSL.
- also clean up NOQA stuff in OpenSSL
 2016-07-04 22:59:02 -07:00
Todd Gamblin
f2a692c515 Merge pull request #1163 from epfl-scitas/fixes/reserved_name_for_system_packages 
fixes : reserved name for system packages
 2016-07-04 21:25:50 -07:00
Todd Gamblin
d166c04db5 Merge pull request #1166 from glennpj/rstan 
New package - RStan
 2016-07-04 21:23:10 -07:00
Todd Gamblin
1de675e976 Merge pull request #1165 from robertdfrench/ruby-needs-ffi-zlib 
Ruby 2.2.0 needs ffi and zlib
 2016-07-04 21:22:38 -07:00
Glenn Johnson
d5abcc5c88 Fix flake errors 2016-07-04 17:55:10 -05:00
Glenn Johnson
519b760222 New package - RStan 
This PR creates the RStan package and its dependencies.
 2016-07-04 17:30:05 -05:00
Robert D. French
53bbbfbe21 Require libffi, zlib; Make Openssl, readline optional 2016-07-04 15:21:13 -04:00
Nicolas
85982017b6 Revert "Corrected the shared libraries and tests in mumps package" 2016-07-04 18:19:09 +02:00
alalazo
861f174f66 qa : fixed flake8 issues 2016-07-04 10:26:32 +02:00
alalazo
3e8391458c openssl : changed tag for system reserved versions fixes #1150 2016-07-04 10:25:20 +02:00
Todd Gamblin
890df7153a Merge branch 'efischer/160311-StagedPackage' of https://github.com/citibeth/spack into citibeth-efischer/160311-StagedPackage 2016-07-04 00:27:32 -07:00
Glenn Johnson
729f23b432 Use Executable to set script 
Use `Executable("./install.sh")` to set `install_script`. This allows it
to work when the current directory is not on the PATH.
 2016-07-01 22:13:40 -05:00
Tzanio Kolev
137db14b75 Update package.py 2016-06-30 15:40:02 -07:00
Tzanio
d3b0cb56b7 Updating MFEM package with v3.2 info. 2016-06-30 15:23:30 -07:00
Elizabeth Fischer
50ac98bc04 Merge remote-tracking branch 'upstream/develop' into efischer/160630-StagedPackage 
# Conflicts:
#	lib/spack/docs/packaging_guide.rst
#	lib/spack/spack/package.py

Mostly minor/formatting issues in lib/spack/spack/package.py (the heavyweight merge was already done recently).  Only one serious issue: it looks like the feature branch had accidentally deleted the line `spack.hooks.post_install(self)`.  This got added back in from develop.
 2016-06-30 09:13:24 -04:00
Todd Gamblin
a7b8cb6901 Merge pull request #1145 from davydden/pkg/petsc_tests 
petsc: run a test
 2016-06-30 01:58:35 -07:00
Denis Davydov
6f4b0e9bda petsc: fix flake8 and ~mpi case in tests 2016-06-30 08:22:01 +02:00
Denis Davydov
37728afada petsc: run a test 2016-06-30 00:19:50 +02:00
Adam J. Stewart
2fcaa011ce Add py-restview package 2016-06-29 12:57:58 -05:00
Todd Gamblin
7df89896f4 Merge pull request #1113 from davydden/octave_extensions 
Octave extensions
 2016-06-29 00:38:05 -07:00
Todd Gamblin
0fd58fb585 Merge pull request #1133 from davydden/pkg/dealii_fix_tests 
dealii: run more unit tests when building @dev
 2016-06-28 10:02:43 -07:00
Denis Davydov
32c801bbf6 dealii: run more unit tests when building @dev 2016-06-28 18:06:56 +02:00
Todd Gamblin
ad48ad7586 Merge pull request #1131 from epfl-scitas/fixes/swift_git_environment_variables 
fix : swiftsim will set git environment variables in the appropriate hook
 2016-06-28 09:05:26 -07:00
alalazo
5cdd37959a swiftsim : substituted tag with corresponding commit 2016-06-28 18:03:28 +02:00
Todd Gamblin
6810965457 Merge pull request #1130 from davydden/gmsh 
Gmsh -- various fixes
 2016-06-28 08:49:06 -07:00
alalazo
18612eca59 qa : fixed flake8 issues 2016-06-28 12:59:13 +02:00
alalazo
48888b0f8e swift : setting environment variables in the right place 2016-06-28 12:57:19 +02:00
Denis Davydov
c4c167c1ca octave: rename executable Octave to octave 2016-06-28 11:25:45 +02:00
Denis Davydov
51b0f53b33 gmsh: flake8 fixes 2016-06-28 10:50:35 +02:00
Denis Davydov
06e38d2ca2 gmsh: various fixes 
(i) add new version
(ii) add OCE, PETSc and SLEPc as dependencies
(iii) fix Blas/Lapack configuration
(iv) disable internal Metis which does not compile
 2016-06-28 10:33:25 +02:00
Todd Gamblin
793c9f5546 Merge pull request #1116 from mwilliammyers/package-lrzip 
Add package lrzip & its dependency lzo
 2016-06-27 22:32:57 -07:00
mwilliammyers
9bb918915f Add package lrzip & its dependency lzo 2016-06-27 15:19:13 -06:00
Todd Gamblin
d7c2f683d9 Merge pull request #1004 from UCL-RITS/bare-eigen 
Option to install eigen without dependencies
 2016-06-27 13:35:35 -07:00
Nicolas Richart
9026fb8e8a Corrections for PETSc 3.7 and detection of PETSC version to enable TAO 2016-06-27 20:52:05 +02:00
Todd Gamblin
3ea9d1e665 Merge pull request #1122 from LLNL/bugfix/newarch-sys_type 
Bugfix/newarch sys type
 2016-06-27 10:07:03 -07:00
Todd Gamblin
bf4eeb48b9 Merge pull request #1099 from adamjstewart/fixes/hdf5 
Fix self-check for hdf5@1.10.0-patch1
 2016-06-27 09:47:17 -07:00
Todd Gamblin
76458f5bfc Merge pull request #1002 from epfl-scitas/packages/foam-extend 
Package foam-extend
 2016-06-27 09:40:49 -07:00
Denis Davydov
0faa6dd753 octave: make extendable and add a package 2016-06-27 13:44:58 +02:00
Todd Gamblin
305d5698df Rename spack.architecture.sys_type() to spack.architecture.platform() 2016-06-27 02:19:08 -07:00
alalazo
13fcb3c083 swift : renamed swiftsim 2016-06-27 09:25:58 +02:00
alalazo
f3f309a22a Merge branch 'develop' of https://github.com/LLNL/spack into packages/swift_durham 2016-06-27 09:08:37 +02:00
Todd Gamblin
a1db306a0c Merge pull request #1009 from epfl-scitas/packages/emacs 
Emacs: adding dependencies to be able to build without the system libs
 2016-06-26 22:46:45 -07:00
Todd Gamblin
bad32724ec Merge pull request #1092 from adamjstewart/features/netcdf-f 
Add latest version of netcdf-fortran and curl
 2016-06-26 22:38:00 -07:00
Todd Gamblin
8b35940857 Merge pull request #1103 from adamjstewart/features/mpi 
Add MPI environment variables to packages
 2016-06-26 22:35:39 -07:00
Todd Gamblin
f86f6c6274 Merge pull request #1104 from mwilliammyers/py-protobuf 
Add new package py-protobuf
 2016-06-26 22:28:57 -07:00
Todd Gamblin
7d85902f37 Merge pull request #1093 from eschnett/eschnett/julia-update 
Update Julia to 0.4.6
 2016-06-26 22:28:33 -07:00
Todd Gamblin
c096aa9557 Merge pull request #997 from glennpj/glib_gcc 
Get glib to compile with gcc-6.1
 2016-06-26 22:28:07 -07:00
Nicolas Richart
f3accb111e correcting flake8 2016-06-27 01:23:14 +02:00
Nicolas Richart
7cf1313572 changes to use from_sourcing_file 2016-06-27 00:55:26 +02:00
alalazo
9de0503188 qa : flake8 issues 2016-06-26 22:00:10 +02:00
alalazo
11863d2de3 packages : moved adios and mxml into builtin repo 2016-06-26 21:56:06 +02:00
alalazo
a2ba60f6a8 qa : flake8 issues 2016-06-26 17:38:48 +02:00
alalazo
e5b36583b5 swift : added package 2016-06-26 17:36:53 +02:00
alalazo
acd9014553 autotools : set Executable() in dependent modules 2016-06-26 17:36:33 +02:00
mwilliammyers
2c6c21a3bf Add new package py-protobuf 2016-06-23 15:54:20 -06:00
Adam J. Stewart
8921bf4552 Add MPI environment variables to packages 2016-06-23 10:08:40 -05:00
Adam J. Stewart
d566510a40 Flake8 and url_for_version fixes 2016-06-22 15:22:42 -05:00
Adam J. Stewart
3f4bf04dde Fix self-check for hdf5@1.10.0-patch1 2016-06-22 14:40:51 -05:00
Erik Schnetter
c904a42c5b Address flake errors 2016-06-22 11:09:45 -04:00
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