hlrs-software-stack/spack

Author	SHA1	Message	Date
Erik Schnetter	e06a0271a4	New package h5hut (#1737 ) * New package h5hut -- High-Performance I/O Library for Particle-based Simulations * Set up MPI compilers * Add version 1.8.12 to HDF5 * Correct Sphinx error	2016-09-08 13:27:47 -07:00
Erik Schnetter	ff7c0335ff	Declare fontconfig dependency on pkg-config (#1686 )	2016-09-08 12:15:42 -07:00
Todd Gamblin	3d3d65f3f7	Merge pull request #1553 from adamjstewart/fixes/netcdf-hdf5 Fix NetCDF/HDF5 dependency resolution problems	2016-09-08 11:58:46 -07:00
Adam J. Stewart	0586b388df	Add latest version of libpng, ncview depends on libpng (#1502 ) * Add latest version of libpng * ncview depends on libpng	2016-09-08 09:02:10 -07:00
Ben Boeckel	77611913c6	qt: only pass -qt-xcb on non-OS X	2016-09-06 16:53:38 -04:00
Ben Boeckel	112122bc28	qt: progress on qt5.5 on osx Qt5.5 searches for the SDK itself and just ignores environment variables like CC and CXX, skipping the spack wrappers.	2016-09-06 16:01:16 -04:00
Ben Boeckel	fca26c0b79	qt: make -no-phonon specific to qt4	2016-09-06 16:00:22 -04:00
Ben Boeckel	67462ca65a	qt: fix pcre header conflict in javascriptcore	2016-09-06 16:00:21 -04:00
Ben Boeckel	4687860885	qt: force the 10.9 SDK on macos The 10.11 SDK fails to configure.	2016-09-06 16:00:21 -04:00
Ben Boeckel	a05a6456d5	glib: build on macos	2016-09-06 16:00:21 -04:00
Ben Boeckel	b810a113af	pixman: disable mmx	2016-09-06 16:00:21 -04:00
Ben Boeckel	3df1eeccb9	qt: setup the sdk and platform arguments	2016-09-06 16:00:21 -04:00
Ben Boeckel	71c357e485	qt: support building with 10.10+ SDKs	2016-09-06 16:00:21 -04:00
Ben Boeckel	aa9faceb03	qt: disable phonon support	2016-09-06 16:00:21 -04:00
Ben Boeckel	6075abfbdb	qt: depend on icu4c	2016-09-06 16:00:21 -04:00
Ben Boeckel	a9bfd88248	qt: depend on OpenSSL OS X doesn't come with an OpenSSL supported by Qt4.	2016-09-06 16:00:21 -04:00
Ben Boeckel	4c566617f7	qt: make libxcb a conditional dependency OS X doesn't have X (usually).	2016-09-06 16:00:21 -04:00
Ben Boeckel	5ba1144515	qt: create a dbus variant	2016-09-06 16:00:20 -04:00
Ben Boeckel	4b471ecc6e	qt: support detecting newer SDK paths	2016-09-06 15:59:46 -04:00
Robert D. French	ccfbfcc890	ITS XML Translation Tool (#1728 )	2016-09-06 06:56:13 -07:00
Jeffrey Salmond	26d45bc106	fontconfig: add --disable-docs to configure (#1729 )	2016-09-06 06:55:58 -07:00
Kelly Thompson	f0192edf0d	For OpenMPI v 2+, add a configure option to provide C++ bindings. (#1730 ) + Starting with version 2.0, OpenMPI no longer provides C++ bindings by default (libmpi_cxx.so). Add a configure option to instruct the build to also build and install libmpi_cxx.so. + This MPI feature is needed by at least one spack package (moab).	2016-09-06 06:55:37 -07:00
alalazo	d39b666913	plumed : avoid linking with libgslcblas	2016-09-06 11:21:26 +02:00
alalazo	47f6a6d3cf	Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases_rebase Conflicts: lib/spack/spack/build_environment.py lib/spack/spack/package.py var/spack/repos/builtin/packages/astyle/package.py var/spack/repos/builtin/packages/lzo/package.py var/spack/repos/builtin/packages/openjpeg/package.py var/spack/repos/builtin/packages/swiftsim/package.py	2016-09-04 10:12:52 +02:00
Massimiliano Culpo	497bbb3ae3	added package : pexsi (#1550 ) * pexsi : added package * cp2k : added pexsi (works for gcc+openmpi with and without plumed)	2016-09-03 08:13:47 -07:00
becker33	fa310c825d	Merge pull request #1704 from eschnett/eschnett/libiconf-gets Make libiconv work with C11	2016-09-02 16:46:40 -07:00
becker33	6de191a926	Merge pull request #1708 from robertdfrench/globus-toolkit Globus Toolkit	2016-09-02 15:31:34 -07:00
becker33	ea6143402f	Merge pull request #1715 from alfredo-gimenez/bugfix/vim Fix vim package.	2016-09-02 14:59:14 -07:00
Alfredo Gimenez	19102559f0	Add sbt (scala build tool) package	2016-09-02 14:15:20 -07:00
Alfredo Gimenez	817c120b1c	Fix vim package	2016-09-02 14:09:46 -07:00
Erik Schnetter	d78d18c4bd	Update OpenMPI description (#1705 )	2016-09-02 10:57:35 -07:00
Jeffrey Salmond	5146c64dfc	Fixes for the ImageMagick package. (#1709 ) * add pango dependency * add new package ghostscript-fonts & add to ImageMagick as dependency also tell ImageMagick's configure where the font dir is! * refactor to fix flake8 * add homepage to ghostscript-fonts * use install_tree * remove unneeded import	2016-09-02 10:41:35 -07:00
Erik Schnetter	c7bb523c8f	Declare qthreads dependency on automake (#1711 )	2016-09-02 10:34:07 -07:00
Robert.French	d876d9b778	Globus Toolkit	2016-09-02 16:04:26 +00:00
Erik Schnetter	9ceb3f6b49	Add two famous old versions of autoconf These old versions are often used because their immediate successors are incompatible in some way.	2016-09-02 11:23:33 -04:00
Erik Schnetter	0bd63ce8be	Make libiconv work with C11 C11 does not provide gets() any more, so we cannot reference it	2016-09-02 10:53:59 -04:00
Todd Gamblin	8d755c010d	Merge pull request #1658 from LLNL/features/git-lfs Add git-lfs package.	2016-09-01 11:58:18 -07:00
Erik Schnetter	932cd6fa19	Switch lzo download from https to http lzo's download server does not present a valid certificate, so that downloads via https are failing. Spack's MD5 checksum still ensure a safe download. Closes #1675.	2016-08-31 12:41:04 -04:00
Adam J. Stewart	1be6267149	Undo changes to trailing triple quotes in docstring	2016-08-30 16:28:55 -05:00
Adam J. Stewart	9b455e9254	Resolve new documentation issues that have cropped up	2016-08-30 15:58:22 -05:00
Adam J. Stewart	a0c8aca3a2	Remove py-mercurial, going with mercurial package instead	2016-08-30 15:35:58 -05:00
Adam J. Stewart	eb56744f4d	Fix package docstrings, #1612	2016-08-30 15:29:50 -05:00
Adam J. Stewart	7f9d098c2f	Add mercurial package, used as test dependency	2016-08-30 15:21:15 -05:00
Todd Gamblin	7e4c6afd91	Merge pull request #1412 from adamjstewart/features/cmake Overhaul of CMake package and compression libraries	2016-08-30 12:18:56 -07:00
Todd Gamblin	abd1546d86	Merge pull request #1668 from ax3l/topic-pngwriter PNGwriter: Add Spack Package	2016-08-30 10:21:27 -07:00
Axel Huebl	d2d2234def	HDF5 Dependency: Rewrite to Union @adamjstewart ``` think you'll find that if you try running something like: spack spec libsplash ^hdf5@1.8.15 It will complain that libsplash does not depend on hdf5. This is a bug in Spack's dependency resolution. A workaround for this is to tell it to always depend on hdf5. ``` @davydden ``` to expand on @adamjstewart comment, spack will make a union of dependencies, i.e. hdf5@1.8.6: + hdf5+mpi = hdf5:1.8.6:+mpi, that's why it works. ``` thank you for the hint!	2016-08-30 17:00:09 +02:00
Axel Huebl	03c4d65af1	PNGwriter: Add Spack Package Adds a package for [PNGwriter](https://github.com/pngwriter/pngwriter/), a simple high-level C++ png API used in scientific projects. ``` PNGwriter is a very easy to use open source graphics library that uses PNG as its output format. The interface has been designed to be as simple and intuitive as possible. It supports plotting and reading pixels in the RGB (red, green, blue), HSV (hue, saturation, value/brightness) and CMYK (cyan, magenta, yellow, black) colour spaces, basic shapes, scaling, bilinear interpolation, full TrueType antialiased and rotated text support, bezier curves, opening existing PNG images and more. ``` PNGwriter is a dependency for [PIConGPU](http://picongpu.hzdr.de), an open-source, many-core, fully-relativistic particle-in-cell code and further software developed at [Helmholz-Zentrum Dresden - Rossendorf](https://www.hzdr.de).	2016-08-30 12:45:53 +02:00
Axel Huebl	3aaa077c9f	libSplash: Add Spack Package Adds a package for [libSplash](https://github.com/ComputationalRadiationPhysics/libSplash), a high-level library around serial and parallel HDF5 for regular grids and particle data sets. ``` libSplash aims at developing a HDF5-based I/O library for HPC simulations. It is created as an easy-to-use frontend for the standard HDF5 library with support for MPI processes in a cluster environment. While the standard HDF5 library provides detailed low-level control, libSplash simplifies tasks commonly found in large-scale HPC simulations, such as iter- ative computations and MPI distributed processes. ``` libSplash is a dependency for [PIConGPU](http://picongpu.hzdr.de), an open-source, many-core, fully-relativistic particle-in-cell code and further software developed at [Helmholz-Zentrum Dresden - Rossendorf](https://www.hzdr.de). libSplash builds in two versions, one without MPI writing domain-decomposed posix-style HDF5 files per process and one (default) with MPI and MPI-I/O ("parallel HDF5") support aggregating into a single file per MPI communicator. libSplash is used in conjunction with [openPMD](http://openPMD.org), see also [github.com/openPMD/](https://github.com/openPMD/).	2016-08-30 12:42:39 +02:00
Todd Gamblin	47bf7ecb2b	Merge pull request #1652 from ax3l/topic-updateAdios110 Update ADIOS Package	2016-08-29 22:59:39 -07:00
Elizabeth Fischer	cf11c32720	libpciaccess: Changed libtool to a build dependency. (#1602 )	2016-08-29 22:11:27 -07:00
Axel Huebl	0f40175524	Remove Space, Enable Parallel - remove space before comma - enable parallel build again (seems to work)	2016-08-30 02:02:48 +02:00
Axel Huebl	ecacce7e07	ADIOS: Use NetCDF Prefix from spec's	2016-08-30 00:51:44 +02:00
Gregory Lee	e32247e53a	added qt-creator (#1659 )	2016-08-29 15:45:16 -07:00
Axel Huebl	37f489886e	Defaults: MPI=True, Fortran=False - ADIOS is mainly a parallel I/O library - a Fortran compiler is non-standard in a minimal install	2016-08-30 00:14:29 +02:00
Axel Huebl	b33777fd2f	RM Outdated Comments, Versions & Code	2016-08-29 23:18:31 +02:00
Axel Huebl	88254a14a7	Always External MXML; type='build' - always use `mxml` as an external dependency in spack - declare `build`-only dependencies correctly	2016-08-29 23:01:20 +02:00
Axel Huebl	e1464ece55	ADIOS: disable parallel make	2016-08-29 19:06:22 +02:00
Robert D. French	a21d3d353b	New URL scheme for newer (and older) PDTs (#1651 )	2016-08-29 10:01:04 -07:00
Axel Huebl	f2eb1c93df	ADIOS: Run Autotools First	2016-08-29 18:42:07 +02:00
Robert D. French	4095eb2196	Ole' GNU nano; Actually ran flake8 (#1649 )	2016-08-29 09:21:19 -07:00
Todd Gamblin	57033a62fa	Merge pull request #1563 from adamjstewart/features/sphinx Add all Sphinx dependencies	2016-08-29 09:08:46 -07:00
Axel Huebl	4bd863761a	Update ADIOS Package This PR updates the ADIOS package. Changes: - add latest stable release `1.10.0` - add previous versions (hashes) - add default license header - add build options (shamelessly taken from HDF5 package) - add validation for excisting FC (as in HDF5) and make optional - handle mxml dependency correctly (not required in 1.10.0+) - add `CFLAGS=-fPIC` to build shared (python) libs in ADIOS' lib - remove `-DMPICH_IGNORE_CXX_SEEK` since it is normally not required - remove `MPICC/CXX?FC` since `--with-mpi` just performs well - add transforms: - `zlib`: useful (optional) default - `szip`: optional (compile often broken) - add transports that are not as performant as the `.bp` format: - `hdf5`: non-default - `netcdf`: non-default, close #1610	2016-08-29 17:16:15 +02:00
Todd Gamblin	31cab4bae2	Merge pull request #1619 from davydden/pkg/nwchem_macos_fix nwchem: use basename for CC and FC	2016-08-29 06:51:14 -07:00
Denis Davydov	66ea42f8d7	nwchem: use basename for CC and FC	2016-08-29 15:15:23 +02:00
Todd Gamblin	f5c9a8c2ee	Merge pull request #1650 from davydden/pkg/ape_octopus_comments ape octopus: in-code comments	2016-08-29 06:02:19 -07:00
Denis Davydov	5333a799ea	octopus: in-code comments to explain compiler flags	2016-08-29 08:45:28 +02:00
Denis Davydov	90070c317d	ape: in-code comments to explain compiler flags	2016-08-29 08:45:15 +02:00
Todd Gamblin	a3f1ae8c4f	Merge pull request #1041 from adamjstewart/features/matplotlib Matplotlib Python package overhaul	2016-08-28 21:22:44 -07:00
Abhinav Bhatele	a9a29d207d	add versions 2.2rc2 and 2.1 to the mvapich2 package (#1630 )	2016-08-28 20:18:57 -07:00
Erik Schnetter	e119c32a9c	Hot-fix for qthreads (#1632 ) The download tarball for qthreads vanished. Install it from a git branch instead as temporary work-around.	2016-08-28 20:18:24 -07:00
Jeffrey Salmond	82808f944a	New package: opencoarrays (#1633 ) * opencoarrays: new package * opencoarrays: remove tests from install due to (unimportant) failures in some configurations * opencoarrays: fix flake8 errors	2016-08-28 20:17:22 -07:00
Todd Gamblin	ed365614f4	Add git-lfs package.	2016-08-28 19:27:59 -07:00
Robert D. French	974749aaf6	Provide mpi-less variant for nco (#1643 )	2016-08-28 19:15:15 -07:00
Erik Schnetter	6acfcd82b1	Update Julia to 0.5 release branch; install some Julia package as well (#1637 ) * Update Julia to 0.5 release branch; install some Julia package as well * Add comments, correct flake8 error * Correct flake8 error	2016-08-28 17:46:10 -07:00
Robert D. French	079d063c6d	Variant for building cdo without mpi (#1638 )	2016-08-28 17:43:54 -07:00
Erik Schnetter	db7c3d2de6	New package for the Mercurial (hg) version control system (#1644 ) * New package "mercurial" * Disable self-checks The self-checks require subversion, which we don't want to require.	2016-08-28 17:31:15 -07:00
becker33	e73a1a4ec3	Merge pull request #1558 from mcfadden8/mmcfadden-features/gcc-pic-libraries Added variant to gcc package to install PIC versions of libgfortran and libstdc++	2016-08-25 16:00:00 -07:00
Gregory Lee	77c24d4127	Merge pull request #1379 from LLNL/features/graphlib3 added stat 3.0 beta and added pygtk and dependent packages	2016-08-25 09:14:36 -07:00
Todd Gamblin	8170bcfcdd	Merge pull request #1574 from ARCCA/plumed-push Update plumed package to include optional modules	2016-08-25 02:45:33 -07:00
Andrew Williams	07e0da24c5	Reverted url to point to tarball rather than git tag	2016-08-25 10:21:56 +01:00
Todd Gamblin	22d2786940	Merge pull request #1580 from davydden/pkg/trilinos_url_fix trilinos: switch to github url; fix missing py-numpy dependency	2016-08-25 02:10:05 -07:00
Kelly (KT) Thompson	2ddaabed25	+ Boost: fix recipe for intel compilers. This is the same patch provided by PR #550, but rebased against the current develop branch. It also passes the flake8 checks.	2016-08-24 15:57:28 -06:00
Todd Gamblin	93cb2db531	Fix build dependency.	2016-08-24 14:10:12 -07:00
Todd Gamblin	a7e568b1d1	Merge branch 'eschnett/sympol' of git://github.com/eschnett/spack into eschnett-eschnett/sympol	2016-08-24 14:05:05 -07:00
Todd Gamblin	19bbe5e421	Merge pull request #1596 from eschnett/eschnett/git-update Update git to 2.9.3	2016-08-24 14:03:04 -07:00
Todd Gamblin	86fe78f5f1	Merge pull request #1582 from eschnett/eschnett/gcc-update Update gcc to @6.2.0	2016-08-24 14:02:54 -07:00
Adam J. Stewart	eace068788	Use self.run_tests for make check	2016-08-24 15:21:23 -05:00
Adam J. Stewart	70bb1f1707	Reduce number of variants, just use system or no-system libs	2016-08-24 14:39:05 -05:00
Todd Gamblin	e6bac6f208	Merge pull request #1613 from eschnett/eschnett/cmake-update Update cmake to 3.6.1	2016-08-24 08:49:33 -07:00
Todd Gamblin	63859bf113	Merge pull request #1575 from davydden/pkg/nwchem nwchem: add new package	2016-08-24 08:49:11 -07:00
Todd Gamblin	5cfa74801f	Merge pull request #1565 from adamjstewart/features/fftw Add latest version of fftw	2016-08-24 08:49:00 -07:00
Adam J. Stewart	5970b7a00a	Only run tests if explicitly requested	2016-08-24 10:34:20 -05:00
Erik Schnetter	41750ce70d	Update cmake to 3.6.1	2016-08-24 10:45:13 -04:00
Denis Davydov	d154f151aa	py-cclib: new package	2016-08-24 16:26:35 +02:00
Denis Davydov	6d2d5806b5	nwchem: add python module	2016-08-24 13:40:02 +02:00
Denis Davydov	dae219d5c3	nwchem: add another patch	2016-08-23 22:24:16 +02:00
Denis Davydov	459b6eae11	nwchem: add another patch	2016-08-23 22:15:38 +02:00
Erik Schnetter	3194f2001b	Update git to 2.9.3	2016-08-23 15:35:43 -04:00
Erik Schnetter	05f5ba4bf9	Correct flake8 errors	2016-08-23 14:57:29 -04:00
Erik Schnetter	73cae8d9c4	Implement review requests - use two empty lines before `class` - change version numbering scheme for packages, use `url_for_version` to make things work - specify dependency types - add comment about temporarily moved download location - update two packages to newer versions	2016-08-23 13:52:28 -04:00
Denis Davydov	52ae0ea055	trilinos: use version.dashed	2016-08-23 18:48:17 +02:00
David Beckingsale	243d516bf0	Ensure RAJA builds out-of-source	2016-08-23 08:18:26 -07:00
Denis Davydov	6500ac80e4	nwchem: fix lapack detection	2016-08-23 16:46:40 +02:00
Erik Schnetter	a2692e4ef5	sympol: Add package	2016-08-23 10:41:08 -04:00
Erik Schnetter	bdc825fc3c	cddlib: Point download url to a (more reliable) Fedora server	2016-08-23 09:59:56 -04:00
Erik Schnetter	64d3f87e60	Merge branch 'develop' into eschnett/sympol	2016-08-23 09:45:46 -04:00
Denis Davydov	7eb386e55e	nwchem: add patches	2016-08-23 14:52:18 +02:00
Denis Davydov	5da9116c06	nwchem: add scalapack; extra steps for 32bit blas/lapack	2016-08-23 11:55:00 +02:00
Denis Davydov	aca8576de4	trilinos: switch to github url; fix missing py-numpy dependency	2016-08-23 10:50:08 +02:00
Todd Gamblin	e81f3daa28	Merge pull request #1519 from mathstuf/fix-deptypes Fix deptypes	2016-08-22 21:40:25 -07:00
Erik Schnetter	7b49166f9b	Update gcc to @6.2.0 Also add some missing older version. Update download location to original GNU location.	2016-08-22 20:26:54 -04:00
Denis Davydov	a44beee172	nwchem: add new package	2016-08-23 02:22:44 +02:00
Andrew Williams	65abd279cd	Renamed intelmpi as suggested	2016-08-22 13:44:21 +01:00
Andrew Williams	87d15212eb	Cleaned branch to only include plumed package	2016-08-22 12:30:17 +01:00
Andrew Williams	226d4f04f3	Spelling tweaks and consistent quoting	2016-08-22 12:09:50 +01:00
Andrew Williams	5661afa315	Passed flake8 tests	2016-08-22 12:03:47 +01:00
Andrew Williams	0c8462723b	Found upstream plumed package and modified this one to match	2016-08-22 11:24:03 +01:00
Erik Schnetter	78685addbb	hdf5-blosc: Correct download url	2016-08-21 14:39:54 -04:00
Todd Gamblin	55b1182a4c	Merge pull request #1554 from eschnett/eschnett/hdf5-blosc hdf5-blosc: Remove commit id from version specification	2016-08-21 09:44:25 -07:00
Adam J. Stewart	d5903e4612	Flake8	2016-08-19 17:06:34 -05:00
Adam J. Stewart	f0f2c6c486	Add latest version of fftw	2016-08-19 17:05:14 -05:00
Gregory L. Lee	a177b9be8a	updated stat 3.0.0b url	2016-08-19 13:11:21 -07:00
Adam J. Stewart	835b8f246e	py-sphinx requires py-setuptools during runtime	2016-08-19 14:20:31 -05:00
Adam J. Stewart	d7873b5319	Swap lowercase for uppercase in URL	2016-08-19 14:00:50 -05:00
Adam J. Stewart	c1af0d3806	Fix binary conflicts during sphinx activation	2016-08-19 13:54:22 -05:00
Adam J. Stewart	d4e3699510	Add all Sphinx dependencies	2016-08-19 13:44:00 -05:00
Erik Schnetter	466da3afcc	Remove commented-out outdated commit id	2016-08-19 11:52:40 -04:00
Andrew Williams	90e5ccd98c	Cleaned up commented out code in intelmpi package	2016-08-19 15:01:46 +01:00
Andrew Williams	13f636ec68	Added required arguments to get plumed to build with intelmpi	2016-08-19 15:00:21 +01:00
Adam J. Stewart	28537ae7b7	Workaround until variant forwarding works properly	2016-08-18 14:40:21 -05:00
Stephen Herbein	3445a781eb	py-cffi: set LDSHARED env so that rpath is set py-cffi's .so was being built without the rpath being set. distutils looks at the LDSHARED for which compiler to use to build the final .so. Since it was not set, distutils fell back to the system provided compiler. Setting it forces the shared library to be compiled with the spack compiler (meaning that the rpath is set correctly).	2016-08-18 11:32:19 -07:00
Andrew Williams	6641f42417	Not compiling due to mpi error. Also getting this error from the command line so could be separate issue. Otherwise package definition first draft complete.	2016-08-18 13:19:36 +01:00
Erik Schnetter	296212d78d	hdf5-blosc: Remove commit id from version specification The respective commit seems to have vanished. Now using the master branch without specifying a particular commit.	2016-08-17 16:36:33 -04:00
Adam J. Stewart	4d12c5455a	Fix NetCDF/HDF5 dependency resolution problems	2016-08-17 13:03:56 -05:00
Marty McFadden	f4ec99ecb4	Added +piclibs variant for building PIC versions of libgfortran.a and libstdc++.a	2016-08-17 09:28:21 -07:00
Andrew Williams	b99e945e6d	Added variants and dependencies to plumed but I'm getting an error when trying to resolve mpi to a valid virtual package	2016-08-17 15:43:59 +01:00
Elizabeth Fischer	a733e7e303	py-pathspec: New package Related to Python unit testing.	2016-08-17 00:34:33 -04:00
becker33	7f57405eac	Merge pull request #1531 from davydden/pkg/ape ape: add new package	2016-08-16 10:52:27 -07:00
becker33	e8afbfbce7	Merge pull request #1530 from davydden/pkg/octopus octopus: new package	2016-08-16 10:49:41 -07:00
Denis Davydov	5dcc0f7802	ape: add new package	2016-08-16 19:42:32 +02:00
Denis Davydov	9509c10064	octopus: new package	2016-08-16 19:38:38 +02:00
Gregory L. Lee	f182590aae	added pkg-config to build deps of cairo and pixman	2016-08-15 15:17:53 -07:00
Gregory L. Lee	54ef9443d3	fix atk url_for_version	2016-08-15 13:51:54 -07:00
Gregory L. Lee	74dd7a36b5	allow parallel build of stat	2016-08-15 13:51:54 -07:00
Gregory L. Lee	749a4e78c7	gobject-introspection requires glib version 2.48.1	2016-08-15 13:51:54 -07:00
Gregory L. Lee	3df208efc0	stat and dependences package updates	2016-08-15 13:51:53 -07:00
Gregory L. Lee	69931996bf	added dyninst patches for stat+dysect	2016-08-15 13:51:53 -07:00
Gregory L. Lee	f9cb21e886	flake 8 fixes for dyninst	2016-08-15 13:51:53 -07:00
Gregory L. Lee	0074ecd6fa	dyninst package use spec.satisfies instead of @when	2016-08-15 13:51:52 -07:00
Gregory L. Lee	8b94937609	flake 8 fixes for stat and dependents flake 8 fixes for dyninst flake 8 fixes for dyninst flake 8 fixes for dyninst	2016-08-15 13:50:39 -07:00
Gregory L. Lee	bd8aab00e4	updated stat and added pygtk and dependent packages	2016-08-15 13:48:58 -07:00
Andrew Williams	27793d97dc	temp commit in current state	2016-08-15 16:16:00 +01:00
Ben Boeckel	9ec1c0e18e	opencv: make py-numpy a nolink dependency	2016-08-15 10:47:00 -04:00
Ben Boeckel	042666eb7e	go: mark git as also being a runtime dependency	2016-08-15 10:46:45 -04:00
Ben Boeckel	826732efec	packages: mark builddeps as type='build' Less sure about these.	2016-08-15 10:46:23 -04:00
Ben Boeckel	eb13cbe9bd	r-datatable: fix nolink dependency	2016-08-15 10:46:05 -04:00
Ben Boeckel	0d17d90b29	packages: mark builddeps as type='build'	2016-08-15 10:45:19 -04:00
Andrew Williams	3edfa390f7	Basic package file for plumed and boilerplate for external intel mpi	2016-08-15 11:19:40 +01:00
Adam J. Stewart	bc64990bc6	Replace python('setup.py' with setup_py(	2016-08-12 12:16:48 -05:00
Todd Gamblin	e1c2ea5123	Merge pull request #1342 from adamjstewart/features/cgns Add CGNS package	2016-08-12 09:19:07 -07:00
Adam J. Stewart	d4377c1293	Add Python 3.5 support, latest version of PySide	2016-08-12 09:59:38 -05:00
Adam J. Stewart	633e540a17	Use GitHub URL for ImageMagick	2016-08-11 14:13:33 -05:00
Adam J. Stewart	f147d64527	Rebase messed up flake8	2016-08-11 11:01:57 -05:00
Adam J. Stewart	04cee45ac9	Skip webengine until webkit support is added	2016-08-11 10:33:43 -05:00
Adam J. Stewart	2b0444b6f4	Latest version of pyside still has problems, add deps	2016-08-11 10:33:43 -05:00
Adam J. Stewart	b6fad65f52	Combine patch for all versions Patch doesn't work with @when unless you specify a patch for every version. When running `spack patch` for a version without a patch, spack thinks that a patch exists, tries to apply it, but it doesn't exist. Spack gets very confused.	2016-08-11 10:33:43 -05:00
Adam J. Stewart	1363b05e93	Add test dependencies	2016-08-11 10:33:43 -05:00
Adam J. Stewart	5cc76f7d84	Fix patch for py-pyside 1.2.4	2016-08-11 10:33:43 -05:00
Adam J. Stewart	59ce0c7514	Add patch to build qt 4 with GCC 6	2016-08-11 10:33:42 -05:00
Adam J. Stewart	ddf1879bed	Remove glib dependency, causes problems with PCRE and JavaScript	2016-08-11 10:33:02 -05:00
Adam J. Stewart	90dd26397c	Fix qt patch	2016-08-11 10:33:02 -05:00
Adam J. Stewart	7135299a66	Add latest version of pcre	2016-08-11 10:33:02 -05:00
Adam J. Stewart	ac15d5d619	Add patch for qt gamepad compilation problems	2016-08-11 10:33:01 -05:00
Adam J. Stewart	eac9a5905f	Flake8 and url_for_version changes	2016-08-11 10:33:01 -05:00
Adam J. Stewart	80742b2647	Add latest version of qt	2016-08-11 10:30:31 -05:00
Adam J. Stewart	8a0824df09	Update matplotlibrc filtering for GUI backends	2016-08-11 10:28:35 -05:00
Adam J. Stewart	a388871083	Update ImageMagick to latest version	2016-08-11 10:28:35 -05:00
Adam J. Stewart	2b83ea30e7	Re-add ipython support	2016-08-11 10:28:35 -05:00
Adam J. Stewart	f56de63972	Fix cycler dependencies, update qhull version names	2016-08-11 10:28:35 -05:00
Adam J. Stewart	0b8a3ad8ad	Flake8	2016-08-11 10:28:34 -05:00
Adam J. Stewart	aa6a6df640	Undo changes to GUI framework	2016-08-11 10:28:34 -05:00
Adam J. Stewart	e905ce16c9	Flake8	2016-08-11 10:28:34 -05:00
Adam J. Stewart	11e595089d	Matplotlib overhaul	2016-08-11 10:28:33 -05:00
Adam J. Stewart	b47357d73c	Add patch for Intel compilers	2016-08-11 10:22:47 -05:00
Adam J. Stewart	5fc20487e4	Flake8 and formatting changes	2016-08-11 10:22:47 -05:00
Adam J. Stewart	534e1cbf1b	Some tests don't pass with Intel compilers	2016-08-11 10:20:08 -05:00
Adam J. Stewart	ee5e20dae3	Add dependencies to libarchive and cmake	2016-08-11 10:17:42 -05:00
Adam J. Stewart	58d7704060	Overhaul of compression libraries	2016-08-11 10:15:13 -05:00
Todd Gamblin	e6a122417a	Merge pull request #1491 from eschnett/eschnett/curl Update curl to 7.50.1	2016-08-11 03:04:07 -07:00
alalazo	f5433477b9	qa : flake8 issues	2016-08-11 09:08:00 +02:00
alalazo	b4b9ebe7d7	Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases Conflicts: lib/spack/llnl/util/tty/log.py lib/spack/spack/__init__.py lib/spack/spack/cmd/install.py lib/spack/spack/cmd/setup.py lib/spack/spack/package.py var/spack/repos/builtin/packages/blitz/package.py var/spack/repos/builtin/packages/gmp/package.py var/spack/repos/builtin/packages/qhull/package.py var/spack/repos/builtin/packages/szip/package.py	2016-08-11 08:55:20 +02:00
Todd Gamblin	84e331c586	Remove unneeded noqa comments.	2016-08-10 16:33:39 -07:00
Todd Gamblin	240f1fd223	Spack packages now PEP8 compliant.	2016-08-10 16:33:39 -07:00
Erik Schnetter	158deae625	Update curl to 7.50.1	2016-08-10 13:51:57 -04:00
Matt Belhorn	2be065418b	Openssl package should not require openssl (https) to obtain source.	2016-08-09 15:57:07 -04:00
alalazo	38dcd6bce9	qa : flake8 issues	2016-08-09 09:54:24 +02:00
alalazo	5362864cc9	plumed : fixed name clash on attribute	2016-08-09 09:24:36 +02:00
Massimiliano Culpo	15d9fb1879	plumed : adding dependents * cp2k : added plumed * gromacs : patched pme load balancing * gromacs : added plumed	2016-08-09 09:23:53 +02:00
becker33	3ea1325620	Merge pull request #1345 from hartzell/feature/add-perl-dependency-to-git Add depends_on('perl'), depends_on('pcre') to git package	2016-08-08 09:44:50 -07:00
Todd Gamblin	dd30066feb	Merge pull request #1449 from hartzell/feature/add-package-for-prank Add package for prank and supporting tools	2016-08-07 23:43:40 -07:00
Todd Gamblin	e65a8b6a9a	Merge pull request #1463 from davydden/pkg/opium opium: add new package	2016-08-07 15:56:27 -07:00
Todd Gamblin	8121ac2c27	Merge pull request #1464 from hartzell/feature/update-lmod No need to patch Lmod after 6.4.4	2016-08-07 15:55:16 -07:00
Todd Gamblin	93f5a750cb	Merge pull request #1465 from glennpj/pango_url Add list_url to pango package	2016-08-07 15:55:04 -07:00
Todd Gamblin	281f6f18e1	Merge pull request #1466 from pramodk/develop PDT should download full installer package	2016-08-07 15:54:50 -07:00
Denis Davydov	db87a9d3ce	tar: fix 1.28 on macOS; add 1.29 (#1462 )	2016-08-07 15:54:01 -07:00
Adam J. Stewart	d7329d7bc2	Fix erroneously stripped trailing whitespace in patch (#1467 )	2016-08-07 15:53:25 -07:00
Pramod Kumbhar	e9edfec0ec	PDT should download full installer package pdtoolkit-X.tar.gz (default pdt-X.tar.gz is only for x86 and cray)	2016-08-07 01:14:26 +02:00
Glenn Johnson	2ad21e7070	Add list_url to pango package Added a `list_url` so the updated pango tar file can be retrieved.	2016-08-06 18:12:47 -05:00
George Hartzell	09d96bef9f	No need to patch Lmod after 6.4.4 The Lmod author changed the src so that it uses the tclsh (and shared libraries) discovered at configure time. He did it differently that I did in this patch, but he changes solve our problem too, so...	2016-08-06 17:39:05 -04:00
George Hartzell	9ebbde0e01	Make configure use our gettext library The configure script needs extra encouragement to link against our gettext/libintl library.	2016-08-06 16:28:47 -04:00
George Hartzell	1de5817b58	Clean up rebase problems My rebase duplicated the depends_on('zlib') and dropped the --with-curl from the configure. This fixes those.	2016-08-06 16:28:47 -04:00
George Hartzell	f699d7c08e	[Whitespace] Gather the depends_on's together.	2016-08-06 16:28:47 -04:00
George Hartzell	152fa33a55	Call configure `--with-libpcre=...` to use our pcre An earlier commit claimed that this package depends_on('pcre') but I didn't fix the call to configure that enabled it. This fixes that.	2016-08-06 16:28:47 -04:00
George Hartzell	3cf2fd40a8	Enable depends_on('pcre') also While I have the patient on the operating table, @adamjstewart asked me to uncomment and test the depends_on('pcre'). Did it and it Works For Me(tm).	2016-08-06 16:28:47 -04:00
George Hartzell	653905e3a2	Add depends_on('perl') to git package This commit changes the git package to depend_on('perl'). The system perl is not always sufficient to install git (e.g. a CentOS7 system with the development tools group installed has perl but not the ExtUtils::MakeMaker package that git needs) and one can't always update the system's perl. This PR depends_on PR #1339, which adds a perl package to spack.	2016-08-06 16:28:47 -04:00
George Hartzell	f800708ef3	Switch to using *std_cmake_args	2016-08-06 16:27:40 -04:00
George Hartzell	6a62a6b693	Flake8 whitespace cleanup	2016-08-06 16:27:40 -04:00
George Hartzell	a07a0ef54b	Add Bio++ tool suite and supporting libs Add the Bio++ suite and its supporting libraries.	2016-08-06 16:27:40 -04:00
George Hartzell	3c81bb44ba	Add package for mafft	2016-08-06 16:27:40 -04:00
George Hartzell	e0db1f0268	Add package for exonerate	2016-08-06 16:27:40 -04:00
George Hartzell	9e16902397	Fix name of bpp-suite (missing -...)	2016-08-06 16:27:40 -04:00
George Hartzell	63592096c5	Add package for prank	2016-08-06 16:27:40 -04:00
Denis Davydov	4983ebcf7c	opium: add new package	2016-08-06 21:35:52 +02:00
becker33	d3f115933e	Merge pull request #1451 from hartzell/feature/add-package-for-fastx_toolkit Add package for fastx toolkit	2016-08-05 15:09:46 -07:00
becker33	18d155e713	Merge pull request #1452 from hartzell/feature/add-package-for-samtools Add package for samtools	2016-08-05 15:09:41 -07:00
George Hartzell	a6afaeb974	Remove lingering FIXME commentary	2016-08-05 17:51:24 -04:00
George Hartzell	769408130a	Samtools depends on htslib from 1.3.1 onward Samtools used to (before 1.3.1) include it's own copy of htslib. Going forward, it needs to use the standalone htslib.	2016-08-05 17:47:11 -04:00
becker33	8e20a14945	Merge pull request #1453 from hartzell/feature/add-package-for-seqtk Add package for seqtk	2016-08-05 10:25:19 -07:00
becker33	f403f256ca	Merge pull request #1450 from hartzell/feature/add-package-for-bwa Add package for bwa	2016-08-05 10:21:10 -07:00
becker33	594a6710ed	Merge pull request #1442 from suraia/update-scorep-2.0 Update Score-P to 2.0 Most likely this can be generalized to link against older versions of dependencies, but it looks good for now.	2016-08-05 08:57:25 -07:00
George Hartzell	d6dedee6ff	Flake8 cleanup	2016-08-04 15:23:04 -04:00
Bruno Turcksin	0c02ee86a7	Add Trilinos 12.6.4 (#1447 )	2016-08-04 11:29:10 -07:00
George Hartzell	e12d7aadda	Add package for seqtk Seqtk is a tool for working with fast[aq] files.	2016-08-04 14:18:03 -04:00
George Hartzell	fd11db92e1	Add package for bcftools	2016-08-04 14:18:03 -04:00
George Hartzell	ba0577dc96	Update samtools to support v1.3.1 Update the samtools package to support v1.3.1, which - now uses configure script; and - now depends on external htslib package. The dependency on mpc seems to have been bogus, it's never linked in, nor is it mentioned in the source tree. I do have a version in /usr/lib64, but ldd does not sure it being linked in either.... By depending on 'ncurses' I can do away with the need for the patch.	2016-08-04 14:18:03 -04:00
George Hartzell	ef1369c365	Add package for htslib Htslib was pulled out of samtools and made into a standalone thing. This commit adds a packag for it, in support of the samtools package.	2016-08-04 14:18:03 -04:00
George Hartzell	e17862c421	Add package for fastx toolkit Tools for working with FASTA/FASTQ files.	2016-08-04 14:18:02 -04:00
George Hartzell	d5bb2955b1	Add package for libgtextutils Gordon's Text utils Library, in support of fastx toolkit.	2016-08-04 14:18:02 -04:00
George Hartzell	d4274b32f2	Make flake8 happy (long lines)	2016-08-04 14:18:01 -04:00
Michael Kuhn	d7665a63e3	flake8 fixes	2016-08-04 19:04:48 +02:00
becker33	1ac1cc3d2c	Merge pull request #1437 from jgalarowicz/update-xercesc Update the version of xerces-c, where the developers remove the old v…	2016-08-04 09:00:36 -07:00
becker33	3c6f6fc811	Merge pull request #1438 from jgalarowicz/update-libmonitor Update libmonitor to use its new github location, it does not exist w…	2016-08-04 08:59:35 -07:00
becker33	cabcdf0ec9	Merge pull request #1443 from davydden/pkg/dealii_python dealii: add optional python bindings	2016-08-04 08:43:36 -07:00
becker33	fcc8b1d3e4	Merge pull request #1431 from hartzell/feature/add-package-for-unison Add package for unison (and ocaml)	2016-08-04 08:41:45 -07:00
Denis Davydov	af8741c23c	dealii: add optional python bindings	2016-08-04 16:11:14 +02:00
Michael Kuhn	584e5506f2	Update Score-P to 2.0	2016-08-04 14:24:25 +02:00
Todd Gamblin	b7fa2c4e21	Fix #1429 : Remove git dep from gettext; break circular dependency. - It's not really a circular dependency -- git is a run dependency of gettext - We can revert this change when Spack is smart enough to make git a run dependency and build it.	2016-08-03 21:53:53 -07:00
Jim Galarowicz	2e1dbd0697	Fix flake8 errors for: Update libmonitor to use its new github location, it does not exist where the package file now points to.	2016-08-03 21:32:15 -05:00
Jim Galarowicz	e69423a154	Fix flake8 errors for Update the version of xerces-c, where the developers remove the old version, so there is no fallback.	2016-08-03 21:28:56 -05:00
Jim Galarowicz	e68b7d8c63	Update libmonitor to use its new github location, it does not exist where the package file now points to.	2016-08-03 21:08:48 -05:00
Jim Galarowicz	638f779841	Update the version of xerces-c, where the developers remove the old version, so there is no fallback.	2016-08-03 21:04:17 -05:00
George Hartzell	43371c31a2	Flake8 cleanup	2016-08-03 16:51:53 -04:00
Todd Gamblin	dce105d16f	Merge pull request #1382 from KineticTheory/gktplus3-deps GTK+3: Provide updates to package dependencies.	2016-08-03 13:45:18 -07:00
George Hartzell	4acf6d76bf	Add package for unison Add package for unison (the file synchronizer). Needs the ocaml compiler to build.	2016-08-03 16:41:31 -04:00
George Hartzell	a7bfaa3797	Add package for ocaml compiler Installs the ocaml compiler.	2016-08-03 16:41:31 -04:00
Kelly (KT) Thompson	7c46a4c0e4	Provide minor updates after code review + Always depend on the gettext package. This simplifies the logic and I no longer need to 'import sys' + Only apply the patch for the older version of glib.	2016-08-03 13:26:02 -06:00
becker33	3e6ebd577f	Merge pull request #1378 from LLNL/bugfix/gh-1324-intel-parallel-studio Bugfix/gh 1324 intel parallel studio	2016-08-03 10:46:40 -07:00
becker33	353726f08f	Merge pull request #1156 from adamjstewart/features/py-meep Add py-meep package and dependencies Merging to add the gettext support, will submit a separate issue for the LD_LIBRARY_PATH issue with MPI and py-meep	2016-08-03 10:07:05 -07:00
becker33	b9195b415a	Merge pull request #1420 from epfl-scitas/packages/plumed plumed : added package	2016-08-03 08:36:31 -07:00
alalazo	2f1c000f62	qa : flake8 issues	2016-08-03 08:26:58 +02:00
Kelly (KT) Thompson	d7d12aa2dc	One more formatting change to make flake8 happy.	2016-08-02 19:05:48 -06:00
becker33	48997cffa1	Merge pull request #1233 from hartzell/add-nextflow First cut package for nextflow, has issues	2016-08-02 11:52:19 -07:00
Denis Davydov	f90692cf81	arpack-ng: fix blas/lapack libraries	2016-08-02 20:27:34 +02:00
becker33	b5a117c923	Merge pull request #1366 from hartzell/feature/add-package-for-ack Add package for ack	2016-08-02 10:11:11 -07:00
becker33	1534a115bd	Merge pull request #1421 from hartzell/feature/add-package-for-texlive Add package for texlive	2016-08-02 10:10:43 -07:00
becker33	a03a35565e	Merge pull request #1339 from hartzell/features/add-perl Add perl package	2016-08-02 10:10:04 -07:00
George Hartzell	fa70a837d4	Remove accidentally committed cabal-install bits	2016-08-02 13:00:47 -04:00
becker33	91004158c6	Merge pull request #1243 from davydden/pkg/atlas_urls atlas: fix urls and shared libs	2016-08-02 09:59:05 -07:00
becker33	3f26bbc8b3	Merge pull request #864 from davydden/kdiff3 kdiff3: initial version of the package	2016-08-02 09:35:00 -07:00
becker33	a3322fab0a	Merge pull request #1360 from glennpj/pysetuptoolsdep Add py-setuptools dependencies to packages	2016-08-02 09:33:40 -07:00
becker33	21158195fb	Merge pull request #1354 from paulhopkins/bugfix/preferred_variants_do_not_recognise_-variant Bugfix/preferred variants do not recognise -variant	2016-08-02 09:15:06 -07:00
George Hartzell	74a181febc	Remove local copy of cpanm installer This is handled as a resource in the package now.	2016-08-02 12:13:24 -04:00
George Hartzell	4c8672ed1f	Add previous versions back into package Following the advice of @glennpj, added the old versions back into the packages. I can install the current packages and the previous packages.	2016-08-02 11:45:16 -04:00
George Hartzell	c77425bb22	Remove useless `def unpack` Before I learned that I was stumbling over a real but (#1308), I thought I needed to arrange for the fetcher to skip the unpack step. This commit removes the useful `def unpack`.	2016-08-02 11:32:19 -04:00
George Hartzell	a6605d842b	Flake8 cleanup.	2016-08-02 11:25:03 -04:00
George Hartzell	f2f5f6c279	Touch up variant comment	2016-08-02 11:18:50 -04:00
George Hartzell	c994565c62	Use "resource" machinery to manage cpanm tarball Use the resource machinery to fetch/cache/unpack/... the App::cpanminus tarball. - this hardcodes the version, I can't figure out how to use a variant to hold/set the value and access it in the resource(). - change up the install to use the `with working_dir()` meme.	2016-08-02 11:16:46 -04:00
George Hartzell	1b9becc541	Add the std spack header to perl/package.py Stole the example header from antlr/package.py, included it at the top of perl/package.py.	2016-08-02 11:16:46 -04:00
George Hartzell	08ff7b65af	Make running perl's tests conditional Make running perl's tests conditional, one must now specify the `--run-tests` flag to the `spack install` command in order to run the tests. On one system (8 core, 16GB Digital Ocean Droplet), installing without tests takes 3 minutes, with tests takes 16 minutes.	2016-08-02 11:16:46 -04:00
George Hartzell	4d72e0fb9d	Make the cpanm version a variant Rather than hard-coding the verison of `cpanm` that's [optionally] installed into the core, make it a variant with a default value of '1.7042'. Also discovered that `prefix + 'bin'` is the same as `prefix.bin`, so embetter that bit of code.	2016-08-02 11:16:46 -04:00
George Hartzell	a5a4525bed	Add perl package Add perl package, based on [work by justintoo](https://github.com/LLNL/spack/pull/105). He had too many things pulled into that pull request, this just adds a perl package. Support the current releases on the past three minor branches. Run perl's tests before installing. Install cpanm into the core (makes building on top of this perl much simpler). Controlled by a variant.	2016-08-02 11:16:46 -04:00
George Hartzell	949621eb7f	Add package for texlive	2016-08-02 11:15:42 -04:00
George Hartzell	857a03c127	Ack should depends_on('perl') Add a depends_on('perl') and rewrite the script's `#!` line to refer to that Perl's `perl` executable.	2016-08-02 11:11:05 -04:00
George Hartzell	114da813a3	Remove unnecessary imports. Now that it's sporting a cleaner install method, these imports are unnecessary.	2016-08-02 11:11:05 -04:00
George Hartzell	bf467c5df3	Remove override of `unpack(self)` I cargo culted that from my nextflow package. I [thought I] needed it to work around Spack trying to use tar to unpack something that was neither a tar ball nor unpackable. This package works fine without it. In retrospect, the error that I was seeing in the nextflow package was probably this problem #1308.	2016-08-02 11:11:05 -04:00
George Hartzell	6c3623422f	Use cleaner mech to install script Use @adamjstewart's nicer bit of python code in the install method.	2016-08-02 11:11:05 -04:00
George Hartzell	63121a0c49	Add package for ack Add a package for [ack](http://beyondgrep.com/install/). Simply install the fatpacked script. It uses '#!/usr/bin/env perl' and it very much not choosy about what perl it needs. For now just trust that there's one available, perhaps someday we can/should uncomment the depends_on('perl'). Follows the methodolgy I used in nextflow. Has the same uninstall/install problem that nextflow has, there is an issue in progress for that: https://github.com/LLNL/spack/issues/1308. Tested on CentOS7.	2016-08-02 11:11:05 -04:00
George Hartzell	12d1263980	Update several R packages (r-shiny prereqs) r-jsonlite 0.0.21 -> 1.0 r-mime 0.4 -> 0.5 rcpp 0.12.5 -> 0.12.6 CRAN is funny. The older versions of these packages are still available in package specific directories but the current version is not there, so I don't see any way to make the older versions work.	2016-08-02 11:10:41 -04:00
George Hartzell	6f332c7e4c	Fix whitespace, make flake8 happ{y,ier}.	2016-08-02 11:10:12 -04:00
George Hartzell	bfcec69630	Add standard header, use spack helpers Added the standard header (stolen from R). Touched up the install to use set_executable rather than doing it myself.	2016-08-02 11:10:12 -04:00
George Hartzell	4373a2b629	First cut package for nextflow, has issues This is my first cut at a package to support nextflow. It's also my first package. It works, but has issues. I'm going to submit a pull request and get some coaching on how to deal with it. One issue particular: if I install, then uninstall, then try to install again (which uses the cached copy of the "distribution file"), it explodes.	2016-08-02 11:10:12 -04:00
Glenn Johnson	a57d94af03	Fix flake8 issues.	2016-08-02 09:53:57 -05:00
Denis Davydov	a1703bf70d	kdiff3: add license block	2016-08-02 16:37:14 +02:00
Gilles Fourestey	dea7bbb4a0	added plumed * plumed : first version * plumed : added dependencies and docs	2016-08-02 15:06:46 +02:00
Denis Davydov	565bd5f51e	atlas: revert to lapack 3.5.0	2016-08-02 13:52:32 +02:00
Denis Davydov	bef7e2645a	atlas: flake8 fixes	2016-08-02 13:52:32 +02:00
Denis Davydov	f6a4a6b00f	atlas: add install_test	2016-08-02 13:52:32 +02:00
Denis Davydov	0c0b37800d	atlas: set (blas\|lapack)_shared_lib	2016-08-02 13:52:32 +02:00
Denis Davydov	4ecf481337	atlas: fix shared libs; set compilers	2016-08-02 13:52:32 +02:00
Denis Davydov	6f7e12d49b	atlas: fix urls and use lapack 3.6.0	2016-08-02 13:52:32 +02:00
Denis Davydov	0aa513ad70	libxau: mark pkg-config as build-type dependency	2016-08-02 13:50:46 +02:00
Denis Davydov	450c750214	kdiff3: initial version of the package	2016-08-02 13:49:40 +02:00
Denis Davydov	a4e59c2758	libxau: add missing dependency	2016-08-02 13:49:40 +02:00
Kelly (KT) Thompson	9433e84776	Formatting changes for flake8.	2016-08-01 22:54:51 -06:00
Kelly (KT) Thompson	17f0eb5148	Provide correct download urls and additional dependencies.	2016-08-01 22:10:54 -06:00
	ba11f19efc	Merge remote-tracking branch 'upstream/develop' into gktplus3-deps	2016-08-01 20:50:28 -06:00
becker33	b892cebe8a	Merge pull request #1343 from glennpj/r_unfilter R extension dependencies with compiler wrapper	2016-08-01 13:51:13 -07:00
becker33	e861e35acf	Merge pull request #1234 from mwilliammyers/package-opencv Update opencv package	2016-08-01 13:44:31 -07:00
becker33	1847aa035d	Merge pull request #1348 from glennpj/rcurl r-curl update and changed remote archive	2016-08-01 13:38:38 -07:00
becker33	94238eebfa	Merge pull request #1381 from davydden/pkg/mkl_linux MKL linux fixes	2016-08-01 13:36:10 -07:00
becker33	dc9fcea989	Merge pull request #1365 from hartzell/feature/add-package-for-tree Add package for tree	2016-08-01 13:21:09 -07:00
becker33	15514792d5	Merge pull request #1374 from hartzell/bug/fix-jdk-import-of-distutils Bug: fix jdk package's use of distutils	2016-08-01 13:20:44 -07:00
becker33	851bc506e4	Merge pull request #1367 from adamjstewart/features/pgi Add latest version of PGI	2016-08-01 13:07:35 -07:00
becker33	932300256c	Merge pull request #1413 from mdevlin1/fixes/libxsmm Fixed libxsmm package	2016-08-01 13:06:05 -07:00
becker33	6361f5c2d4	Merge pull request #1359 from sknigh/libhio added libhio package	2016-08-01 13:05:29 -07:00
Mitchell Devlin	2d51ea5da4	fixed libxsmm makefile filter	2016-08-01 14:38:16 -05:00
Adam J. Stewart	fed7ba1dab	Add latest version of PGI	2016-08-01 13:42:00 -05:00
Adam J. Stewart	ab885a5397	Allow git to depend on gettext now that it works	2016-08-01 13:35:22 -05:00
Adam J. Stewart	4014a29d2b	Use proper deptype so that spack activate works	2016-08-01 13:35:22 -05:00
Adam J. Stewart	f5aed63b0b	pkg-config should be a build dependency only	2016-08-01 13:35:22 -05:00
Adam J. Stewart	5cac0a528c	Fix undefined symbols by building shared libraries	2016-08-01 13:35:22 -05:00
Adam J. Stewart	bdb64c2e39	Tell MEEP where to find libctl	2016-08-01 13:35:22 -05:00
Adam J. Stewart	0903ae0599	Final fixes to get libctl working	2016-08-01 13:35:22 -05:00
Adam J. Stewart	1e3a5d4e26	Final fixes to get guile to build	2016-08-01 13:35:21 -05:00
Adam J. Stewart	6db99a4fe7	Rename gc => bdw-gc, fix libunistring bug	2016-08-01 13:35:21 -05:00
Adam J. Stewart	5b1a882fc2	Update meep's url_for_version	2016-08-01 13:35:21 -05:00
Adam J. Stewart	a2578c21e4	Supply flags to bdist	2016-08-01 13:35:21 -05:00
Adam J. Stewart	8d0758fc4c	Allow py-meep to link properly	2016-08-01 13:35:21 -05:00
Adam J. Stewart	880cbb2217	Better testing for MEEP	2016-08-01 13:35:21 -05:00
Adam J. Stewart	3b4820f290	Patch pkg-config and update installs for various packages	2016-08-01 13:35:21 -05:00
Adam J. Stewart	9e05fdf4a1	Bug fixes	2016-08-01 13:35:20 -05:00
Adam J. Stewart	7e53f4328f	Add py-meep package and dependencies	2016-08-01 13:35:20 -05:00
George Hartzell	7d303afd64	Address flake8 issue	2016-08-01 13:42:55 -04:00
George Hartzell	1552ed943a	Add package for cask Add a package for cask, the emacs project/dependency management tool. Based on [Homebrew's formula][brew]. [brew]: https://github.com/Homebrew/homebrew-core/blob/master/Formula/cask.rb	2016-08-01 13:41:28 -04:00
George Hartzell	31b7580b76	Fix jdk package's use of distutils See issue #1364. @citibeth's fix works fine.	2016-08-01 13:33:27 -04:00
becker33	cc3fc2ba4c	Merge pull request #1322 from mdevlin1/feature/libxsmm Add libxsmm package	2016-08-01 09:56:09 -07:00
Paul Hopkins	cca240c8f9	Add concretize_preferences tests	2016-08-01 16:18:11 +01:00
alalazo	ec09dfe5d1	cp2k : added package	2016-08-01 10:41:33 +02:00
Todd Gamblin	fbbb82259a	Merge pull request #1407 from glennpj/r-ncdf4 New package - r-ncdf4	2016-07-31 22:15:52 -07:00
Todd Gamblin	ea11aab71f	Merge pull request #1406 from glennpj/r-np New package - r-np	2016-07-31 22:15:37 -07:00
Todd Gamblin	2042c94a6c	Merge pull request #1405 from glennpj/r-survey New package - r-survey	2016-07-31 22:15:09 -07:00
Todd Gamblin	64be8a80b2	Merge pull request #1404 from glennpj/r-tarifx New package - r-tarifx	2016-07-31 22:14:56 -07:00
Todd Gamblin	7185fe2876	Merge pull request #1403 from glennpj/r-e1071 New package - r-e1071	2016-07-31 22:14:40 -07:00
Todd Gamblin	0724eba935	Merge pull request #1402 from glennpj/r-plotrix New package - r-plotrix	2016-07-31 22:14:25 -07:00
Todd Gamblin	441bb83682	Merge pull request #1401 from glennpj/r-gdata New package - r-gdata	2016-07-31 22:13:50 -07:00
Todd Gamblin	2cffc90284	Merge pull request #1400 from glennpj/r-roxygen2 New package - r-roxygen2	2016-07-31 22:13:16 -07:00
Todd Gamblin	68cedd2599	Merge pull request #1399 from glennpj/r-testthat New package - r-testthat	2016-07-31 22:12:06 -07:00
Todd Gamblin	d00fd06095	Merge pull request #1398 from glennpj/r-xml New package - r-xml	2016-07-31 22:11:38 -07:00
Glenn Johnson	8815f0a0b5	New package - r-ncdf4 Interface to Unidata netCDF (version 4 or earlier) format data files.	2016-07-31 17:12:29 -05:00
Glenn Johnson	bfd03db12a	New package - r-np Nonparametric kernel smoothing methods for mixed data types.	2016-07-31 16:18:55 -05:00
Glenn Johnson	f14eb07dc1	New package - r-survey Analysis of complex survey samples.	2016-07-31 15:50:19 -05:00
Glenn Johnson	a9cc6a7d08	New package - r-tarifx A collection of various utility and convenience functions.	2016-07-31 15:39:09 -05:00
Glenn Johnson	be2f2e42db	New package - r-e1071 Misc functions of the Department of Statistics, Probability Theory Group (Formerly: E1071), TU Wien.	2016-07-31 15:26:13 -05:00
Glenn Johnson	05e5276aec	New package - r-plotrix Various plotting functions.	2016-07-31 15:15:55 -05:00
Glenn Johnson	dbf799bbf9	New package - r-gdata Data manipulation tools.	2016-07-31 15:07:40 -05:00
Glenn Johnson	f39e570f36	New package - r-roxygen2 In-source documentation for R.	2016-07-31 14:52:16 -05:00
Glenn Johnson	58a6039c0a	New package - r-testthat A unit testing system for R.	2016-07-31 14:40:46 -05:00
Glenn Johnson	0662b953f0	New package - r-xml Tools for parsing and generating XML within R and S-Plus.	2016-07-31 14:25:17 -05:00
Glenn Johnson	1b04b8be01	New package - r-datatable Extension of Data.frame	2016-07-31 14:11:04 -05:00
Todd Gamblin	173a16b38a	Merge pull request #1396 from glennpj/r-quantmod New package - r-quantmod	2016-07-30 20:15:53 -07:00
Todd Gamblin	68ba5377c1	Merge pull request #1395 from glennpj/r-ggmap New package - r-ggmap and dependencies	2016-07-30 20:14:57 -07:00
Todd Gamblin	253507c0c3	Merge pull request #1394 from glennpj/r-maps New package - r-maps	2016-07-30 20:14:27 -07:00
Todd Gamblin	7684652ce3	Merge pull request #1393 from glennpj/r-maptools New package - r-maptools	2016-07-30 20:14:19 -07:00
Todd Gamblin	b12dc34ba7	Merge pull request #1391 from glennpj/r-caret New package - r-caret	2016-07-30 20:14:09 -07:00
Todd Gamblin	9c31ee8a75	Merge pull request #1390 from glennpj/r-glmnet New package - r-glmnet	2016-07-30 20:13:50 -07:00
Todd Gamblin	ae5ba2b110	Merge pull request #1389 from glennpj/r-vcd New package - r-vcd	2016-07-30 20:13:05 -07:00
Todd Gamblin	13499f1655	Merge pull request #1388 from glennpj/r-multcomp New package - r-multcomp	2016-07-30 20:12:51 -07:00
Todd Gamblin	49e9f365d8	Merge pull request #1387 from glennpj/r-randomforest New package r-randomforest	2016-07-30 20:12:21 -07:00
Glenn Johnson	41cd861861	New package - r-quantmod Qualitative Financial modelling framework.	2016-07-30 18:25:43 -05:00
Glenn Johnson	2913aa8d09	New package - r-ggmap and dependencies Spatial visualization with ggplot2	2016-07-30 18:14:02 -05:00
Glenn Johnson	1bd2def41e	New package - r-maps Draw geographical maps.	2016-07-30 17:34:07 -05:00
Glenn Johnson	386f0e577a	New package - r-maptools Tools for reading and handling spatial objects.	2016-07-30 17:26:31 -05:00
Glenn Johnson	7207ce2a18	New package - r-caret Classification and Regression Training	2016-07-30 16:53:54 -05:00
Glenn Johnson	20e52e5052	New package - r-glmnet Lasso and Elastic-Net Regularized Generalized Linear Models	2016-07-30 16:38:00 -05:00
Glenn Johnson	e9944150a5	New package - r-vcd Visualizing Categorical Data	2016-07-30 16:28:43 -05:00
Glenn Johnson	fc1804974c	New package - r-multcomp Simultaneous Inference in General Parametric Models.	2016-07-30 16:09:57 -05:00
Glenn Johnson	12167e8f37	New package r-randomforest Breiman and Cutler's Random Forests for Classification and Regression.	2016-07-30 15:39:28 -05:00
Glenn Johnson	8dc26bbcd9	Have R extensions build in parallel. Set `MAKEFLAGS` so R extensions can be built in parallel if that is set in spack.	2016-07-30 15:20:14 -05:00
Glenn Johnson	ee7acc6b13	New package r-car Companion to Applied Regression.	2016-07-30 15:10:25 -05:00
Kelly (KT) Thompson	6c80b15220	GTK+3: Provide updates to package dependencies. WIP: I started trying to build gtkplus@3.20, but this package has many more dependencies than v2 and it requires newer versions of existing packages. This commit provides updates for 5 packages that are required by GTK+3. This is not the complete set of changes required for GTK+3. atk - move default version from 2.14 -> 2.20. glib - move default version from 2.42 -> 2.49 - v2.49 requires pcre+utf as a new dependency. pcre - if variant +utf is selected, add '--enable-unicode-properties' to the configure options. libepoxy - new package to spack - manages OpenGL function pointers. pango - move default version from 1.36 -> 1.40	2016-07-29 09:05:44 -06:00
Denis Davydov	aad5a4c4b3	mkl: flake8 fixes; minor docu update	2016-07-29 14:12:07 +02:00
Denis Davydov	b6ce0e6f0e	trilinos: make sure hdf5 is picked up from Spack	2016-07-29 13:11:12 +02:00
Denis Davydov	943896e237	trilinos: fix lapack lib dir	2016-07-29 13:09:34 +02:00
Denis Davydov	8ee4df8101	hypre: minor cleanup related to blas/lapack	2016-07-29 11:37:19 +02:00
Denis Davydov	572f1cd427	mkl: symlink libs to prefix.lib	2016-07-29 11:36:37 +02:00
Todd Gamblin	e04662f84f	Merge pull request #1344 from LLNL/bugfix/py-nose-nosetests do not ignore nosetests script in py-nose	2016-07-28 10:19:13 -07:00
becker33	5caaa2cd75	Merge pull request #1331 from adamjstewart/fixes/mvapich2 MVAPICH2 depends on libpciaccess	2016-07-28 09:52:51 -07:00
becker33	3759f62cba	Merge pull request #1235 from davydden/pkg/p4est_run_tests p4est: use run_tests instead of a variant	2016-07-27 18:36:36 -07:00
George Hartzell	f855cf6bab	Add package for tree Add a package for [tree](http://mama.indstate.edu/users/ice/tree/). It has a Makefile that hardcodes a prefix and some CFLAGS. Used filter_file to: - set the make variable prefix to `prefix`; and - comment out their CFLAGS, just use ours.... It installs, runs on CentOS7, and uninstalls cleanly.	2016-07-27 11:32:03 -04:00
Todd Gamblin	458deaae5e	Merge pull request #1350 from adamjstewart/fixes/openssl Fix OpenSSL url_for_version	2016-07-27 08:08:00 -07:00
Greg Lee	e4525e57bb	intel parallel studio itac fixes	2016-07-25 14:02:15 -07:00
Greg Lee	dba384108b	intel parallel studio setup mkl environment	2016-07-25 14:01:49 -07:00
Samuel Knight	a2d4dcc636	Added libhio package	2016-07-25 17:32:03 +00:00
becker33	969e785d94	Merge pull request #1352 from glennpj/r_googlevis New package - r-googlevis	2016-07-25 10:25:47 -07:00
becker33	5b7ec8de95	Merge pull request #1351 from glennpj/r_htmlwidgets New packages - R htmlwidgets	2016-07-25 10:25:19 -07:00
Glenn Johnson	eb865b0df2	Add py-setuptools as dependency With the addition of dependency types and with `py-setuptools` set as type='build' there are more packages that need to have `py-setuptools` added as a dependency. This PR adds that dependency for the following packages: - py-h5py - py-networkx - py-pytables - py-scikit-image	2016-07-25 11:23:09 -05:00
Glenn Johnson	81cd458c26	r-curl update and chaged remote archive This updates to the 1.0 version of r-curl. The remote archive directory name also changed so change that here as well.	2016-07-24 16:48:07 -05:00
Glenn Johnson	27986c9edf	New packages - R htmlwidgets	2016-07-24 16:43:35 -05:00
Glenn Johnson	b7bf88c761	New package - r-googlevis	2016-07-24 16:38:36 -05:00
Adam J. Stewart	29278090eb	Fix OpenSSL url_for_version	2016-07-24 15:19:27 -05:00
Glenn Johnson	a8855f48aa	Add dependency type tp r- packages This PR adds the `nolink` dependency type to r- package dependencies. This is needed due to the new dependency types in Spack. A couple of packages were updated with new versions as well.	2016-07-23 19:43:55 -05:00
Greg Lee	773bca159a	do not ignore nosetests script in py-nose	2016-07-22 15:49:36 -07:00
Glenn Johnson	ec9959b152	R extension dependencies with compiler wrapper This commit introduces a mechanism to insure that R package dependencies are built with the Spack compiler wrapper. A copy of Makeconf is made before `filter_compilers` is called. This is then pointed to by the R_MAKEVARS_SITE environment variable set up in `setup_dependent_environment`. With this the normal compilers are used outside of spack and the spack wrapper compilers are used inside of spack. This commit also standardizes on the `join_path` call. It also sets the commented build command to reflect what is actually used with the newer string formatting.	2016-07-22 17:05:01 -05:00
Adam J. Stewart	1be486c90a	Add CGNS package	2016-07-22 17:02:45 -05:00
Todd Gamblin	395c616a48	Merge pull request #950 from xjrc/packages/python Enhancement Proposal: Make Python Spack Installs Ignore User Configuration	2016-07-22 13:56:19 -07:00
Joseph Ciurej	fa92f58167	Adding temporary script that fixes all Python extensions w/ 'setup_py'.	2016-07-22 11:17:19 -07:00
Joseph Ciurej	ac2e0962ce	Improved the build flag construction code in the python install method.	2016-07-22 11:12:02 -07:00
Joseph Ciurej	fb2d2303d6	Fixed a bug that was causing Python installs to be affected by user config.	2016-07-22 11:11:08 -07:00
Todd Gamblin	f5b4664c7c	Merge pull request #1336 from glennpj/rcase Fix alpha case of dependencies for some r-packages	2016-07-22 10:08:14 -07:00
Todd Gamblin	adffba5081	Merge pull request #1230 from hartzell/update-jdk Add URL and md5 for jdk-8u92.	2016-07-21 22:06:29 -07:00
Glenn Johnson	e083c91d5e	Fix alpha case of dependencies. A while ago I was asked to convert packages to all lowercase. That was done but some dependencies did not get converted in the specification. This commit fixes that as well as a couple of urls that need to be made explicit and a missing dependency on jdk.	2016-07-21 19:58:04 -05:00
Todd Gamblin	ed737cb2a2	Merge pull request #1333 from LLNL/features/no-openssl-pinging Remove remote website pinging from OpenSSL	2016-07-21 16:46:59 -07:00
Todd Gamblin	488550c2e6	Merge pull request #1334 from hartzell/add-gcc-5.4.0 Update gcc package with info about gcc-5.4.0	2016-07-21 16:37:31 -07:00
Todd Gamblin	8523f75e6c	Remove remote website pinging from OpenSSL - OpenSSL no longer checks remote versions on the openssl site. - Spack is used on systems that aren't connected to the internet, and this check is probably in the wrong place and affects too many commands. We can work on figuring out a better, more configurable place to put a check like this.	2016-07-21 16:35:20 -07:00
George Hartzell	4efe022165	Update with info about gcc-5.4.0	2016-07-21 15:36:22 -04:00
Mitchell Devlin	796308ed85	edit	2016-07-21 13:39:27 -05:00
George Hartzell	4c105895ab	Fix flake8 violations	2016-07-21 14:24:51 -04:00
George Hartzell	9523e50732	Fix shebang line in tcl scripts Lmod's configure script goes to the trouble of finding tclsh. This change uses that info to rewrite the #! lines in the tcl scripts so that they call the tclsh that the configure script discovered. It needs to massage the existing shebang lines into something that the sed statement in the makefile can manipulate and it needs to add the path_to_tclsh info into the set of sed statements. Checked with versions 6.4.1 and 6.3.7 (the checksum for 6.0.1 is incorrect, a fix for another time).	2016-07-21 13:58:16 -04:00
George Hartzell	52f0249c61	tcl is actually a runtime dependency. lmod uses tclsh at runtime, so adjust the depends_on accordingly (thanks @davydden!).	2016-07-21 13:51:03 -04:00
George Hartzell	a27cb639d8	The lmod package should depend_on('tcl') The lmod package needs a tclsh. Up until now it just assumed that one was available on the system. This change adds a depends_on('tcl') to the lmod package. The tcl package installs a tclsh script with an embedded version number (e.g. tclsh8.6) but the lmod configuration looks for tclsh. This change extends the tcl package to symlink tclshX.Y to tclsh in the tcl package bin directory.	2016-07-21 13:51:03 -04:00
Adam J. Stewart	cf8f14780f	MVAPICH2 depends on libpciaccess	2016-07-21 11:13:17 -05:00
Glenn Johnson	ead1b93f75	MPI related changes - Redid the code for setting the itac symlink for the cluster edition. - Removed the *PATH variables for MPI to avoid a conflict with other MPI environment modules. - Added missing test for `+all` when checking variants.	2016-07-20 20:03:05 -05:00
Glenn Johnson	0be4c7dfbd	Changes as discussed in PR review - removed unneeded entry for `debugger/gdb/intel64_mic` - set `+mpi` directory name to impi	2016-07-20 20:03:05 -05:00
Glenn Johnson	5e5e36a659	Fix flake8 errors.	2016-07-20 19:54:35 -05:00
Glenn Johnson	16f67b5bb1	Setup environment for Intel Parallel Studio Set up the environment for the Intel compilers and tools. This commit does the following: - Unset variables that were incorrect from the auto guess prefix inspections. - Add a RemovePath environment_modifications_formats for dotkit. - Set the module environment variables appropriate for the different variants. - Change the component logic so that the '+all' variant works. It was getting split by letter and leaving COMPONENTS empty. - Added a variant checking function. - Added NONRPM_DB_DIR to the silent.cfg so that the product database goes to the installation directory. - With the product database in prefix the code to remove the product database file from the home directory is no longer needed and was removed. - Reformat the 'tools' variant description. There are probably more variables needed for the '+tools' for the 'professional' product version but I do not have access to that.	2016-07-20 19:54:35 -05:00
mwilliammyers	b8444aa518	Merge remote-tracking branch 'upstream/develop' into package-opencv * upstream/develop: (126 commits) Fix indent/flake8 error. openexr : Add new package Set environment variables Added gnu packages datamash, parallel, and screen added package as argument to setup_platform_environment ilmbase : Add new IlmBase package Documented linker default fixed flake errors removed commented-out code Set default link type to dynamic on cray. Includes hooks for platform-based environment changes fixed flake errors fixed flake errors Improved cray_xc detection bug fix Improved cray_xc detection remove FIXMEs Ensure that per-4.4.1 NetCDF doesn't use HDF5 1.10 Re-ignore licenses directory Add "default" configuration scope. Draft CDO Make frontend OS on Cray machines a proper linux distro. ...	2016-07-20 18:34:53 -06:00
mwilliammyers	a09bebcaea	opencv : Add section comments	2016-07-20 18:19:59 -06:00
mwilliammyers	a9541997ae	opencv : Reorder depends_on statements	2016-07-20 18:19:03 -06:00
mwilliammyers	bd02892f7b	opencv : Use dso_suffix for python lib	2016-07-20 18:10:10 -06:00
mwilliammyers	ea9fa81ba5	opencv : Fix python include dir for cmake	2016-07-20 18:10:09 -06:00
mwilliammyers	670157b364	opencv : Add zlib cmake support	2016-07-20 18:10:09 -06:00
mwilliammyers	e5ae48a9da	opencv : Add jasper cmake support	2016-07-20 18:10:09 -06:00
mwilliammyers	47514d07b1	opencv : Use dso_suffix	2016-07-20 18:10:08 -06:00
mwilliammyers	f2e8f27c15	opencv : Add libpng cmake support	2016-07-20 18:10:08 -06:00
mwilliammyers	fc79b104f0	opencv : Add libjpeg-turbo cmake support	2016-07-20 18:10:07 -06:00
mwilliammyers	97143768c8	opencv : Add libtiff cmake support	2016-07-20 18:10:07 -06:00
mwilliammyers	d3b97227a1	opencv : Add optional jdk dependency	2016-07-20 18:10:07 -06:00
mwilliammyers	da2b695f93	opencv : Fix lib finding for python	2016-07-20 17:25:05 -06:00
mwilliammyers	10c285a774	opencv : Use string.format()	2016-07-20 17:25:01 -06:00
mwilliammyers	0654ee6a10	opencv : Fix style inconsistencies	2016-07-20 17:24:55 -06:00
mwilliammyers	8cf03c209f	opencv : Make extending python optional	2016-07-20 17:24:50 -06:00
mwilliammyers	c588ce9648	opencv : Improve cmake detecting python	2016-07-20 17:24:46 -06:00
mwilliammyers	3fac2dcc41	opencv : Fix cmake not disabling gtk	2016-07-20 17:24:40 -06:00
mwilliammyers	0080ffcf9f	opencv : Use `in` operator	2016-07-20 17:24:35 -06:00
mwilliammyers	ce902bf27a	opencv : Minor style changes	2016-07-20 17:24:30 -06:00
mwilliammyers	2cde6aaabd	opencv : Add GUI support	2016-07-20 17:24:26 -06:00
mwilliammyers	578ddea418	opencv : Fix pep8 style issues	2016-07-20 17:24:21 -06:00
mwilliammyers	cf0f5756f5	opencv : Fix python extensions issues	2016-07-20 17:24:13 -06:00
mwilliammyers	9e1d26e973	opencv : Add CUDA extensions	2016-07-20 17:23:46 -06:00
Todd Gamblin	e389afedaa	Merge pull request #1323 from glennpj/rlib Set environment variables for R	2016-07-20 15:43:26 -07:00
Todd Gamblin	b9c79824a2	Merge pull request #1313 from sknigh/gnu-tools Added packages for GNU tools screen, datamash, and parallel	2016-07-20 15:38:55 -07:00
Todd Gamblin	0777d3a5ba	Merge pull request #1326 from mwilliammyers/package-openexr openexr : Add new package	2016-07-20 15:35:36 -07:00
Mitchell Devlin	2344ffd0c7	add libxsmm package	2016-07-20 16:36:31 -05:00
Glenn Johnson	0c75174ec3	Fix indent/flake8 error.	2016-07-20 15:56:20 -05:00
mwilliammyers	e973adf84b	openexr : Add new package	2016-07-20 14:49:03 -06:00
Glenn Johnson	f9137f606f	Set environment variables This commit adds `setup_environment` to export the libraries and headers. Fixes #1314.	2016-07-20 15:37:31 -05:00
Todd Gamblin	d8acd41ba1	Merge pull request #1321 from mwilliammyers/package-ilmbase ilmbase : Add new IlmBase package	2016-07-20 13:13:21 -07:00
Todd Gamblin	8efbec3c0b	Merge pull request #1292 from eschnett/eschnett/hdf5-default-1.10 Make newest HDF5 release the default version	2016-07-20 12:57:45 -07:00
Todd Gamblin	4c7c9f4ff5	Merge pull request #1303 from adamjstewart/features/armadillo Updates to Armadillo package	2016-07-20 12:56:41 -07:00
Samuel Knight	24c14ff7a8	Added gnu packages datamash, parallel, and screen	2016-07-20 19:53:14 +00:00
mwilliammyers	c9f4e8ce5a	ilmbase : Add new IlmBase package	2016-07-20 13:13:47 -06:00
alalazo	40cb314638	Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases Conflicts: lib/spack/spack/package.py	2016-07-20 21:02:19 +02:00
Todd Gamblin	4434f482c0	remove FIXMEs	2016-07-20 09:48:54 -07:00
Todd Gamblin	3def8ef60e	Merge branch 'cdo' of https://github.com/robertdfrench/spack into robertdfrench-cdo	2016-07-20 09:48:01 -07:00
Todd Gamblin	20584ab084	Merge pull request #1302 from robertdfrench/adios-url Get adios from github, not NCCS	2016-07-20 09:47:23 -07:00
Todd Gamblin	7c28338d60	Merge pull request #1301 from robertdfrench/silver-searcher Silver Searcher 0.32 is out	2016-07-20 09:47:12 -07:00
Todd Gamblin	17a63c9646	Merge pull request #1284 from eschnett/eschnett/py-h5py.2 Declare dependency of "py-h5py +mpi" on "py-mpi4py"	2016-07-20 09:45:54 -07:00
Todd Gamblin	7f20678969	Merge pull request #1291 from eschnett/eschnett/netcdf-4.4.1 Update NetCDF to version 4.4.1	2016-07-20 09:34:14 -07:00
Erik Schnetter	69e36c9821	Ensure that per-4.4.1 NetCDF doesn't use HDF5 1.10	2016-07-20 11:25:46 -04:00
Robert D. French	6b0fb476ab	Draft CDO	2016-07-19 15:57:55 -07:00
Robert D. French	1c9cf668a1	Silver Search 0.32 is out PEP8 Love + Re-adding v0.30.0	2016-07-19 10:48:53 -07:00
Adam J. Stewart	8034536054	Fix shared object suffix for macOS	2016-07-19 12:37:34 -05:00
Adam J. Stewart	afa4cdc2d8	Updates to Armadillo package	2016-07-19 12:33:04 -05:00
Robert D. French	25e765baae	Download Adios from Github Get adios from github, not NCCS Use correct hash, thanks Ben	2016-07-19 10:31:59 -07:00
Todd Gamblin	a64a2e72cf	Merge pull request #1226 from adamjstewart/features/tkinter Add Tkinter support for Python	2016-07-19 09:41:12 -07:00
Todd Gamblin	4ad29b6c9b	Merge pull request #1262 from davydden/pkg/suite_sparse_fix_blas suite-sparse: enable TBB and fix Blas/Lapack libs	2016-07-19 09:18:42 -07:00
Erik Schnetter	71684cb071	Flex requires m4	2016-07-18 23:04:20 -04:00
Erik Schnetter	4dec06e4f4	Make HDF5 1.10 the default version Apply this only after NetCDF 4.4.1 is supported.	2016-07-18 20:14:44 -04:00
Erik Schnetter	94df1b801a	Update NetCDF to version 4.4.1 This version supports HDF5 1.10 in a backward-compatible manner.	2016-07-18 20:11:32 -04:00
Todd Gamblin	7555c3d949	Merge pull request #1204 from goxberry/cmake-3.6.0 cmake@3.6.0	2016-07-18 16:53:17 -07:00
Todd Gamblin	25a9181a1b	Merge pull request #1287 from mwilliammyers/package-jasper jasper: Add new jasper package	2016-07-18 15:43:18 -07:00
mwilliammyers	02340062b4	package - jasper - Add new jasper package	2016-07-18 16:17:07 -06:00
Todd Gamblin	607813d5ce	setuptools is a build dependency in numpy.	2016-07-18 14:13:14 -07:00
Erik Schnetter	67fade5b1e	Declare dependency of "py-h5py +mpi" on "py-mpi4py"	2016-07-18 17:08:56 -04:00
Todd Gamblin	a9ed2296a1	Merge pull request #1282 from eschnett/eschnett/py-numpy py-numpy: Add py-setuptools dependencies	2016-07-18 13:58:17 -07:00
Todd Gamblin	fa0bbb57ea	Merge pull request #1270 from davydden/pkg/mumps_scalapack_fix_blas Pkg/mumps scalapack fix blas	2016-07-18 13:57:26 -07:00
Erik Schnetter	49cd6f6269	py-numpy: Add py-setuptools dependencies Closes #1281.	2016-07-18 16:01:48 -04:00
Todd Gamblin	089189afaf	Merge pull request #1238 from davydden/pkg/mkl_update mkl: add provide blas/lapack	2016-07-18 11:52:30 -07:00
Adam J. Stewart	ea425a101a	Flake8 and new tk version	2016-07-18 07:51:08 -05:00
Adam J. Stewart	583232ea52	Build Python with Tkinter support	2016-07-18 07:51:08 -05:00
Todd Gamblin	b3789a4693	Merge pull request #1269 from davydden/pkg/hypre_trilinos_blas Pkg/hypre trilinos blas	2016-07-18 03:06:37 -07:00
Denis Davydov	2e4966c854	netlib-scalapack: use dso_suffix	2016-07-18 10:11:18 +02:00
alalazo	6c00a13ed5	Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases Conflicts: var/spack/repos/builtin/packages/swiftsim/package.py	2016-07-18 08:49:24 +02:00
Todd Gamblin	c898b9db04	Merge pull request #1188 from epfl-scitas/packages/py-numpy RPATH for blas in py numpy	2016-07-17 21:20:39 -07:00
Todd Gamblin	28ce08b9e2	Merge pull request #1258 from eschnett/eschnett/openmpi-2.0.0 Update to OpenMPI 2.0.0	2016-07-17 21:01:21 -07:00
Denis Davydov	1bd3a702c9	mumps: flake8 fixes	2016-07-16 15:14:06 +02:00
Denis Davydov	561748a063	netlib-scalapack: flake8 fixes	2016-07-16 08:03:54 +02:00
Denis Davydov	9ea4f80f15	flake8 fixes	2016-07-16 07:58:51 +02:00
Denis Davydov	0752eccfa5	mumps: don't hardcode blas name; remove unused depends_on(lapack)	2016-07-16 07:38:42 +02:00
Denis Davydov	6175ce7559	netlib-scalapack: make sure Spack's Lapack is used	2016-07-16 07:37:38 +02:00
Denis Davydov	987fb137f9	trilinos: don't hardcode blas/lapack names	2016-07-16 07:31:38 +02:00
Denis Davydov	514c61b8fe	hypre: don't hardcode blas/lapack/mpi; optionally run tests	2016-07-16 07:28:31 +02:00
Denis Davydov	96e9dbca08	suite-sparse: enable TBB and fix Blas/Lapack libs	2016-07-16 00:33:39 +02:00
Erik Schnetter	5a1ed51dcd	Correct indentation	2016-07-15 18:10:33 -04:00
becker33	c0be585b67	Merge pull request #1168 from epfl-scitas/packages/gts gts : added package	2016-07-15 14:07:59 -07:00
becker33	656b2d562f	Merge pull request #1177 from epfl-scitas/packages/swiftsim_and_metis swiftsim : fixed configuration for metis	2016-07-15 14:05:28 -07:00
becker33	f761130343	Merge pull request #1187 from paulhopkins/bugfix/python-updates Bugfix/python updates	2016-07-15 14:04:46 -07:00
becker33	f1d85ac2e9	Merge pull request #1227 from glennpj/ggvis New package - r-ggvis	2016-07-15 14:00:15 -07:00
becker33	37ce4108ce	Merge pull request #1254 from mdevlin1/features/hmmer add HMMER package	2016-07-15 13:52:56 -07:00
Erik Schnetter	4663288b49	Update to OpenMPI 2.0.0	2016-07-15 13:00:48 -04:00
George Hartzell	64b1bafd41	Make flake8 happy with .../jdk/package.py My PR for adding a new jdk version failed its travis run because of existing flake8 violoations. This package cleans them up. I'm not particularly pythonic, but most of the complaints were obvious. HOWEVER, I'm not particularly confident about handling long lines by taking an flake8 exception comment onto the end. Feedback welcome...	2016-07-15 12:39:40 -04:00
Mitchell Devlin	5f1b6f000d	add HMMER package	2016-07-15 11:03:57 -05:00
Denis Davydov	b29b7595dd	mkl: add info on interface and threading layers to the docstring	2016-07-15 17:35:10 +02:00
alalazo	893a5565fe	Merge branch 'develop' of https://github.com/LLNL/spack into features/install_with_phases Conflicts: lib/spack/spack/__init__.py var/spack/repos/builtin/packages/gmp/package.py var/spack/repos/builtin/packages/openjpeg/package.py	2016-07-15 11:02:55 +02:00
Todd Gamblin	077848fc0b	Merge pull request #378 from mathstuf/dep-types dependency types	2016-07-15 00:29:16 -07:00
Todd Gamblin	f3e9588457	Fix package name bug.	2016-07-14 23:15:54 -07:00
Gregory Becker	487ec2aff1	added py-pydatalog package	2016-07-14 23:12:35 -07:00
Todd Gamblin	b8e2799700	Add GNU Prolog package.	2016-07-14 14:38:30 -07:00
Ben Boeckel	a0584c78a8	foam-extend, sundials: add cmake as a builddep The sundials doesn't use CMake directly, but it is referenced in the patch step. I suspect it calls CMake somewhere else in its build system.	2016-07-14 16:21:47 -04:00
Ben Boeckel	d71a12438b	cantera: use nolink for python module dependencies Unsure about this, but this is probably true.	2016-07-14 16:21:47 -04:00
Ben Boeckel	39aef5fc00	lua: bring in run deps of build and run deps	2016-07-14 16:21:47 -04:00
Ben Boeckel	a82385cdae	R: look only at run dependencies of build and run deps	2016-07-14 16:21:46 -04:00
Ben Boeckel	0ca1a481a3	python: setup the dependent environment properly We want the run dependencies of all build and run dependencies of the current package.	2016-07-14 16:21:46 -04:00
Ben Boeckel	ac1701ae29	msgpack-c: add missing dependency on cmake	2016-07-14 16:21:46 -04:00
Ben Boeckel	77965ce5bf	py-matplotlib: require py-setuptools to build	2016-07-14 16:21:46 -04:00
Ben Boeckel	6fd45520da	deptypes: mark deptypes in packages	2016-07-14 16:21:46 -04:00
Ben Boeckel	45c675fe7f	spack: introduce dependency types deptypes: allow for different queries For things like Python modules, they are required for the build and runtime, but rather than adding a new parameter for what to query across the dependency DAG, just expose the recursive query parameter.	2016-07-14 16:21:46 -04:00
Ben Boeckel	bdf82246f7	darwin: explicitly use the 'when=' kwarg	2016-07-14 16:21:45 -04:00
Ben Boeckel	1ae43b3405	doxygen: add missing import	2016-07-14 16:21:45 -04:00
Denis Davydov	668b4f1b2c	mkl: set MKLROOT	2016-07-13 23:36:23 +02:00
Adam J. Stewart	3864da6300	Flake8	2016-07-13 11:45:16 -05:00
Adam J. Stewart	d09b0c95ec	Filter both makefiles to allow intel to build bzip2	2016-07-13 11:45:16 -05:00
alalazo	7cedd620f1	package.py : added CMakePackage, changed qhull, ibmisc, openjpeg to work as examples	2016-07-13 17:36:06 +02:00
Denis Davydov	de9cce3e80	p4est: flake8	2016-07-13 11:45:33 +02:00
Denis Davydov	52ca215e29	mkl: add provide blas/lapack	2016-07-13 11:42:40 +02:00
Denis Davydov	b8bd02c5b2	p4est: use run_tests instead of a variant	2016-07-13 10:56:40 +02:00
alalazo	5cc59507f7	package.py : hdf5 and lzo have examples of run_tests	2016-07-13 09:27:09 +02:00
alalazo	97c2224cd6	package.py : extra arguments, fixed inheritance issue - added attribute to hold extra arguments in PackageBase instances - fixed registration from within packages - examples : hdf5, lzo	2016-07-13 09:27:09 +02:00
alalazo	a43c63f149	package : added EditableMakefile Modifications : - added EditableMakefile to PackageBase subclasses - astyle modified as an example - preliminary hook to stop at a certain phase of install	2016-07-13 09:27:09 +02:00
alalazo	8f75d34331	package : added a stub for AutotoolsPackage, examples in szip and swiftsim	2016-07-13 09:27:09 +02:00
alalazo	8ed028e2d6	package : introduced InstallPhase, added decorators for prerequisites and sanity_checks of phases	2016-07-13 09:27:09 +02:00
George Hartzell	a73d91a2e5	Add URL and md5 for jdk-8u92. Installed on Centos7.2 system, `java -version` works.	2016-07-12 16:59:08 -04:00
Glenn Johnson	955d02049c	New package - r-ggvis Bring in ggvis and dependencies. GGvis is an implementaion of the 'Grammar of Graphics', combined with shiny.	2016-07-12 12:27:54 -05:00
Todd Gamblin	069de3f008	Merge pull request #1223 from glennpj/tidyr New package - r-tidyr	2016-07-12 00:23:09 -07:00
Todd Gamblin	04b3d8d86f	Merge pull request #1222 from glennpj/libxml2 Use the site_packages_dir from the Python class	2016-07-12 00:22:45 -07:00
Glenn Johnson	502d15fd3b	New package - r-tidyr Tools for changing the layout of data sets.	2016-07-11 21:12:28 -05:00
Glenn Johnson	5e323b052a	Remove import of os The import of `os` is no longer needed.	2016-07-11 20:21:25 -05:00
Glenn Johnson	81daaddfe9	Use the site_packages_dir from the Python class It is not necessary to set site_packages_dir in this package as it is already provided by the Python package class.	2016-07-11 20:08:30 -05:00
Todd Gamblin	15790d7018	Merge pull request #1207 from davydden/pkg/dealii_update_petsc37 dealii: update for petsc37	2016-07-11 15:32:32 -07:00
Glenn Johnson	1b08296392	Fix flake8 error	2016-07-11 17:22:31 -05:00
Glenn Johnson	8de84b5d8a	Fix error reported on Google Groups list Fixes the reported `TypeError: not enough arguments for format string` error.	2016-07-11 16:56:26 -05:00
Todd Gamblin	efdcd199c1	Merge pull request #1218 from glennpj/dplyr New package - r-dplyr	2016-07-11 13:19:09 -07:00
Glenn Johnson	d99fbbb68f	New package - r-lubridate Functions to work with date-times and timespans.	2016-07-11 14:59:47 -05:00
Glenn Johnson	11960e53ef	New package - r-dplyr This brings in dplyr and dependencies.	2016-07-11 14:50:33 -05:00
Todd Gamblin	255d05a9c1	Merge pull request #1214 from glennpj/rfilter Filter compilers for R	2016-07-11 11:37:39 -07:00
Glenn Johnson	664bdd359f	Filter compilers for R This adds a filter_compilers function to have the Makeconf file for R point to the actual compilers rather than the spack wrappers. Also added version 3.3.1.	2016-07-11 13:29:43 -05:00
Todd Gamblin	691e628726	Merge pull request #1206 from davydden/pkg/slepc_371_fix slepc: fix install_name for binaries on macOS for 3.7.1	2016-07-11 09:14:53 -07:00
Paul Hopkins	0d3a52ae29	Fix typo in Octave variant suitesparse	2016-07-11 16:00:19 +01:00
Denis Davydov	1b553f2b21	dealii: fix directory structure	2016-07-11 13:21:16 +02:00
Denis Davydov	f14cd67446	dealii: flake8 fixes	2016-07-11 10:56:57 +02:00
Denis Davydov	84afaf385f	dealii: run tests only when self.run_tests=true	2016-07-11 10:22:29 +02:00
Denis Davydov	1cc6e42682	dealii: add petsc/slepc 3.7 support	2016-07-11 10:20:15 +02:00
Denis Davydov	38550bbc1b	slepc: fix install_name for binaries on macOS for 3.7.1	2016-07-11 10:17:09 +02:00
Geoffrey Oxberry	7551e4c14f	cmake@3.6.0 Add CMake version 3.6.0.	2016-07-10 18:02:51 -07:00
Todd Gamblin	b0f4052bd8	Merge pull request #1169 from davydden/feature/install_argument_tests_petsc_fixes --run-tests install argument and petsc fixes	2016-07-09 12:10:16 -07:00
Denis Davydov	e482994a15	petsc: add -lm when building example	2016-07-09 08:12:34 +02:00
Erik Schnetter	c8137194f0	Update Cereal to 1.2.0	2016-07-08 15:20:09 -04:00
Todd Gamblin	f04258eb29	Merge pull request #1192 from SteVwonder/develop docbook-xml: replace 'cp -t' with install_tree	2016-07-08 11:09:41 -07:00
Todd Gamblin	1fa67e458c	Merge pull request #1194 from SteVwonder/lua-fix lua: switch self.version[:2] to .up_to(2)	2016-07-08 11:09:18 -07:00
Stephen Herbein	bb8a8ecda3	json-c: fix build by running serially	2016-07-08 10:39:47 -07:00
Paul Hopkins	49e8e4b590	Add comments explaining UCS4 and prevent variant being used on Python 3.3 and above	2016-07-08 13:47:25 +01:00
Stephen Herbein	1a1bf31032	lua: switch self.version[:2] to .up_to(2) Previous package would not install correctly, would throw: return os.path.join('share', 'lua', '%d.%d' % self.version[:2]) TypeError: %d format: a number is required, not Version	2016-07-07 18:58:52 -07:00
Stephen Herbein	1b53452618	docbook-xml: replace 'cp -t' with install_tree '-t' is not supported by the default cp on Mac OS X replace with install/install_tree cannot just use install_tree since shutil.copytree insists that the dst directory not exist	2016-07-07 17:41:53 -07:00
Nicolas Richart	d339f2af29	flake8 corrections	2016-07-07 18:22:27 +02:00
Nicolas Richart	4c1b53660d	fixes #719	2016-07-07 18:18:01 +02:00
Paul Hopkins	a2be05f24b	Fix whitespace	2016-07-07 14:00:37 +01:00
Paul Hopkins	719b6bfffd	Modify range for ucs4 2.* configure arguments	2016-07-07 13:18:40 +01:00
Paul Hopkins	8c1274bbbb	Fix Python configure arguments for ucs4 variant on Python 3.0 and above	2016-07-07 13:12:43 +01:00
Paul Hopkins	fb6d850637	Add more python versions	2016-07-07 13:09:08 +01:00
Todd Gamblin	6bb31a9a4c	Merge pull request #1175 from davydden/pkg/arpack-3.4.0 Pkg/arpack 3.4.0	2016-07-06 14:45:21 -07:00
Todd Gamblin	91da3d8e64	Merge pull request #1174 from LLNL/bugfix/github-1172-suite-sparse Bugfix/GitHub 1172 suite sparse	2016-07-06 14:35:59 -07:00
Todd Gamblin	c6e89d9283	Merge pull request #1180 from davydden/pkg/oce_update_and_fix oce: add 0.17.2; fix running tests	2016-07-06 14:27:05 -07:00
Denis Davydov	14cef6eab8	oce: flake8 fixes	2016-07-06 22:51:20 +02:00
Denis Davydov	c096bb332a	petsc: fix unit tests	2016-07-06 22:45:43 +02:00
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
Erik Schnetter	e43eaad557	New package porta	2016-06-19 14:11:36 -04:00
Erik Schnetter	a0c0728ea8	New package polymake	2016-06-19 13:47:26 -04:00
Erik Schnetter	b4da4425ff	Add header files to lrslib install	2016-06-19 13:47:02 -04:00
Erik Schnetter	fa471a4ed1	Add missing header files to Bliss install	2016-06-19 13:46:38 -04:00
Erik Schnetter	d8b9cda632	Build Bliss both with and without GMP	2016-06-19 12:48:47 -04:00
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
Erik Schnetter	71e92774eb	New package cddlib	2016-06-18 22:47:59 -04:00
Erik Schnetter	8fa8fc239f	New package "nauty and Traces"	2016-06-18 22:22:58 -04:00
Erik Schnetter	e5b08544ff	New package Panda	2016-06-18 22:02:36 -04:00
Erik Schnetter	2009354719	Add fourier tool to lrslib	2016-06-18 21:38:15 -04:00
Erik Schnetter	a5086f474e	New package lrslib	2016-06-18 18:03:09 -04:00
Erik Schnetter	92a7c0ddd5	Update Bliss to use -O3	2016-06-18 18:02:52 -04:00
Erik Schnetter	64aaf7ba81	New package cdd	2016-06-18 16:37:08 -04:00
Erik Schnetter	83d4cdc090	Update Bliss	2016-06-18 16:36:43 -04:00
Erik Schnetter	a07056d67b	Add Bliss package	2016-06-18 16:20:37 -04:00
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
Glenn Johnson	3c234a7d3b	New package - r-XLConnectJars	2016-06-13 17:36:50 -05:00
Glenn Johnson	450b082daf	Do not need to depend on jdk here because R itself does.	2016-06-13 17:35:35 -05:00
Glenn Johnson	427fa7fd0a	New package - rJava	2016-06-13 17:26:01 -05:00
David Boehme	52160bff18	Use https for github	2016-06-13 11:47:28 -07:00
Glenn Johnson	d398ebe21f	New package - r-RSQLite	2016-06-12 22:06:06 -05:00
Glenn Johnson	b96b32e9ec	New package - r-RPostgreSQL	2016-06-12 22:05:45 -05:00
Glenn Johnson	77e8096a6f	New package - r-RODBC	2016-06-12 22:05:26 -05:00
Glenn Johnson	bfb0985c38	New package - r-RMySQL	2016-06-12 22:05:10 -05:00
Glenn Johnson	a7a640bfb8	New package - rDBI	2016-06-12 22:04:37 -05:00
Glenn Johnson	b05a565648	New package - mariadb	2016-06-12 22:04:09 -05:00
Glenn Johnson	5d3965c7a6	New package - unixODBC	2016-06-12 22:03:24 -05:00
Glenn Johnson	7727f6fc7e	New package - libaio	2016-06-12 22:02:46 -05:00
Glenn Johnson	4dcb15cf6d	Ran through autopep8 and cleaned up.	2016-06-12 22:00:49 -05:00
Glenn Johnson	bdb9af63ed	Add version 9.5.3 and add readline as a dependency.	2016-06-12 21:58:41 -05:00
Glenn Johnson	8ff7cbb9ce	Run binutils/package.py through autopep8.	2016-06-12 21:57:03 -05:00
Glenn Johnson	1601cf1b14	Patch binutils This commit adds a patch to update symbol versions from linker scripts. This is seen with libmysqlclient.so which has to maintain compatibility across two versions. Only one can be the default. https://sourceware.org/git/gitweb.cgi?p=binutils-gdb.git;a=commitdiff;h=544ddf9322b1b83982e5cb84a54d084ee7e718ea	2016-06-12 21:46:11 -05:00
Kelly (KT) Thompson	31d2c38687	Update formatting to meet code style requirements.	2016-06-12 19:56:29 -06:00
Kelly (KT) Thompson	b89bcdff62	Make Boost an optional feature of Trilinos. I have been unable to build Boost with some toolset/platform combinations. The users I support don't need the Boost features in Trilinos, so I have been manually hacking trilinos/package.py to disable boost. I would like to propose that these changes be added to the released version. + Add boost as a variant, default to true so there is no change to existing behavior. + Move the CMake configure options related to Boost into a conditional block that is triggered by "if '+boost' in spec".	2016-06-12 19:48:45 -06:00
Tom Scogland	1b28991e0a	Merge pull request #1026 from epfl-scitas/packages/lmod lmod : updated package and dependencies	2016-06-12 17:01:41 -07:00
Glenn Johnson	59c9816dbf	Make quotations in variables consistent.	2016-06-11 16:01:23 -05:00
Glenn Johnson	0e9f8bd38d	Add list_url for old versions.	2016-06-11 15:53:28 -05:00
Erik Schnetter	953b65abcc	Do not pass "/usr" or "/usr/local" as path to configure	2016-06-11 16:41:39 -04:00
Glenn Johnson	6c0ea77d1d	Add list_url for older versions.	2016-06-11 15:36:43 -05:00
Adam J. Stewart	85502e34f9	CMake knows how to create PIC	2016-06-10 14:35:19 -05:00
Kelly (KT) Thompson	883f601bca	Fix style issues.	2016-06-09 19:18:25 -06:00
Kelly (KT) Thompson	915115386a	Package serf also depends on zlib. + Add zlib as a required dependency. + Point scons build system to the spack provided zlib installation.	2016-06-09 18:30:28 -06:00
Orion Poplawski	454acf58af	Add additional blank line for flake8	2016-06-08 16:49:42 -06:00
Orion Poplawski	e3ca5e6676	Add patch to compile pcre with Intel 16.0.3 compiler	2016-06-08 16:23:04 -06:00
Adam J. Stewart	65896ff2ed	Add Armadillo and SuperLU packages	2016-06-08 14:11:14 -05:00
James Riley Wynne III	4b9707f8ea	Fixed flake8 formatting problems	2016-06-08 14:36:45 -04:00
James Riley Wynne III	42a10d5690	Fixes issue #438	2016-06-08 12:43:05 -04:00
Nicolas Richart	2d21693b9d	Missing file to patch mumps	2016-06-08 17:09:13 +02:00
alalazo	564483936f	qa : fixed flake8 issues	2016-06-08 16:33:49 +02:00
alalazo	4a61efe641	lmod : fixed issues with LUA_PATH during installation	2016-06-08 16:21:09 +02:00
alalazo	f4a39457de	lmod : updated package and dependencies	2016-06-08 15:35:15 +02:00
Nicolas Richart	165411f4a5	bug fix in the +mpi case	2016-06-08 15:17:12 +02:00
Nicolas Richart	498c098d11	Cleaning flake warnings in mumps package	2016-06-08 14:57:54 +02:00
Nicolas Richart	e124c86a4f	Corrected the shared libraries and tests in mumps package	2016-06-08 14:17:46 +02:00
Glenn Johnson	bb19dffb26	Fix flake8 error.	2016-06-07 23:40:12 -05:00
Glenn Johnson	ad0cfa41aa	Fix flake8 errors	2016-06-07 23:37:49 -05:00
Glenn Johnson	738720a000	new package: r-devtools This PR brings in the R devtools package and it dependencies.	2016-06-07 23:20:46 -05:00
Greg Lee	bb57b82794	flake8 fixes	2016-06-07 20:15:02 -07:00
Glenn Johnson	2262bc95f1	new package: r-packrat Manage the R packages your project depends on in an isolated, portable, and reproducible way. https://github.com/rstudio/packrat/	2016-06-07 22:04:11 -05:00
Greg Lee	25b2f7b1d7	put older versions back + version-specific dwarfdump dir	2016-06-07 20:02:38 -07:00
Mayeul d'Avezac	0b5ce9e16a	💄 style points requested by flake8	2016-06-03 11:52:19 +01:00
Nicolas Richart	8b6035ab82	Making emacs dependent on internal packages	2016-06-03 00:24:00 +02:00
Todd Gamblin	3d2b25e45c	Merge pull request #1014 from epfl-scitas/packages/mvapich2 Changes to take into account slurm in version @2.1: of mvapich2	2016-06-02 01:08:28 -07:00
Todd Gamblin	27bc49d8c8	Merge pull request #1001 from ashkan2200/develop Dealii, fixed issue with tests	2016-06-02 01:01:29 -07:00
Todd Gamblin	b843b73bb5	Merge pull request #1005 from eschnett/eschnett/hdf5-update Update HDF5 to version 1.10.0-patch1	2016-06-02 00:57:15 -07:00
Todd Gamblin	1fb4fa02e3	Merge pull request #1010 from epfl-scitas/packages/tetgen Adding a version to tetgen	2016-06-02 00:54:09 -07:00
Nicolas Richart	53dcc39b72	removing useless selfs	2016-06-01 17:33:54 +02:00
Nicolas Richart	3ab8468e73	Correcting the flake8 warnings	2016-06-01 16:43:08 +02:00
Nicolas Richart	0451c8e55f	Addapting the mvapich2@2.1: configure options for slurm	2016-06-01 15:58:00 +02:00
Nicolas Richart	d802144f39	Introduced a bug by correcting flake8 warnings	2016-06-01 03:31:29 +02:00
Nicolas Richart	5d4a0e4050	Corrections for flake8	2016-06-01 03:28:42 +02:00
Nicolas Richart	97bad2c1ac	Corrections for flake8	2016-06-01 03:25:37 +02:00
Nicolas Richart	58052e6632	Adding package fenics	2016-06-01 03:20:56 +02:00
Nicolas Richart	cb673765c2	Adding a version to tetgen	2016-06-01 03:02:48 +02:00
Nicolas Richart	0df0677d5b	Adding a variant to link against the spack libraries instead of the system ones	2016-06-01 03:00:03 +02:00
Nicolas Richart	9db8dc1895	Removing extra dependencies + minor fix according to remarks on #1002	2016-06-01 00:57:01 +02:00
Erik Schnetter	c03c689cb2	Update HDF5 to version 1.10.0-patch1	2016-05-31 12:18:17 -04:00
Adam J. Stewart	564e7f5e5b	Don't build in parallel	2016-05-31 09:32:24 -05:00
Mayeul d'Avezac	29b85fbce0	Eigen can be installed with dependencies	2016-05-31 10:10:12 +01:00
Ali Dorostkar	6f96484f83	Spacing correction More spacing correction	2016-05-31 09:58:29 +02:00
Ali Dorostkar	e82fb5b58f	Fixed spacing Replaced tabs with spaces	2016-05-31 08:44:46 +02:00
Todd Gamblin	f3f0122f11	Merge branch 'develop' into features/newarch	2016-05-30 13:54:53 -07:00
Ali Dorostkar	c4d5bd13c7	dealii, Added comment Added comment for why step-40 is done differently for dealii 8.4.0 and later	2016-05-30 18:11:34 +02:00
Nicolas Richart	fd345c8ef0	Merge branch 'packages/foam-extend' of github.com:epfl-scitas/spack into packages/foam-extend	2016-05-30 17:04:21 +02:00
Nicolas Richart	9f4e599232	Ignoring the flake8 error for a line too long	2016-05-30 16:58:06 +02:00
Nicolas Richart	08c8d1d1f7	limiting package to foam-extend to start	2016-05-30 16:49:25 +02:00
Nicolas Richart	4122ecbc80	First try at OpenFOAM-extend	2016-05-30 16:49:25 +02:00
Ali Dorostkar	4f591a6fe3	Step-40 test for 8.3.0 and earlier Integrated part of step-40 to be tested for earlier versions of dealii	2016-05-30 16:42:24 +02:00
Nicolas Richart	fe79e43459	limiting package to foam-extend to start	2016-05-30 15:46:39 +02:00
Ali Dorostkar	d7e84fe07c	dealii, test for specific version Specified that test case “step-40” is only to be run when using dealii version 8.4.0 or later	2016-05-30 14:03:27 +02:00
Glenn Johnson	66aaaa1751	Add a comment regarding the reason for the patch.	2016-05-29 15:30:09 -05:00
Ali Dorostkar	c2ac47235f	additional versions for Dealii Included additional versions for Deal.II package.	2016-05-29 13:22:19 +02:00
Glenn Johnson	c16d7c481c	Get glib to compile with gcc-6.1 This commit adds a patch to fix the case where gcc-6.1 emits an error for string format literal that was a warning in previous versions of gcc. The patch reference is https://bugzilla.gnome.org/show_bug.cgi?id=761550 Also ran the package file through autopep8.	2016-05-28 23:30:56 -05:00
Mario Melara	33e1dcc476	Adding mock package file for external module	2016-05-28 10:14:40 -07:00
Gregory Becker	9dad7c2ace	re-merged mainline develop	2016-05-27 13:13:19 -07:00
Greg Lee	6dcdb50a3e	Merge branch 'develop' of https://github.com/llnl/spack into develop	2016-05-27 12:44:57 -07:00
Greg Lee	0ae1298d25	updated libdwarf version and dwarfdump build	2016-05-27 12:43:13 -07:00
Adam J. Stewart	dd5a6914f1	Undo changes to flex	2016-05-27 12:56:43 -05:00
Todd Gamblin	f6a0cd1bf8	Merge pull request #973 from eschnett/eschnett/openmpi-verbs Auto-detect verbs location	2016-05-27 11:01:44 -05:00
Todd Gamblin	7b063e3e6c	Merge pull request #975 from adamjstewart/features/stream Add STREAM benchmark package	2016-05-27 10:59:13 -05:00
Todd Gamblin	dc4ca26441	Merge pull request #992 from davydden/update/dealii Update/dealii	2016-05-26 17:39:37 -05:00
Todd Gamblin	96f65479e7	Merge pull request #993 from xjrc/packages/metis Update Package : METIS/ParMETIS	2016-05-26 17:37:33 -05:00
Denis Davydov	040c122719	dealii: formatting	2016-05-26 23:00:22 +02:00
Denis Davydov	0036483ded	dealii: don't hardcode blas and mpi; minor fixes to dependencies	2016-05-26 18:07:27 +02:00
Todd Gamblin	76d42b5200	Merge pull request #982 from trws/rust Rust	2016-05-25 15:15:51 -05:00
Joseph Ciurej	734fb459a4	Fixing a small bug with metis@4+shared installs on the Mac platform.	2016-05-25 12:27:52 -07:00
Joseph Ciurej	483ec0d762	Added preliminary improved testing code for METIS@:4.	2016-05-24 16:13:52 -07:00
Joseph Ciurej	c9ba73d931	Added staging support and improved error handling for METIS@:4 installs.	2016-05-24 16:05:29 -07:00
Joseph Ciurej	b5d0a38860	Fixed a few linking/testing bugs in the METIS@:4 install method.	2016-05-24 15:03:21 -07:00
Greg Lee	1bca69f272	updated launchmon url and version	2016-05-24 14:54:09 -07:00
Joseph Ciurej	064d3584c0	Updating 'metis' and 'parmetis' to conform to PEP8 standards.	2016-05-24 12:28:05 -07:00
Joseph Ciurej	0ef6843d85	Improved MPI path specification for ParMETIS using PR #893 features.	2016-05-24 12:28:05 -07:00
Joseph Ciurej	9c95ec0b29	Updated and added new versions to the METIS/ParMETIS packages. - Added a 'url_for_version' function to the METIS/ParMETIS packages. - Added installation support for METIS@5.0.2 and ParMETIS@4.0.2. - Changed the 'double' variant to 'real64' to make it more consistent with the 'idx64' variant naming. - Removed an unnecessary dependency on gdb.	2016-05-24 12:28:05 -07:00
Denis Davydov	c78349a3a4	octave: fix formatting	2016-05-23 15:08:10 +02:00
Denis Davydov	ce3146e91a	octave: add missing dependencies and update to 4.0.2	2016-05-23 14:50:06 +02:00
Tom Scogland	00de72272d	rust compiler/builder package, new llvm variants	2016-05-22 11:16:00 -07:00
Tom Scogland	425beb4d97	updates for rust-bindgen	2016-05-22 11:16:00 -07:00
Tom Scogland	404b7c7c4f	initial rust support	2016-05-22 11:16:00 -07:00
Nicolas Richart	4c87ef915f	First try at OpenFOAM-extend	2016-05-22 18:55:29 +02:00
Erik Schnetter	09eed08b9c	Auto-detect verbs location	2016-05-20 16:24:48 -04:00
Todd Gamblin	d94972503a	Merge pull request #964 from davydden/update/tbb tbb: add 4.4.4; raise InstallError when building 4.4.3 with GCC6.1	2016-05-19 22:44:03 -07:00
Nicolas Richart	2e77cc635e	missing @ in version definition	2016-05-20 00:51:58 +02:00
Nicolas Richart	a233ed2de7	changes scotch package to make he coverage test pass	2016-05-20 00:42:34 +02:00
Nicolas Richart	a51566ec6e	changes to simplify the esmumps variant for version < 6.0.0 + typos corrections, according to the remarks on PR #979	2016-05-20 00:31:12 +02:00
Nicolas Richart	1bf306bbbd	Adding +metis variant to scotch + minor changes	2016-05-19 17:26:44 +02:00
Gregory Becker	9f59c128be	Partial merge of mainline develop	2016-05-18 15:13:40 -07:00
Tom Scogland	29635b7bbd	initial docs for find and flake8 cleanup	2016-05-18 14:04:39 -07:00
Adam J. Stewart	434ff28af4	Add STREAM benchmark package	2016-05-18 15:14:21 -05:00
Todd Gamblin	d391670755	Merge pull request #966 from verolero86/develop Add option to disable VT support in openmpi package	2016-05-18 08:36:23 -07:00
Todd Gamblin	78c46aab35	Merge pull request #969 from Rombur/boost Add boost 1.61.0	2016-05-18 08:35:51 -07:00
Todd Gamblin	637da63506	Merge pull request #948 from davydden/bugfix/astyle astyle: fix filter command which failed on OSX with python 2.7.10	2016-05-18 08:35:01 -07:00
Bruno Turcksin	bbbffe7423	Add boost 1.61.0	2016-05-18 08:51:22 -04:00
Denis Davydov	267666cd97	formatting	2016-05-18 08:35:47 +02:00
Greg Lee	582d01784a	added newdtags variant, default to false (i.e., remove --enable-new-dtags)	2016-05-17 21:18:34 -07:00
Todd Gamblin	d592a1655f	Merge pull request #961 from xjrc/features/flake8-improvements Enhancement Proposal: Exempt '@when' Functions from Style Redefinition Errors	2016-05-17 17:00:49 -07:00
Todd Gamblin	502420ceff	Merge branch 'features/cflags' into develop Conflicts: lib/spack/spack/cmd/find.py var/spack/repos/builtin/packages/ghostscript/package.py	2016-05-17 16:44:54 -07:00
Denis Davydov	1a187e73ae	tbb: add 4.4.4; raise InstallError when building 4.4.3 with GCC6.1	2016-05-17 22:57:32 +02:00
Todd Gamblin	138307dd0c	Merge pull request #955 from trws/lua-rework complete lua rework	2016-05-17 13:21:51 -07:00
Veronica G. Vergara Larrea	6c95a5d496	the right flag here is +, the default behavior is controlled in the variant	2016-05-17 14:37:36 -04:00
Adam J. Stewart	f16228d811	Add more install directories	2016-05-17 13:36:38 -05:00
becker33	3d9c8f4fd4	Merge pull request #952 from davydden/package/sed sed: add package	2016-05-17 11:27:57 -07:00
Adam J. Stewart	631cbdbda8	Flake8	2016-05-17 13:22:00 -05:00
Adam J. Stewart	7b9b18f03c	Add HPL benchmark package	2016-05-17 13:14:59 -05:00
Veronica G. Vergara Larrea	471950434e	add a flag to openmpi to allow users to disable vt support	2016-05-17 13:40:01 -04:00
Todd Gamblin	1774c7a7b3	Merge pull request #958 from trws/golang-new Golang new	2016-05-17 05:56:06 -07:00

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3294 commits