Commit graph

5477 commits

Author SHA1 Message Date
Keita Teranishi
d393e3d702 Added Nox for Trilinos installation by xSDK (#7219)
* Added Nox for Trilinos installation by xSDK

* Enable NOX only for Develop copy
2018-02-13 02:20:59 -08:00
alalazo
e72b69732e Changed keyword argument 'recurse' to 'recursive' 2018-02-13 02:18:28 -08:00
alalazo
efd2a95781 find has been changed to accept glob expressions
Following the discussion with Todd and Adam, find has been modified to
accept glob expressions. This should not affect performance as every
glob implementation I inspected has 3 cases (no wildcard, wildcard but
no directories involved, wildcard and directories involved) and uses
fnmatch underneath.

Mixins have been changed to do by default a non-recursive search (but
a recursive search can still be triggered using the recursive keyword).
2018-02-13 02:18:28 -08:00
alalazo
c62b3eef55 filter_compiler_path: added the possibility to narrow search path
Following a comment from Todd, the search path for the files listed in
`filter_compiler_wrappers` can now be narrowed. Anyhow, the function
implementation still makes use of `find`, the rationale being that we
have already seen packages that install artifacts in e.g. architecture
dependent folders. The possibility to have a relative search path might
be a good compromise between the previous approach and the one suggested
in the review.

Also: 'ignore_absent' and 'backup' keyword arguments can be optionally
forwarded to `filter_file`.
2018-02-13 02:18:28 -08:00
alalazo
a01a68218c mvapich2: ported 2e6a735b00 2018-02-13 02:18:28 -08:00
alalazo
22def01adf mixins: implemented declarative syntax
Implemented a declarative syntax for the additional behavior that can
get attached to classes. Implemented a function to filter compiler
wrappers that uses the mechanism above.
2018-02-13 02:18:28 -08:00
alalazo
8e0f9038ab Improved naming of properties and classes (per Denis comments). 2018-02-13 02:18:28 -08:00
alalazo
28e129b087 Added mixins to modularize common behaviors across build-systems.
Modifications:
  * added a mixin to filter compiler wrappers from files
  * modified hdf5, openmpi, mpich, mvapich2 to use it
2018-02-13 02:18:28 -08:00
Massimiliano Culpo
4d97b540a8 FFTW: expose optimization handles via variants (SIMD + FMA) (#7038) 2018-02-13 02:06:58 -08:00
Levi Baber
de3c047105 new package: Glfmultiples (#7055) 2018-02-12 19:35:57 -08:00
Loikki
5fef8b6963 grackle package: add float option (#7196) 2018-02-12 14:32:24 -08:00
Luigi Calori
aa15235058 fluxbox lightweight window manager (#7169) 2018-02-12 19:35:18 +01:00
David Beckingsale
a403a1ca68 RAJA package: add versions and CUDA/openmp support (#7201) 2018-02-12 10:34:54 -08:00
Cyrus Harrison
e4ba199fc1 updates to conduit and ascent packages (#7040)
* Remove variants disabling blas and lapack for py-numpy, issues
  building these have been resolved
* For CMake greater than 3.10, FindMPI changed, so use
  MPIEXE_EXECUTABLE instead of MPIEXE for 3.10 and newer
2018-02-12 10:20:46 -08:00
Massimiliano Culpo
b7baeb542d Set a default python that is consistent with the libraries in PYTHONHOME (#7157)
fixes #7128

Before this PR packages that were indirectly dependent on python might
have failed due to inconsistency between the python found in the
environment and the standard libraries set in PYTHONHOME
2018-02-11 23:08:45 -08:00
Eric
7e9a369dec shortbred: Create new package (#7210) 2018-02-11 22:26:35 +01:00
Eric
fb7a5b279d glimmer: Create new package (#7208) 2018-02-11 22:22:34 +01:00
Axel Huebl
ee70551e10 xtensor-python (#7217)
pybind11 bindings for seamlessly using xtensor in python
2018-02-11 22:21:45 +01:00
Axel Huebl
f0aa4641f9 pybind11: 2.2.[1,2] & develop (#7216)
Add the latest release of `pybind11` and its `develop` version.
2018-02-11 18:00:22 +01:00
Axel Huebl
266a3593ce Xtensor 0.15.1 (#7215)
Add the latest xtensor release and its dependencies.
2018-02-11 17:56:08 +01:00
Eric
912e661056 new package: diffsplice (#7187) 2018-02-09 20:15:58 -08:00
Jed Brown
74ffd8b6be hpgmg package: add debug option and new version (#7175)
This adds a static version of hpgmg (up to now only the latest commit
from the master branch was available). This also adds a debug variant
and sets optimization flags for ~debug when the compiler is gcc,
intel, or clang
2018-02-09 19:01:49 -08:00
Jed Brown
ec162e69b2 petsc: use spack-built python for configure (#7176)
Make sure to use Spack-built python to run petsc configure script
(in particular since petsc requires python@2.6:2.8)
2018-02-09 13:11:03 -08:00
Geoffrey Oxberry
deb1a93f81 xbraid@2.2.0: new package (#7205) 2018-02-09 19:49:31 +01:00
Geoffrey Oxberry
5defe9ab00 git-imerge@1.1.0: new package (#7203) 2018-02-09 19:48:11 +01:00
Eric
0d34cdd77f py-checkm-genome: Create new package (#7200) 2018-02-09 19:37:16 +01:00
David Gardner
9d304ad585 fix petsc int64 metis dependencies (#7195) 2018-02-09 12:29:10 +01:00
Axel Huebl
e98bcaf3f5 libSplash: 1.7.0 (#7199)
Adds the latest release of libSplash (1.7.0) and newly learned
CMake flags for explicit dependency control.

Modifies HDF5 dependency: non-MPI splash does (and did) never run
with a parallel HDF5, due to it's internal cross-dependencies on
MPI.
2018-02-09 12:27:13 +01:00
Christoph Junghans
20225edde4
comd: more sane default (#7046)
Avoid useless deps.
2018-02-08 12:36:23 -05:00
Hans Pabst
8f5ece9ace LIBXSMM 1.8.3 (#7183) 2018-02-06 14:31:18 +01:00
Eric
26ff36f05f samblaster: Create new package (#7188) 2018-02-06 13:54:05 +01:00
Eric
167b5dc5d3 py-localcider: Create new package (#7189) 2018-02-06 13:52:37 +01:00
Geoffrey Oxberry
49e58992db oclint: new package (#7076) 2018-02-06 06:35:17 +01:00
Levi Baber
e25406c26b angsd: new version, and conflict for newer htslib with old version (#7122) 2018-02-05 18:33:12 +01:00
Mark Meredith
6c21d0bf31 Update fish url for fish 2.7.1 (#7089) 2018-02-04 09:05:44 +01:00
Thilina Rathnayake
970a4b2815 Update Nek5000 package to Version 17 (#7178)
and minor polishing
2018-02-03 17:05:14 -06:00
Erik Schnetter
927af929f4 highfive: Update to version 1.5 (#7041) 2018-02-03 10:22:03 +01:00
健美猫
caba978aa6 A new package: libcroco. (#7154) 2018-02-03 10:07:02 +01:00
Elizabeth Fischer
be5fa8f6c2 macOS Fix for GDAL (#7155) 2018-02-03 10:06:35 +01:00
Geoffrey Oxberry
4c9521b52b clingo@5.2.2: new package (#7091) 2018-02-03 10:05:06 +01:00
Eric
b6f1e0611c stringtie: add version 1.3.4a (#7164) 2018-02-03 09:52:51 +01:00
Eric
0b6d7f7397 new package: perl-exporter-tiny (#7030) 2018-02-02 10:28:45 -08:00
Feiyi Wang
27b033587b Efficient array of booleans, C extension (#7135) 2018-02-01 18:48:32 +00:00
Geoffrey Oxberry
514f0bf5c5 lz4 platform=darwin: fix dylib name (#7112) 2018-01-31 16:12:44 -08:00
Geoffrey Oxberry
7959c5ffd2 libdwarf: fix linking, fix build on Darwin (#7124)
* libdwarf: fix linker flags

* libdwarf: fix header install names

* libdwarf: add zlib dependency

Prior to this commit, libdwarf was linked to the system zlib. This
commit links it to spack-installed zlib.

* libdwarf: fix dynamic library suffix for Darwin
2018-01-31 16:12:25 -08:00
healther
bddc1556e1 symlink python3 to python (#7103)
* symlink python3 to python

* otherwise not all autotools are smart enough

* Update package.py
2018-01-31 16:11:25 -08:00
sknigh
ec7d069ba5 Added osu-micro-benchmarks@5.4 (#7149) 2018-01-31 16:10:14 -08:00
Brian Van Essen
c3034b53e3 Adding support for the Accelerate library on OS X (#7068)
* Adding support for the Accelerate library on OS X

* Fixed guard on variable and added another depends_on statement to make sure that openblas gets selected even when openmp_blas variant is not turned on.
2018-01-31 11:10:42 -08:00
Eric
fa65725263 fr-hit: Create new package (#7132) 2018-01-31 19:28:48 +01:00
Brian Van Essen
bc0f683e64 Protobuf fix (#7110)
* Fixed a bug where when using shared libraries OS X does not set the RPATH correctly
2018-01-31 09:39:53 -08:00
Brian Van Essen
06758fe5cb LBANN OS X (#7105)
* Added a package for the MDAnalysis toolkit.

* Added some flags to fix the build RPATHs and OpenMP for LBANN on OS X.

* Fixed Hydrogen branch of Elemental to find OpenMP on OS X.
2018-01-31 09:38:53 -08:00
Eric
60cc0b0b90 py-setuptools-git: Create new package (#7131) 2018-01-31 16:52:34 +01:00
Axel Huebl
cb5919b981 PNGwriter: 0.7.0 (#7026)
Adds the latest release of PNGwriter, including
Windows and CMake config package support.
2018-01-31 14:34:52 +01:00
sknigh
770100765f Added v1.4.2 to libfabric package (#7053) 2018-01-31 14:02:21 +01:00
Levi Baber
b59c3bcf02 abyss: added missing libtool dependency (#7054) 2018-01-31 14:01:49 +01:00
Axel Huebl
0d5ad7d843 openPMD-validator (#7064)
Adds the new package for openPMD validator tools.
2018-01-31 13:59:38 +01:00
Geoffrey Oxberry
ebaa106d7a ocaml@4.06.0: new version (#7078) 2018-01-31 13:49:17 +01:00
Geoffrey Oxberry
e8b4de7b4c re2c@1.0.3: new package (#7092) 2018-01-31 13:46:17 +01:00
Geoffrey Oxberry
b8b2c67b9c opam: new package (#7079) 2018-01-31 13:44:09 +01:00
Geoffrey Oxberry
148a2f0238 bmake@20171207: new package (#7099) 2018-01-31 13:42:41 +01:00
Geoffrey Oxberry
ae589c22f2 gcc: add version 7.3.0 (#7097) 2018-01-31 13:41:12 +01:00
Geoffrey Oxberry
804a6c5e1a lz4@1.8.1.2: new version (#7111) 2018-01-31 13:40:32 +01:00
Geoffrey Oxberry
a5758d97b3 libarchive@3.3.2: new version (#7113) 2018-01-31 13:39:58 +01:00
Denis Davydov
35746fdde1 rtags: add 2.17 and for now comment-out 2.12 (#7126) 2018-01-31 13:36:22 +01:00
lingnanyuan
cef4c2fa1c maq: Create new package. (#7133) 2018-01-31 13:12:43 +01:00
Eric
cd084d02ce rna-seqc package: JAVA_{ARGS,OPTS} for helper script (#6972) 2018-01-29 20:23:59 -08:00
Massimiliano Culpo
5af9256d4f Cleaned up JUnit report generation on install (#6977)
* Cleaned up JUnit report generation on install

The generation of a JUnit report was previously part of the install
command. This commit factors the logic into its own module, and uses
a template for the generation of the report.

It also improves report generation, that now can deal with multiple
specs installed at once. Finally, extending the list of supported
formats is much easier than before, as it entails just writing a
new template.

* Polished report generation + added tests for failures and errors

The generation of a JUnit report has been polished, so that the
stacktrace is correctly displayed with Jenkins JUnit plugin. Standard
error is still not used.

Added unit tests to cover for installation failures and installation
errors.
2018-01-28 12:07:59 -08:00
Geoffrey Oxberry
784234ae8e libtool, binutils: fix darwin linking (#7073)
* libtool: fix linking of libtool on darwin

* binutils, libtool: fix conflicts w/ BSD tools, v2

Fix namespace conflicts with BSD tools in a more elegant fashion,
using a program prefix, similar to Homebrew.
2018-01-28 15:36:24 +01:00
George Hartzell
970c7e8f45 Tell R's configure about tcltk config (#7085)
* Tell R's configure about tcltk config

Add configure arguments that specify the location of
the tcl and tk config scripts.

Fixes #7072

* Flake8 cleanup
2018-01-26 20:51:38 -06:00
Brian Van Essen
1cd03e0f36 new package: essl (#6335)
Added support for the IBM ESSL math library.Updated Elemental to be
able to build with ESSL.
2018-01-26 10:38:37 -08:00
Massimiliano Culpo
7cb43e3d05
Bzip2 now uses 'spack_cc' as a compiler, instead of plain 'cc' (#7074)
Looking at build logs, it seems that prior to this commit bzip2 was
using 'cc', and relying on the PATH to be set correctly to find Spack
wrappers. This commit improves the robustness of the recipe, by using
the absolute path of the wrapper.
2018-01-26 09:52:04 +01:00
Brian Van Essen
8bc5916b68 Protobuf package: allow building shared library (#7067)
This adds a +shared variant for building shared libraries in the
protobuf package and enables it by default.
2018-01-25 12:14:48 -08:00
Brian Van Essen
82d4d58ca7 Lbann package: bug fix (#7066)
Fixed a bug in the guard on cub functionality.  Reduced the
requirements on hwloc to make it simpler to build on Power systems.
2018-01-25 12:10:37 -08:00
Geoffrey Oxberry
e0082e0564 libtool: symlink libtool{ize} to glibtool{ize} (#7060)
On Darwin and other BSD systems, the system 'libtool' and 'libtoolize'
are BSD libtool and libtoolize, respectively. Some build systems
require the GNU versions of these commands, so BSD package systems
tend to name the GNU versions 'glibtool' and 'glibtoolize',
respectively, to avoid namespace collisions.

A problem with the current libtool package is that it installs the GNU
libtool commands as 'libtool' and 'libtoolize', respectively, but
build systems on BSD platforms will attempt to run 'glibtool' and
'glibtoolize'. The expedient solution to this problem is to symlink
'libtool' to 'glibtool' and 'libtoolize' to 'glibtoolize', because
attempting to patch the detection logic one build system at a time
seems impractical.
2018-01-24 18:48:28 -08:00
Geoffrey Oxberry
b5daa51c06 netlib-xblas 1.0.248: new package (#7024)
* netlib-xblas@1.0.248: new package

* netlib-lapack: add xblas option
2018-01-24 08:28:05 +01:00
Brian Van Essen
a62e1a0451 Lbann update (#6987)
* Added new link line flag

* Refactored some of the common components out of the different
version's build commands.  Also corrected the when commands to
properly capture non-numeric names such as local.

* Added support to the Elemental package for the Hydrogen branch.
2018-01-23 17:05:54 -08:00
Federico Ficarelli
8bdf7e6baa Fix gtkplus build by hardcoding X11 support (#6971)
* Fix gtkplus build by hardcoding X11 support

* Remove +X variant from gtkplus dependents
2018-01-23 15:24:20 -08:00
Federico Ficarelli
dceb66741c Fix +readline handling (#7048) 2018-01-23 23:01:58 +01:00
Geoffrey Oxberry
d6a43f180b argp-standalone@1.3: new package (#7014)
Adds a package for the standalone version of the argp argument parsing
interface from glibc for unix-style command options.
2018-01-23 22:49:17 +01:00
Thilina Rathnayake
3223186729 new package: gslib (#6328) 2018-01-23 10:42:06 -08:00
Benedikt Riedel
d8c105a7b1 Fix GEANT4 and make more portable and flexible (#6956)
* Turning off default Qt support. Restricting Qt version to <= 4.9 else geant4 won't build

* Making vecgeom optional

* Differentiating between cxx11 and cxx14 support

* Making vecgeom optional. Part 2. forgot to move usolids option

* Adding explicit CXX11 and CXX14 support

* Adding more clhep version to support newer GEANT4 versions

* Adding GEANT4 versions 10.03.p03 and 10.04

* Checkpoint. Adding opengl and x11 variant. Lead up to more changes to enable X11 support

* Adding dependency on fixesproto for newer versions

* Making the X11 dependent pieces work without requiring X11 on the system

* Adding motif
2018-01-23 10:13:08 +01:00
Geoffrey Oxberry
2e09501fc5 netlib-lapack: add versions 3.7.0, 3.7.1, 3.8.0 (#7025) 2018-01-23 09:59:33 +01:00
健美猫
e6afb9db77 A new package: log4cplus. (#7015) 2018-01-23 09:47:34 +01:00
Marty McFadden
02b74519e3 Version update for cfitsio (#7032) 2018-01-23 09:44:40 +01:00
Yifan Zhu
92b20bfdba r-snprelate: new package (#7036) 2018-01-23 09:43:22 +01:00
Yifan Zhu
30aaa37472 r-gdsfmt: new package (#7035) 2018-01-23 09:42:10 +01:00
Scott Wittenburg
d2c3441527 Update gl/qt options for vtk package (#6551)
This provides options for hardware and software rendering with the
gl API and updates the vtk package to make use of those options:

* Create new "gl" virtual package, provided by mesa
* Add external-only "opengl" package, which represents a system
  install that provides gl
* For vtk: prefer system gl implementation by default to get speed
  up from hardware rendering. When software rendering is specifically
  requested (+osmesa), try to use the llvmpipe approach, as it is
  much faster.
* Make qt dependency optional for vtk
* Add basic support for VTK on osx
* qt: Depend on virtual gl package, rather than mesa impl
2018-01-22 10:46:44 -08:00
Kelly (KT) Thompson
55c3451b87 Version update for 2.22 (#7023) 2018-01-22 07:12:00 +01:00
Eric
cfd68e48a4 perl-graph: Create new package (#7022) 2018-01-22 07:10:58 +01:00
Eric
1733dff977 perl-array-utils: Create new package (#7020) 2018-01-22 07:10:17 +01:00
Eric
02b9cf5085 perl-app-cmd: Create new package (#7019) 2018-01-22 07:09:34 +01:00
Eric
cd82a9e050 perl-perlio-gzip: Create new package (#7018) 2018-01-22 07:08:41 +01:00
Geoffrey Oxberry
227b58bb67 Visit 2.13.0 (#6947)
* visit: add version 2.12.3

* visit: add version 2.13.0

* visit: enable building with hdf5+mpi

* visit: add qwt dependency

Building VisIt requires Qwt, which is not part of Qt. Prior to this
commit, this dependency was not included in the VisIt spack package,
resulting in a configure-time bug with an error message indicating a
missing Qwt dependency.

This commit fixes this bug by adding Qwt dependency information.
2018-01-21 09:16:23 -06:00
Hans Pabst
202c413ae0 LIBXSMM 1.8.2 (#6896)
* Included LIBXSMM 1.8 into the list of available versions.

* LIBXSMM 1.8.1

* LIBXSMM 1.8.2 (release notes: https://github.com/hfp/libxsmm/releases/tag/1.8.2).

* LIBXSMM: Use join_path instead of hard-coding the separator. Install "version.txt" into the documentation directory. Removed installing "README.md" from LIBXSMM's root directory as it overrides README.md provided there. The latter uses correct relative references to the other documentation parts.

Note: Apparently, "FC=/path/to/gfortran spack install libxsmm" is currently needed for Spack since does not pick-up the Fortran compiler (but incorrectly uses the C compiler instead).

* LIBXSMM: converted Package into MakefilePackage (to address https://github.com/spack/spack/pull/6896#discussion_r160993923).

* LIBXSMM: account for changed file set in 1.8.2 onward (addresses https://github.com/spack/spack/pull/6896#pullrequestreview-88670974).

* Fixed incorrect behavior of "+header-only", which did not install the "src" folder. Addressed https://github.com/spack/spack/pull/6896#discussion_r162783180 and https://github.com/spack/spack/pull/6896#discussion_r162783221.

* Use conflicts msg argument to present a friendly error message.
2018-01-21 09:14:26 -06:00
Denis Davydov
6170ca863d dealii: update CMake dependency (#7010) 2018-01-20 21:59:24 +01:00
sknigh
27bb18bae2 Added libgit2@0.26.0 (#6952) 2018-01-20 21:57:41 +01:00
sknigh
e98a85c807 Added added libssh2@1.8.0 (#6951) 2018-01-20 21:56:55 +01:00
Michael Kuhn
9f0e17a538 flex: restrict GCC conflict to newer Ubuntu releases (#6963)
flex 2.6.4 compiles fine with GCC 7 on (at least) Ubuntu 16.04 and Fedora 27.
2018-01-20 21:36:45 +01:00
Geoffrey Oxberry
9d84e7eb5c llvm: add version 5.0.1 (#6957) 2018-01-20 21:09:31 +01:00
Michael Kuhn
2fc3e23e47 gtkplus: Update to 2.24.32 (#6964) 2018-01-20 19:42:21 +01:00