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3163 commits

Author SHA1 Message Date
healther
8333c56ab8 add versions to package py-pandas (#3338) 2017-03-03 16:35:04 -06:00
Adam J. Stewart
678603f3cc scipy build fails when built in parallel (#3275) 2017-03-03 16:31:03 -06:00
Erik Schnetter
37eb59622d opencoarrays: Correct download url, update version (#3322) 2017-03-03 16:29:56 -06:00
健美猫
9ec148e484 Add package sga. (#3330) 2017-03-03 16:28:34 -06:00
healther
dfbe3278c4 add package py-lmfit (#3333) 
* add package py-lmfit

* needed to deactivate testing in openblas due to spec.cppflags being undefined

* undid openblas modification
 2017-03-03 16:27:32 -06:00
healther
7dff5e7646 add package py-myhdl (#3335) 
* add package py-myhdl

* Update package.py
 2017-03-03 16:27:14 -06:00
健美猫
d63a53e691 Fix simul by diabling inline and replacing mpicc command. (#3323) 2017-03-03 10:19:17 -06:00
healther
191bf1e132 add package py-elephant (#3302) 
* add package py-elephant

* add variants for docs and pandas
 2017-03-03 08:39:06 -06:00
healther
ba21940409 add resource manpages to package git (#3299) 
* add resource manpages to package git

* Update package.py

* added manpages per version

* added explaining comment

* fixed synatx error
 2017-03-03 08:07:50 -06:00
healther
def42f156d add flex variant to cscope (#3252) 
* add flex variant to cscope

* fixed dependency

* fixed typo
 2017-03-03 08:06:25 -06:00
健美猫
9df2649d02 Add package mdtest. (#3303) 2017-03-03 08:05:16 -06:00
健美猫
f443490f34 Add package sctk. (#3325) 2017-03-03 08:04:01 -06:00
健美猫
e4a0d8a78e Add packag gradle. (#3326) 2017-03-03 08:02:32 -06:00
healther
bb997d2de5 add package py-spyder (#3312) 
* add package py-spyder

* fixed dependencies

* py-flake8 -> py-pycodestyle

* fixed packagename

* Update package.py

* Update package.py
 2017-03-03 08:01:20 -06:00
healther
818118c589 add package py-qtawesome (#3308) 
* add package py-qtawesome

requires py-qtpy

* fixed url

* remove unnecessary comment
 2017-03-03 08:00:21 -06:00
healther
2d395d7d75 add package py-qtpy (#3307) 
* add package py-qtpy

* (re)added qt dependence

* changed url
 2017-03-03 08:00:01 -06:00
healther
ac0fa0ca6e add package py-numpydoc (#3311) 
* add package py-numpydoc

* removed unnecessary dependency

* added dependency
 2017-03-03 07:59:28 -06:00
健美猫
7511c9cd1a Add a new version for bamtools 2.4.1. (#3328) 2017-03-03 07:58:41 -06:00
healther
15c311fbeb add package notmuch and dependencies (#3329) 
* add package notmuch and dependencies

depends on
* gmime

* flake8 again
 2017-03-03 07:57:47 -06:00
healther
4494233c93 add package gmime (#3327) 
* add package gmime

* flake8 fix..
 2017-03-03 07:57:15 -06:00
Adam J. Stewart
7fcd414050 Fixes to allow Boost to build with Python 3 (#3293) 
* Fixes to allow Boost to build with Python 3

* Restrict patch to Python 3 only
 2017-03-02 18:36:10 -06:00
Adam J. Stewart
bde0a67415 Add new package for PaGMO/PyGMO (#3210) 
* Add new package for PaGMO/PyGMO

* Rename py-pygmo to pagmo

* Fix concretization bug

* Correct Python detection, use correct flags

* Install PyGMO to the pagmo prefix, not the Python prefix
 2017-03-02 18:35:19 -06:00
Federico Padua
ecca9abc72 Ior package: fix build issues (#3276) 
This commits address build issues reported in issue #3268.
In particular, makes cleaner the dependency on parallel-netcdf
when +ncmpi variant is requested and adds CFLAGS=-D H5_USE_16_API
to handle the fact that Ior uses old 1.6 style APIs when +hdf5 is
requested.
These changes make Ior build fine and create modules for HDF5 versions
1.8.x and 1.10.0.
Even though build is successfull the modules haven't been tested in a
run.
 2017-03-02 18:33:36 -06:00
Adam J. Stewart
a7be0d4e5d Convert icu4c to AutotoolsPackage (#3316) 2017-03-02 18:32:04 -06:00
Patrick Gartung
4afb7a729c Make libgcc_s relocatable on Macos by adding @rpath to installname (#1671) 
* Make libgcc_s relocatable

* spack specifies full path to lib64

* don't need trailing /

* setting rpath is different on macos

* add -headerpad_max_install_names linker options

* formatting fixes

* Add Adam's recommendation
 2017-03-02 16:39:05 -06:00
healther
7baefa83b9 add package py-jedi (#3313) 2017-03-02 16:29:01 -06:00
healther
c67b8173e3 add package py-rope (#3314) 2017-03-02 16:28:42 -06:00
healther
a562d684b7 add various variants to vim (#3255) 
* add various variants to vim

* default to --enable-fail-if-missing

* vim package: -{python,ruby,lua,perl} sets build option to `no`

* vim's interpreter build options are `--enable-XXXXinterp={yes,no,dynamic}`
* dynamic seems to work only on windows builds
* `=no` is the default => use it in spack if the variant is disabled
 2017-03-02 14:26:52 -06:00
healther
d0835289e8 add package py-chardet (#3310) 2017-03-02 13:50:21 -06:00
healther
73836fccd2 add package py-boltons (#3279) 
* add package py-boltons

* added description

* fixed non-utf8 characters
 2017-03-02 12:51:00 -06:00
Michael Kuhn
6d0fbe7d96 Update adios to 1.11.1 (#3221) 
Add a zfp variant and a patch that resets the interpreter for gpp.py.
 2017-03-02 12:44:43 -06:00
healther
acb72c7037 add package py-brian (#3280) 
* add package py-brian

* fixed typo

* removed unnecessary dependency

* fixed typo2
 2017-03-02 12:44:09 -06:00
healther
c610c197ba Feature/py doxypy (#3283) 
* add package py-doxypy

* fixed template and url
 2017-03-02 12:44:01 -06:00
healther
9607c55eac add package py-doxypypy (#3284) 2017-03-02 12:43:43 -06:00
healther
98baff0167 add package py-fasteners (#3285) 
* add package py-fasteners

* fixed dependencies
 2017-03-02 12:43:34 -06:00
healther
a8c57d65c1 add package py-flexx (#3288) 2017-03-02 12:43:24 -06:00
healther
2f0c3d81aa add version 2.0.0 for py-matplotlib (#3289) 2017-03-02 12:43:13 -06:00
healther
0c014bf36c add package py-lazyarray (#3290) 
* add package py-lazyarray

* added numpy dependency

* flake8 fixes
 2017-03-02 12:43:02 -06:00
healther
7bcc12a3c1 add package py-lazy (#3291) 2017-03-02 12:42:33 -06:00
健美猫
0c1ccd5180 Add simul. (#3300) 2017-03-02 12:42:15 -06:00
Brian Van Essen
5bb22c3024 Added a recipe for the Caffe deep learning toolkit. (#3232) 
* Added a recipe for the Caffe deep learning toolkit.

* Added code to extend python and fixed flake8 error.

* Fixed Flake8 error
 2017-03-02 12:30:00 -06:00
Massimiliano Culpo
ed582cef68 New interface for passing build information among specs (#1875) 
- Added a new interface for Specs to pass build information
  - Calls forwarded from Spec to Package are now explicit
  - Added descriptor within Spec to manage forwarding
  - Added state in Spec to maintain query information
  - Modified a few packages (the one involved in spack install pexsi) to showcase changes

- This uses an object wrapper to `spec` to implement the `libs` sub-calls.
  - wrapper is returned from `__getitem__` only if spec is concrete
  - allows packagers to access build information easily
 2017-03-02 10:01:29 -08:00
Denis Davydov
88f97c07de fix build of 64bit PETSc and Trilinos in the same deal.II DAG (#3223) 
Declare that (i) Trilinos can be only built against 32bit Hypre
(ii) SLEPc can not be built with Arpack when 64bit indices are used
(iii) reflect those constraints in deal.II's depends_on
While there, add extra release flags for best performance.
 2017-03-02 08:16:58 -06:00
Jon Rood
8f915de610 Updating SAMRAI package with new urls and new versions (#3188) 
* Updating SAMRAI package file with new urls and new versions. Also using Spack's MPI compilers.

* Using default optimization for Samrai and setting type to build for m4 dependency.

* Adding debug variant to Samrai.

* Converting Samrai to AutotoolsPackage.
 2017-03-02 06:52:53 -06:00
healther
ffce6e1c4e add variant shared to yaml-cpp (#3254) 2017-03-01 16:36:46 -06:00
healther
20360f6727 add package py-current (#3282) 2017-03-01 15:34:04 -06:00
eklee15
8b52a87285 Add xl and spectrum mpi support for mumps (#3231) 
* Add xl and spectrum mpi support for mumps

* Incorporated Denis's comments. fPIC and if-else
 2017-03-01 15:33:41 -06:00
eklee15
4e601bb6d3 Exclude a few packages to build with xl (#3270) 2017-03-01 14:46:58 -06:00
healther
fa294a25db add version 2.2.0 to package bear (#3278) 2017-03-01 13:37:47 -06:00
healther
1ee470c37e Add package: git-review (#3088) 
* Add git-review

* Fix flake8 errors

* use PythonPackage for git-review

* added dependencies for git-review

* fix flake8

* moved url's to pypi.io based urls

* fixed flake8... again

* mostly url fixes, not tested, will do tomorrow

* flake8 fix

* changed URL for py-pysocks

* Fixed URL for pysocks

* fixed url
 2017-03-01 12:29:22 -06:00
healther
5fe96dec27 add packages vcsh (#3256) 
* add packages vcsh

* added git dependency

* added comment regarding makefile
 2017-03-01 07:51:36 -06:00
healther
6a1a2d5ec1 add package units (#3257) 
* add package units

* removed unnecessary dependency

* readded python dependency
 2017-03-01 07:51:17 -06:00
healther
2fb179f55b add package py-xmlrunner and fix unittest2 dependency (#3260) 
* add package py-xmlrunner and fix unittest2 dependency

* add setuptools dependency
 2017-03-01 07:51:05 -06:00
healther
d5884bdb78 add package py-symfit (#3264) 
* add package py-symfit

* added missing dependency

* fixed ordering of versions
 2017-03-01 07:50:54 -06:00
healther
4e433f8a03 add package py-statsmodels and py-patsy (#3265) 
* add package py-statsmodels and py-patsy

* fixed typo

* fixed urls

* removed rc version
 2017-03-01 07:50:28 -06:00
Adam J. Stewart
186d990791 pip requires setuptools during runtime (#3272) 2017-03-01 07:49:57 -06:00
Gregory Lee
ecc8f578af added urls for Intel Parallel Studio (#3220) 2017-02-28 14:57:10 -06:00
healther
37c36cf04e add package py-tqdm (#3262) 
* add package py-tqdm

* added py-setuptools dependency
 2017-02-28 13:36:32 -06:00
eklee15
bce2accb69 xl support for suite-sparse (#3226) 
* xl support for suite-sparse

* make_args.extend([
    'CFLAGS={0}'.format(self.compiler.pic_flag),
    'FFLAGS={0}'.format(self.compiler.pic_flag)
])
 2017-02-28 11:26:49 -08:00
eklee15
9be0c06b98 Patch hypre to support ppc64le (#3238) 
- Patch applies through v2.11.1
 2017-02-28 11:24:43 -08:00
healther
c32a9416ec add package py-tabulate (#3263) 
* add package py-tabulate
* added py-setuptools dependency
 2017-02-28 11:20:46 -08:00
Jean-Paul Pelteret
86276cd734 Update Adol-C to AutotoolsPackage; Change develop repository (#3246) 
The new repository for the development version points to the most
up-to-date official source for Adol-C. The previous SVN repository was
only occasionally sync'd with this repository.
 2017-02-28 13:18:40 -06:00
Thierry
315dfe0970 nfft distclean before configure patch (#3241) 2017-02-28 13:05:01 -06:00
healther
d1040b7111 add package py-sh (#3266) 
* add package py-sh

* removed constraint on py-setuptools
 2017-02-28 12:59:43 -06:00
Adam J. Stewart
c1382f9d02 Fix infinite recursion in swig build (#3249) 2017-02-28 12:58:08 -06:00
Bryce Allen
b2784f3664 add sz package (#3251) 2017-02-28 12:57:16 -06:00
healther
dee2259f3a add package py-saga-python and dependencies (#3267) 
* add package py-saga-python and dependencies

* fixed url and dependencies
 2017-02-28 12:56:36 -06:00
healther
70d0cdcd0a add package py-attrs (#3253) 2017-02-28 10:51:31 -06:00
healther
be0033ac91 add py-ranger package (#3258) 2017-02-28 10:21:06 -06:00
healther
25f10cca48 add package py-xarray (#3259) 2017-02-28 10:17:43 -06:00
healther
a43f2a49cb add version 0.29.0 to py-wheel (#3261) 2017-02-28 10:12:51 -06:00
Denis Davydov
b5b1e58843 numdiff: add 5.9.0 (#3243) 2017-02-26 08:17:17 -06:00
Eric Müller
ef55b01906 Add py-mock version 2.0.0 (#3234) 2017-02-24 08:05:49 -06:00
Eric Müller
06f366c53f Add bazel version 0.4.4 (#3233) 2017-02-24 08:05:21 -06:00
Javier
9650afd97e Fixing graphviz issue when calling spec (#3225) 2017-02-23 07:56:39 -06:00
Denis Davydov
60b7e13e1a fix py-setuptools (#3217) 2017-02-22 15:15:23 -08:00
Pramod Kumbhar
c9f705ffc2 Add SCOREC Core package for unstructured mesh simulations. (#3202) 
* Add SCOREC Core package for unstructured mesh simulations.
 2017-02-22 14:03:11 -08:00
Pramod Kumbhar
f86dcd8b4c Fix scotch build on bg-q (#3196) 
* Fix build issue #3190 on bg-q :
 - disable parallel build as it produces weired linker errors
   in cross compiling environment
 - update ldflags for bg-q as per Makefile provided Makefile.inc.ppca2_ibm_bgq
* Added note about -lpthread vs -pthread
 2017-02-22 11:04:14 -08:00
Kim Serradell
871a94ee41 Updating homepages and sources from two BSC packages (#3216) 
* Corrected extrae package homepage and url
* Corrected paraver package homepage and url
* To fix 'undefined reference to libintl_dgettext' appearing in extrae package when using binutils+libiberty
* Adding support to previous paraver version and reverting binutils changes to open another PR
 2017-02-22 11:03:25 -08:00
Todd Gamblin
539a454900 Convert Jaspert to AutotoolsPackage (#3212) 2017-02-22 09:29:34 -08:00
eklee15
52fab8fff3 Boost modification for IBM xl compiler (#3205) 
Tested with:
spack install boost@1.62.0+iostreams%xl_r^zlib%gcc^bzip2%gcc
 2017-02-21 16:40:09 -08:00
healther
177c54ecbf Add packages: mosh (#3098) 
* Add packages: mosh

Perl is a run dependency. See https://github.com/mobile-shell/mosh/wiki/Build-Instructions
 2017-02-21 09:50:06 -08:00
Javier
3195264546 Fix malformed py-appdirs patch (#3203) 2017-02-21 07:51:19 -06:00
healther
7827a0ff67 Default to OpenSSL 1.0 (#3100) 
* Added version 1.1 to openssl
* restore note explaining preferred=True for 1.0.2k
 2017-02-20 18:21:27 -08:00
Carlos Bederián
6681fc1a47 parallel-netcdf: use spack_cc for sequential code instead of system gcc (#3143) 2017-02-20 18:19:45 -08:00
Adam J. Stewart
d2a52d6dd6 Fix setuptools bootstrapping now that dependencies are no longer vendored (#3198) 
* Fix setuptools bootstrapping now that dependencies are no longer vendored
* Reorder patch and comments
* Use exact same patch as https://github.com/ActiveState/appdirs/pull/84
* Use exact same patch as https://sourceforge.net/p/pyparsing/patches/10/
 2017-02-20 18:09:03 -08:00
Javier
fbbcf456e9 Updating package: geant4 (#3197) 2017-02-20 17:33:32 -08:00
Adam J. Stewart
5b6d2754d9 Add MATLAB package (#2614) 
* Add MATLAB package
* Remove auto-accept license feature
 2017-02-20 16:10:06 -08:00
Barry Smith
ab2d6285c4 Add installer for petsc4py and slepc4py (#3187) 
* Add installer for petsc4py and slepc4py
* @adamjstewart requested changes on this pull request; make these type=('build', 'run')
* @citibeth suggestion  Remove unneeded indirect dependencies
 2017-02-20 15:43:33 -08:00
Adam J. Stewart
0203545eb8 Update CUDA docstring, no longer need to download manually (#3191) 
* Update CUDA docstring, no longer need to download manually
 2017-02-20 15:41:31 -08:00
Denis Davydov
031cde6e25 openblas: add develop version to make it work with Kabylake CPUs (#3192) 
* openblas: add develop version to make it work with Kabylake CPUs
* dealii: fix develop branch
 2017-02-20 15:40:46 -08:00
Pramod Kumbhar
8c2f5baa19 Fix zoltan installation issue on bg-q #3193 (#3194) 
Zoltan expects mpi libraries with option --with-mpi-libs.
If this option is not provided then it uses '-lmpi' which
may not be correct. To avoid this, we have to explicitly
pass empty string.

This adds notes to the source explaining the change.
 2017-02-20 15:39:51 -08:00
Adam J. Stewart
4de85ab4b7 Add new versions of several Python packages (#3195) 2017-02-20 15:38:30 -08:00
healther
8ebd49c962 add symlink variant (needed for AFS) (#3147) 
* add symlink variant (needed for AFS)

* fix flake8

* added missing return statement
 2017-02-20 17:14:44 -06:00
healther
c8cfe317c2 Added version 1.49.2 to gobject-introspection (#3090) 2017-02-20 07:53:33 -06:00
Carlos Bederián
4b9a37a357 silo: adding patch to support newer versions of hdf5 (#3162) 2017-02-19 17:45:19 -08:00
Barry Smith
7edea4361f Add installer for SAWs (#3186) 2017-02-19 17:44:16 -08:00
健美猫
a211795a0c Add Intel Parallel Studio XE 2016u4 and 2015u6. (#3182) 2017-02-18 19:12:05 -08:00
Adam J. Stewart
49d7f9db3d Add patches to allow PGI to build Tar properly (#3177) 2017-02-18 19:09:50 -08:00
Adam J. Stewart
4397ce8118 Replace GCC-specific warning flags with valid PGI flags (#3137) 2017-02-18 16:42:45 -06:00