Commit graph

3204 commits

Author SHA1 Message Date
Javier
0c9ddeafe4 Adding new package: py-keras (#3400)
* Adding new package: py-keras (and dependencies)

* Fixing dependencies
2017-03-10 12:48:22 -06:00
Jon Rood
6066526492 Confining CPPFLAGS=-P to only happen for GCC. (#3404) 2017-03-10 12:48:03 -06:00
Javier
22d7f9da40 Adding new package: py-py4j (#3390)
* Adding new package: py-py4j

* Adding missing depedency
2017-03-10 07:30:28 -06:00
Javier
a7f35b3db6 Adding new package: py-joblib (#3399) 2017-03-10 07:30:01 -06:00
Javier
84db03b5a8 Adding new package: vdt (#3396) 2017-03-10 07:08:41 -06:00
Javier
901f044bbf Adding new package: vc (#3397) 2017-03-10 07:08:17 -06:00
Javier
f0fd0156de Adding new package: py-pathos (and dependencies) (#3391)
* Adding new package: py-pathos (and dependencies)

* Fixing required versions
2017-03-09 17:28:32 -06:00
George Hartzell
611df0bebf New gcc uses C++14 mode, this fixes implicit conversion (#3392)
* New gcc uses C++14 mode, this fixes implicit conversion

The issue is described in depth [here][desc].  C++14 no longer
allows implicit conversion from iostream classes to void*.

This patch comes directly from [PR #6][patch].

[desc]: http://stackoverflow.com/questions/38659115/make-fails-with-error-cannot-convert-stdistream-aka-stdbasic-istreamchar
[patch]: https://github.com/agordon/libgtextutils/pull/6

* mend
2017-03-09 17:27:56 -06:00
Javier
ebd5066d07 Adding new package: py-4suite-xml (#3389) 2017-03-09 13:44:37 -06:00
Gregory Lee
604b75c1f9 created elf virtual package and updated dependent packages (#3317)
* created elf virtual package and updated dependent packages
* added `hide_files` context manager to handle moving files.
2017-03-09 10:36:32 -08:00
Erik Schnetter
2ac343e92e cosmomc: New package CosmoMC (#3292)
* cosmomc: New package CosmoMC

* cosmomc: Improve version numbering scheme

* planck-likelihood: New package

* cosmomc: Pacify flake8

* cosmomc: Code cleanup as requested in the review

* cosmomc: Various updates suggested during review

* cosmomc: Limit compiler versions (as documented in the build instructions)

* cosmomc: Correct flake8 error

* cosmomc: Use `libs` instead of `lapack_libs`

* planck-likelihood: Make makefile output more verbose and readable

* planck-likelilhood: Correct order of libraries when calling linker

* cosmomc: Clean up check for suitable compiler

* planck-likelihood: Use modern mechanism to set environment variables
2017-03-09 08:14:13 -06:00
Brian Van Essen
21e913bac5 Updated the spectrum-mpi package to get the right compiler names when (#3381)
we use spectrum.
2017-03-09 08:11:59 -06:00
Michael Kuhn
44b165461a udunits2: Add build dependency on texinfo (#3383) 2017-03-09 08:11:23 -06:00
Michael Kuhn
c1f8fbed34 ncl: Update to 6.4.0 (#3384) 2017-03-09 08:11:06 -06:00
Javier
e8c8e444e8 Fixing checkum of py-coverage v4.3.4 (#3386) 2017-03-09 08:10:45 -06:00
Massimiliano Culpo
f2c1cbdcd3 patch: configure and build out of source fixes #3387 (#3388) 2017-03-09 07:40:05 -06:00
Brian Van Essen
acf95c92a6 Fixes the Elemental and LBANN packages to conform to the new syntax (#3382)
introduced by PR https://github.com/LLNL/spack/pull/1875
2017-03-08 14:32:26 -06:00
healther
bacb60457d Add package py-guiqwt and dependencies (#3334)
* add package py-guiqwt with dependencies

* fixed url

* fixed url2

* Update package.py

* Update package.py
2017-03-08 10:18:57 -06:00
AP97
3d9cd72e33 Adding farmhash package from google (#3239)
* Adding farmhash package from google
2017-03-07 07:02:08 -08:00
Aidan San
5d1a16805e Added gemmlowp package (#3240) 2017-03-07 07:00:53 -08:00
Hans Pabst
2ae1ebbbe8 LIBXSMM 1.7.1 (#3371)
* Cleanup list of offered versions (only the latest update release of each minor version is kept: 1.4.4, 1.5.2, 1.6.6, 1.7.1); introduced master revision (via Git). Slightly more selective installation of the documentation; copy README.md and LICENSE files to documentation folder. Removed outdated build options (make_args); generally stay with LIBXSMM's defaults (general purpose build). Introduced one build variant ("debug").

* Incorporated comments of PR #3371 (https://github.com/LLNL/spack/pull/3371).

* Fixed flake8 complaints.

* Made the full list of versions available starting with version 1.4 (there are earlier releases, however those have been released before the Spack specification became available; original spec. also started with 1.4).

* Made DBG and TRACE actually two separate arguments.
2017-03-07 06:58:17 -08:00
Erik Schnetter
55e1550a59 openblas: Run tests only when requested (#3370)
The tests fail on some systems (e.g. Comet at SDSC) that impose limits on the number of processes or threads one can run simultaneously on the head node. Thus the tests should not be run by default.
2017-03-05 12:29:02 -06:00
Barry Smith
00d6cb9a8f Fixes veclibfort which was broken by PR1875 (#3368)
Funded-by: IDEAS
Project: IDEAS/xSDK
Thanks-to: Adam J. Stewart
2017-03-05 07:34:38 -06:00
healther
a7bab8a418 add package py-py-cpuinfo (#3339)
* add package py-py-cpuinfo

* renamed package to py-cpuinfo
2017-03-04 20:12:37 -06:00
Adam J. Stewart
a2d70a45fb Allow find_libraries to accept lists or strings (#3363)
* Allow find_libraries to accept lists or strings

* Convert one more example from list to string
2017-03-04 11:23:57 -06:00
Massimiliano Culpo
192a4b30f0 atlas: added a missing property decorator (#3366) 2017-03-04 10:24:48 -06:00
Denis Davydov
a36ed7fb9b fix blas/lapack usage after PR 1875 (#3365) 2017-03-04 09:42:02 -06:00
serbanmaerean
c3ac86310e ADIOS: change subclassing from Package to AutotoolsPackage (#3230)
* ADIOS: change the invocation of python script that generates test files

The python script ADIOS*/utils/gpp/gpp.py is invoked directly in the
ADIOS*/tests/genarray/Makefile and the name of the python interpreter
can be quite long if it is one built under spack, i.e. longer than the
80 characters allowed by the #! line in bash.  The name of the shbang
line is truncated at 80 characters and bash cannot find the python
interpreter specified.

This fix changes how the script is executed, by invoking it under
python. This way, the shbang line is ignored.

* adios: fixed flake8 errors from previous commit.

* adio: Switch to AutotoolsPackage class from Package class

Switched in order to add support for the ppc64le platform.
2017-03-04 07:53:50 -06:00
Jon Rood
0c1441c3e3 Using fPIC in PERL when using an Intel compiler. (#3355) 2017-03-04 07:50:38 -06:00
Adam J. Stewart
d52ac82f95 Convert gl2ps to CMakePackage (#3360)
* Convert gl2ps to CMakePackage

* Remove unused spec variable
2017-03-04 07:49:57 -06:00
Erik Schnetter
3e4fced7d8 ncurses: Work around an awk bug (#3361) 2017-03-04 07:49:12 -06:00
healther
1e6871add1 correct ipython dependency (#3332)
* correct ipython dependency

* needed to introduce a github download for py-jedi

* corrected dependencies

* restrict appnope dependency to darwin>10.8

* flake8 fix
2017-03-04 07:45:07 -06:00
healther
16c08fb5b3 add package py-junit-xml (#3336)
* add package py-junit-xml

* Update package.py

* flake8 fix
2017-03-04 07:44:36 -06:00
eklee15
c4e7cfe02b Added magma package (#3273)
* Added magma package

* Incorporated Serban's change

* Removed cmake dependency
2017-03-03 21:37:29 -06:00
healther
f34cd4be2b add package py-neo and py-quantities (#3337)
* add package py-neo and py-quantities

* Update package.py

* fixed errors
2017-03-03 21:34:20 -06:00
healther
ec81643906 add package py-pyminifier (#3340) 2017-03-03 21:34:04 -06:00
healther
b6ebfdaa60 add package py-serial (#3341)
* add package py-serial

* fixed setuptools dependency
2017-03-03 21:33:48 -06:00
healther
16e77086e0 add package py-pyfftw (#3342)
* add package py-pyfftw

* Update package.py
2017-03-03 21:33:31 -06:00
Adam J. Stewart
e7b019bf48 Revert "Make libgcc_s relocatable on Macos by adding @rpath to installname" (#3349) 2017-03-03 21:32:44 -06:00
Denis Davydov
003e841016 openblas: fix flags (#3344) 2017-03-03 19:30:35 -06:00
Andrew Holler
1cf8dbd200 features/highwayhash (#3242)
* Adding highwayhash package from Google

* Added the highwayhash package for Tensorflow

* Fixed the numerous flake8 issues

* fixed requested changes

* added conditionals for some installs

* forgot an import

* create install directories before you install anything in them
2017-03-03 19:00:43 -06:00
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