Commit graph

9167 commits

Author SHA1 Message Date
toffer93
8a97aa4c51 py-projectq: Added new package and fixed its dependency py-pybind11 (#8378)
* py-pybind11: Additionally install python extensions e.g. run python setup

* py-projectq: Added new package for quantum computing

* py-projectq: corrected typos

* edited flake8 incompatibilities

* additional flake8 faults

* changes according to suggestions

* flake8 errors fixed

* typo and missing environment variable set

* py-pybind11:added setup_environemt

* py-projectq:changed version according to request

* flake8 correction

* py-pybind11:changed to setup_py and removed noop

* py-projectq:removed dependency and changed type of py-pytest dependency

* py-pybind11: flake8 error corrected

* py-projectq: Small error correction
2018-06-09 16:22:25 -05:00
Kelly (KT) Thompson
689e0cb24b Git's gitk needs TK's wish to be found in PATH (#8360)
* Git's gitk needs TK's wish to be found in PATH

* Add a _runtime_ dependency on `tk`
* Add an environment rule to add the path to TK's `wish` program to $PATH for
  the generated `git` modulefile.

* Make TclTk run environment an optional variant for git.

* Cleanup based on PR recommendations.
2018-06-09 16:16:35 -05:00
Chris Green
15c98fa57c compiler flags: add cxx98 standard support (#7601)
The following improvements are made to cxx standard support
(e.g. compiler.cxxNN_flag functions) in compilers:

* Add cxx98_flag property
* Add support for throwing an exception when a flag is not supported (previously
  if a flag was not supported the application was terminated with tty.die)
* The name of the flag associated with e.g. c++14 standard support changes for
  different compiler versions (e.g. c++1y vs c++14). This makes a few corrections
  on what flag to return for which version.
* Added tests to confirm that versions report expected flags for various c++
  standards (or raise an exception for versions that don't provide a given cxx
  standard)

Note that if a given cxx standard is the default, the associated flag property will
return ""; cxx98 is assumed to be the default standard so this is the behavior for
the associated property in the base compiler class.

Package changes:

* Improvements to the boost spec to take advantage of the improved standard
  flag facility.
* Update the clingo spec to catch the new exception rather than look for an
  empty flag to indicate non-support (which is not part of the compiler flag API)
2018-06-08 13:49:31 -07:00
Yifan Zhu
ceb2790f30 r-mice: new package (#8423)
* r-mice: new package

* flake8 fixed
2018-06-08 14:48:54 -05:00
Elizabeth Fischer
4a53942ee1 tcl package: Install sources (#8153)
The tcl package references the original sources upon install, and the tk build
requires the tcl sources. This updates the tcl package to install its sources following
the example of #4102, and also updates the tclConfig.sh file to properly reference
the installed sources (rather than the staging directory created by Spack).
2018-06-08 11:10:40 -07:00
Oliver Pola
cd860d7554 new version scotch@6.0.5a (#8254)
* new version scotch@6.0.5a

* patch metis headers on scotch@6.0.4 according to https://gforge.inria.fr/tracker/?func=detail&atid=1082&aid=19521&group_id=248
2018-06-08 08:39:03 -05:00
Ricardo Silva
9b2953939b GDL and missing dependencies (#8283)
* GDL and missing dependencies

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* GDL and GraphicsMagick improvements

* GDL: sort variants and dependencies, add descriptions
* GDL: add wx variant
* GDL: make variants explicit (in cmake args)
* GraphicsMagick: sort dependencies
* GraphicsMagick: cleanup boilerplate comments

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* Improvements/Fixes for gdl, plplot and graphicsmagick

* gdl:
  * variants:
    * openmp
    * be explicit about enabling/disabling x11
  * dependencies:
    * logic for plplot with/without wx
    * some previously missing (where being picked up from the system)

* graphicsmagick: previously missing dependencies (where being picked up from the system)

* plplot: more versions + variants + dependencies

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* GDL: hdf4/5 variants

* also sorted explicit enabling/disabling of cmake flags for readability

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* plplot: fix variant descriptions

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* Add tcl variant, use find_libraries for portability

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>

* plplot: flake8

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>
2018-06-08 08:35:28 -05:00
Michael Kuhn
7488ed4ff5 go: Update to 1.10.3 (#8426) 2018-06-08 07:35:43 -05:00
sknigh
7f6f83d173 Added elastic search (#8424) 2018-06-07 23:17:07 -05:00
Chris Green
25024b68d0 Update intel-tbb to 2018.3 and improve version URLs, dependencies and patching. (#7932)
* Update to 2018.3 and improve version URLs, dependencies and patching.

Improve to version -> URL translation to be algorithmic rather than manual.

Make binutils build dependency explicit where appropriate because we're sensitive to the assembler used.

Build's use of '-mrtm' is only patched away if it needs to be because the assembler is too old.

Incorporate @adamjstewart request to convert GCC version check to a conflict.

* Allow specification of C++ standard.

* Improve TBB patch per PR comments.

* Restrict RTM patch application to older OS only.

* New version 2018_U4.
2018-06-07 23:16:31 -05:00
Miles Perry
21ff3c9ac1 pbbam: new package (#8365)
* pbbam: new package

* pbbam: updated version

* pbbam: added option tests handling

* pbbam: flake8 edits
2018-06-07 22:44:30 -05:00
Corey McNeish
c8a3a650fa Fix hydrogen@develop build (#8262)
* Delete support for old versions of Elemental in Hydrogen

* Fix cmake_args versions in lbann

* Remove unused import (again)

* Revert elemental to pre-llnl fork

* Strip tailing whitespace from libgfortran.so

* Fix flake8

* Remove debug print

*  * Add back elemental@develop
 * Prohibit installation of hydrogen previous to 0.99

* Fix flake8

* Change cmake_args error to a conflicts for old versions of Hydrogen

* Use ~ not -
2018-06-07 18:08:23 -05:00
Yifan Zhu
1a8bb78824 Fermi Science Tools: New package (#8126)
* fermisciencetools: new package

* fermisciencetools: new package

* added comments about the error in building the source distribution; fixed flake8 errors
2018-06-07 14:07:39 -05:00
healther
980817575a add python cache removal to spack clean (#8419)
Remove .pyc and .pyo files along with __pycache__directory if the user provides
the -p/--python-cache option to "spack clean"
2018-06-07 10:33:38 -07:00
healther
1d3ad6ea7e add sqlitebrowser (#8418)
* add sqlitebrowser

Change-Id: I20cac709509e82d348cebc11b0d584b53b2ad3d4

* add message and clean up unnecessary code

Change-Id: Ib9d2229ee25d751274680d06824891ee78fa5970

* and make flake8 happy

Change-Id: I814eb89eefe1767af4d8043b08b61991750516df

* make gcc-independence great again

Change-Id: I75f7271757782a6735eb7f03c0551d190722974d

* remove explicit import of dso_suffix

Change-Id: I626c6391b22524895199db5508606c4cf22bf9b5
2018-06-07 11:34:29 -05:00
healther
af881b8c2e fix qt@5.8: build on systems without wayland (#8417)
* fix qt@5.8: build on systems without wayland

Change-Id: I56b83208edd46f50e003d82c071e296e905bfb15

* add links

Change-Id: Ia16fc20632690340f33df77fbdcb1a166d49cedc

* move 5.8 comparison into 5.7 configure block

Change-Id: I7dc606beeb5b5bf4e8263bc50d28de6591633c99
2018-06-07 10:50:05 -05:00
Daryl W. Grunau
a6e0837b31 googletest: add a shared variant for all supported versions (#8373)
* add a shared variant for all supported versions

* address comment from @citibeth about MacOS lib installs

* address additional comments from @citibeth about MacOS lib installs

* set +shared variant to be default behavior
2018-06-07 10:34:37 -05:00
healther
b5a48f44bc add commented test dependencies (#8407)
* add commented test dependencies

Change-Id: I38ffd3caa77a59f2a0a7ae92a9c8e8215cf5b4d6

* readd make('test') to openssl

Change-Id: Ia3733a3848a2a26729b4050c7d4439ea9de17b1a
2018-06-07 10:33:59 -05:00
Sajid Ali
f1ba43d4a4 modified: var/spack/repos/builtin/packages/py-psutil/package.py (#8420) 2018-06-07 10:26:48 -05:00
Javier Cervantes
f3cb8ee6cf Add new package: ftgl (#8416)
* Add new package: ftgl

* Check version using decorator
2018-06-07 08:48:27 -05:00
Axel Huebl
93791beb23 openPMD-api: Update Dependencies (#8330)
We need a newer version of HDF5 and dropped the boost dependency.

Modernize the test variant to the spack test functionality.
2018-06-07 08:12:18 -05:00
healther
7e649c1205 add package py-cartopy and dependencies (#8406)
* add package py-cartopy

Change-Id: Ifbe541e852921c384a381594a2c1110814556311

* fix comments and flake8

Change-Id: I8d5e994580e8252e00654e68ad79d74e06089939

* remove pip dependency... not sure why added in the first place

Change-Id: Ie2a788887dac30778cc43931a0732980a347514d

* move build, link, run to default dependencies

Change-Id: I1ec0cb7dc4a697c4ca9e68a0cc0d8694cc21c100
2018-06-07 08:10:39 -05:00
scheibelp
c97d058ce3
Fix bug where patches specified by dependents were not applied (#8272)
Fixes #7885

#7193 added the patches_to_apply function to collect patches which are then
applied in Package.do_patch. However this only collects patches that are
associated with the Package object and does not include Spec-related patches
(which are applied by dependents, added in #5476).

Spec.patches already collects patches from the package as well as those applied
by dependents, so the Package.patches_to_apply function isn't necessary. All
uses of Package.patches_to_apply are replaced with Package.spec.patches.

This also updates Package.content_hash to require the associated spec to be
concrete: Spec.patches is only set after concretization. Before this PR, it was
possible for Package.content_hash to be valid before concretizing the associated
Spec if all patches were associated with the Package (vs. being applied by
dependents). This behavior was unreliable though so the change is unlikely to
be disruptive.
2018-06-06 18:28:25 -07:00
Javier Cervantes
728351faae Add new package: davix (#8376)
* Add new package: davix

* Add list_url

* Remove extra spaces, add list_depth and specify dependency type
2018-06-06 18:54:07 -05:00
Sheng Di
8e161f1034 remove pwrType from the interface SZ_compress_args() (#8414) 2018-06-06 17:44:47 -05:00
Yifan Zhu
2c13e9c0e5 r-mitml: new package and its dependencies r-jomo and r-pan (#8412) 2018-06-06 17:44:32 -05:00
ynanyam
5c3adff49b libjpeg-turbo: updated checksums and added autoreconf for older versions (#8411) 2018-06-06 16:18:03 -05:00
Axel Huebl
0495b5474b ADIOS: Serial API with Parallel Lib (#8409)
Provides a patch for the fix in
  https://github.com/ornladios/ADIOS/pull/182

Installed ADIOS MPI-enabled libraries are with that able to also
perform serial I/O without the need to start the whole app via
`mpiexec`.
2018-06-06 15:38:36 -05:00
Javier Cervantes
8b261506cb Add new package: rngstreams (#8395)
* Add new package: rngstreams

* Remove unnecessary list_url
2018-06-06 12:10:56 -05:00
Axel Huebl
d1d731bf83 xsimd: test type (#8405)
Add the new type 'test` to the `googletest` dependency
of xsimd.
2018-06-06 12:10:34 -05:00
Javier Cervantes
34149e9a2b Add new package: prng (#8396)
* Add new package: prng

* Add missing dependencies and use force_autoreconf option

* Add dependency types
2018-06-06 12:07:16 -05:00
Axel Huebl
1a27f911d3 Fix ADIOS 1.13.1: Maxium SZ (#8408)
Fix the maximum accepted SZ version for the latest ADIOS release.
2018-06-06 11:58:15 -05:00
Axel Huebl
e6d2cd6ff0 numpy: nosetest (#8404)
the type 'test' exists now :-)
2018-06-06 10:33:31 -05:00
Axel Huebl
6449f5bde7 ISAAC Server 1.3.3 (#8403)
Forgot to bump this package with the library release.
2018-06-06 10:12:47 -05:00
Andrey Prokopenko
c86628880f Trilinos update (#8363)
* trilinos: add more package conflicts

This was done by putting in required lib dependencies from each
package's `cmake/Dependencies.cmake`.

* trilinos: added few more trilinos packages

* trilinos: hiccup fix
2018-06-06 08:04:33 -05:00
lingnanyuan
7c1231e7f8 r-splitstackshape: Create new package. (#8370)
* r-splitstackshape: Create new package.

* r-splitstackshape: Add version constraints.

* add list_url and change dependency type.
2018-06-06 08:03:23 -05:00
Sheng Di
b0b3b258c0 add 1.4.13.4 for SZ (#8375)
* add 1.4.13.4 for SZ

* undo spack link (change llnl/spack to spack/spack) and change .zip to .tar.gz

* revise package.py for SZ 1.4.13.4 based on Adam's comments.
2018-06-06 08:02:03 -05:00
Massimiliano Culpo
6cc4ad4caa py-mpmath: added version 1.0.0 (#8382)
* py-mpmath: added version 1.0.0

* Fixed checksum for version 0.19
2018-06-06 07:59:53 -05:00
Massimiliano Culpo
891a15f409 py-scikit-learn: added version 0.19.1 and updated dependencies (#8399)
py-numpy: added version 1.14.3
py-scipy: added version 1.1.0
2018-06-06 07:41:48 -05:00
Massimiliano Culpo
38ccc07a48
py-theano: added version 1.0.2 (#8400) 2018-06-06 13:58:20 +02:00
Massimiliano Culpo
e107a50d0a py-sympy: added version 1.1.1 (#8381) 2018-06-05 13:42:18 -05:00
Massimiliano Culpo
ee735e58a8 py-cython: added version 0.28.3 (#8379) 2018-06-05 13:36:29 -05:00
Massimiliano Culpo
88e18a3db7 Added py-pip 10.0.1 and py-setuptools 39.2.0 (#8377) 2018-06-05 13:36:09 -05:00
Massimiliano Culpo
e7f82163bf py-virtualenv: added version 16.0.0 (#8380) 2018-06-05 13:35:43 -05:00
Massimiliano Culpo
df1e23335c Preserve Spack CC/FC/F77/CXX settings when loading modules (#8346)
Fixes #8345

Spack environment modifications are applied before modules are loaded; this
includes settings to CC, FC, F77, and CXX, which point to the Spack compiler
wrappers. If the loaded modules set CC, this overrides the Spack compiler
wrappers. This PR adds a context manager to preserve the values of CC etc. that
are set by Spack: any effects on the CC, FC, F77, and CXX variables from modules
are undone and their original values are restored.
2018-06-05 11:26:30 -07:00
Daniel Topa
a226559347 added line 43 (#8369)
version('1.4.1.2', '38c7d33210155e5796b16d536d1b5cfe')

Signed-off-by: Daniel Topa <dantopa@lanl.gov>
2018-06-04 15:04:45 -05:00
Daryl W. Grunau
4ea16fe3e4 clean up version names (#8368) 2018-06-04 15:04:12 -05:00
Yifan Zhu
fcfcd7689a New package: phast (#7993)
* adding partially completed recipe for phast. will need clapack as dependency

* try to install phast

* seems to still need CLAPCK

* using CLAPACK instead

* phast: updated

* fixed flake8 error

* phast cannot build with clapack built with external blas?

* phast: depend on clapack built without external blas

* fixed flake8 errors

* phast: updated build_directory
2018-06-04 13:22:47 -05:00
Yifan Zhu
3144eb4039 New package: clapack (#7992)
* clapack: new package

* clapack: updated edit phase and fixed flake9 errors

* clapack: added description for variant

* clapack: updated

* removed .package.py.swo
2018-06-04 13:19:27 -05:00
Axel Huebl
add7f2b09a pybind11: test functionality (#8304)
* pybind11: test support

Add a test functionality to pybind11.

* CMake: test also on "make check"

Some projects use non-CTest manual targets for tests.
2018-06-04 09:50:02 -05:00