Commit graph

2765 commits

Author SHA1 Message Date
Stephen McDowell
3887d9b2bc Scotch 6.0.4 is available. (#2552)
Source project page states [6.0.4 is latest stable](http://scotch.gforge.inria.fr/)
2016-12-10 16:23:03 -08:00
Barry Smith
3a1e191b72 Implementation of spack file for Pflotran (#2444)
Supports installing both a "known version" of PETSc/PFlotran that works and
the develop/master branches of both packages

Funded-by: IDEAS
Project: IDEAS/xSDK
Time: 4 hour
2016-12-10 16:22:36 -08:00
Tom Scogland
943c007fb5 update flux dependencies and package (#2541)
* update flux dependencies and package

* refinements from @adamjstewart

* fix flux document generation

The docbook-xsl package has been added, and correctly configures catalog
files to generate documentation correctly with asciidoc.
2016-12-09 17:19:53 -08:00
Denis Davydov
d7e9134d42 astyle: do not set user/group when installing on macOS (#2542)
* astyle: do not set user/group when installing on macOS

* astyle: add new version
2016-12-09 10:58:08 -08:00
Denis Davydov
4d0ea423fb petsc: explicitly disable X11 (#2533)
otherwise petsc may pickup libX11 on login nodes during config/build,
but libX11 may not be available on computation nodes.
2016-12-09 08:43:38 -08:00
Sergey Kosukhin
607f4e7b81 Added packages: cmor and uuid. (#2527)
* Added package 'uuid'.

* Added package 'cmor'.

* Updated 'cmor' and 'uuid': docstring formatting.
2016-12-08 12:09:21 -08:00
Todd Gamblin
be300eb6d5 Add support for parsing R-XML URL versions. (#2525)
* Add support for parsing R-XML URL versions.

* Better url-parse debug output.

- just print the debug stuff all the time.

* fix R-XML versions.
2016-12-08 11:08:58 -08:00
George Hartzell
65df417444 Update emacs: current release, use our x11 bits (#2052)
* Update emacs: current release, use our x11 bits

Add checksum for 25.1 release.

Rework the X support:

- use Spack's X11 bits
- add ability to specify an X toolkit (gtk or athena, default is gtk).
- change toolkit names to align with Emacs' configure usage.

* PEP8 cleanups.

* glib dependency should not be type=build

I'd like to blame that on a typo, but it's a few too many characters
for that to be viable.  I'm not sure what I was thinking.

* Pass X variant down: emacs->pango->cairo

* X variants default to False, warn on bad toolkit

Change the X variants for emacs, pango and cairo to default to False.

Check that the toolkit is a valid choice and give a reasonable error if
not.

* Fix flake8 issue, reword warning text

* gtkplus needs to use +X variant for pango to work

In order for a useful variant of pango to be built into the spec I
needed to make the dependency on gtkplus explicitly specify it's X
variant.  The X variant is the default, but that wasn't enough to make
it happy.  Since it's happiness is the most imporant thing in the
world, this change! :)
2016-12-08 09:43:29 -08:00
Adam J. Stewart
ed8060abe0 Scotch fails to build with latest flex (#2523) 2016-12-08 09:37:18 -08:00
Denis Davydov
cab8788f53 dealii: remove dependencies which are not needed (#2522) 2016-12-08 07:29:22 -08:00
George Hartzell
5f01f273e0 Add version/digest for emacs 25.1 (#2511)
* Add version/digest for emacs 25.1

* Put newest version at top of list
2016-12-07 16:33:41 -08:00
Andrey Prokopenko
bb7b51855a yaml-cpp: add boost dependency (#2517)
yaml-cpp has a boost dependency, and according to [yaml-cpp
page](https://github.com/jbeder/yaml-cpp):
    yaml-cpp 0.5.3 has been released! This is a bug fix release. It also
    will be the last release that uses Boost; futures releases will require
    C++11 instead.
2016-12-07 13:55:12 -08:00
George Hartzell
72c01fbd33 Building lua-luafilesystem requires a newish-git (#2515)
See #2059 for background.

I'm unable to install `lmod` because lua-luafilesystem fails.

The luarocks install bits attempt to do a shallow clone of the luafilesystem
sources and the default git on my CentOS 7 test box (`git version 1.8.3.1`)
fails.

This adds a build dependency that ensures that a relatively modern git is
available.
2016-12-07 12:12:53 -08:00
George Hartzell
f3410a0b1d Update texlive digest value (#2514)
* Update texlive digest value

While the discussion in #2494 progresses, this changes fixes the digest
values so that builds succeeed.

* Add warning that texlive is not repeatably installable
2016-12-07 12:02:22 -08:00
Andrey Prokopenko
3088cb171e netcdf: add checksum for 4.3.3.1 version (#2509) 2016-12-07 09:34:31 -08:00
Andrey Prokopenko
8239bd1681 cmake: added checksum for 3.1.0 version (#2508) 2016-12-07 09:33:54 -08:00
Barry Smith
76dae1dc5f hypre, superlu-dist, trilinos - support using develop/master branches of these packages (#2443)
Funded-by: IDEAS
Project: IDEAS/xSDK
Time: 1 hour
2016-12-06 12:10:51 -08:00
Joseph Ciurej
9c57a49bf4 Fixed a few minor issues with the 'fontconfig' package install script. (#2491) 2016-12-06 10:39:59 -08:00
Andrey Prokopenko
9edb31a51c hdf5: added 'pic' variant (#2373) 2016-12-05 11:57:04 -08:00
Adam J. Stewart
9115ab5097 Add Java support to OpenMPI (#2285)
* Update OpenMPI to the AutotoolsPackage

* Add Java support to OpenMPI

* Fix missing commas

* Be more specific about what versions support what flags

* Revert description for thread_multiple variant
2016-12-05 10:15:12 -08:00
Elizabeth Fischer
cd0524b5b7 py-rtree: Added package (#1548)
* py-rtree: Added package

* py-rtree = RTree (spatial indexing) data structure for Python
* libspatialindex = Underlying C library wrapped by py-rtree

* Flake8 and Copyright issues.

* Fix Python syntax error.

* Fixed dependency type error.

* Added new version, based on updates requested in upstream PR

* 1. Change cmake to build dependency.
2. Updated to CMakePackage
2016-12-05 10:08:52 -08:00
Denis Davydov
24093a932c ghostcript-fonts: fix install on macOS (#2482) 2016-12-05 08:28:35 -08:00
Denis Davydov
2d1ab68656 xextproto: fix on macOS by not running parallel build (#2483) 2016-12-05 08:28:02 -08:00
George Hartzell
f0dcb5bbf7 Update go to 1.7.4 and 1.6.4 to fix security issues (#2467)
* Update go to 1.7.4 and 1.6.4 to fix security issues

The go team recently rolled out two releases to address security
issues.  Details available on the [go release
site](https://golang.org/doc/devel/release.html).

This commit updates our explicitly supported versions.

It also includes a comment about two CentOS requirements (enable
user_namespace and ensure that the static c library is installed) that
are required for the pacakges to pass their tests.

* Flake8 cleanup
2016-12-03 16:44:03 -08:00
Andrey Prokopenko
f17c22dfb5 zlib: added 'pic' variant (#2470)
It looks more complicated because zlib has custom configure which does
not support CFLAGS option. So instead, we take it from environment.
2016-12-03 16:43:44 -08:00
George Hartzell
6ddc518417 Update git package to include 2.11.0 (#2471) 2016-12-03 16:41:12 -08:00
hegner
2f46613132 Fix download URL and dependencies for py-pypar (#2430)
* fix download URL and dependencies for py-pypar

* use url_for_version in py-pypar
2016-12-02 13:56:00 -08:00
Nicolas Richart
cc92b9a3a2 foam-extend: modification to accept flex version >= 2.6 (#2452)
* Modification to accept flex version >= 2.6 + bug fix on paraview dependency

* flake8 "corrections"
2016-12-02 13:51:03 -08:00
Elizabeth Fischer
18878a8615 doxygen: Disable unnecessary graphviz dependency by default. (#2323) 2016-12-02 10:56:40 -08:00
Jon Rood
8b612d3568 Updating SuperLU package to use pic_flag instead of -fPIC, and removing specific version for default install method. (#2456) 2016-12-02 10:47:35 -08:00
Jon Rood
946605a4c9 Updating yaml-cpp from Package to CMakePackage. (#2457) 2016-12-02 10:41:18 -08:00
Gregory Lee
84dc0b5b83 new intel parallel studio versions (#2459) 2016-12-02 10:35:36 -08:00
Andrey Prokopenko
3024c0096a cmake: update the requirements for --no-system-jsoncpp option (#2312)
The option appeared in CMake 3.2 (specifically, in 3.2.0-rc2, see
https://cmake.org/pipermail/cmake-developers/2015-February/024552.html).
2016-12-01 17:51:00 -08:00
George Hartzell
c01f78e515 Make X11 font install dir the font search default (#2203)
* Make X11 font install dir the font search default

We install the X11 fonts into `/share/fonts` beneath the font-util
installation prefix, but that directory is not one of the places that
the font subsystem searches.

This commit makes the fontconfig package depend on the font-util
package, and then it makes

```python
spec['font-util'].prefix + "/share/fonts"
```

be the fontconfig default font location.

Before this change, plots drawn by R have bounding boxes where font
glyphs should be.  After this change fonts appear as expected.

* Enrich description string (trigger new CI run)

Improve the docstring for the package.

Also interested in the side effect of triggering another CI run
to see if the recent flake8 fix lets this PR run clean.

* Flake8 cleanups
2016-12-01 17:38:00 -08:00
hegner
8dae60c5f0 Fix py-scientificpython and py-argcomplete dependencies (#2420)
* add missing py-numpy dependency to scipy

* add missing setuptools build dependency to py-argcomplete
2016-12-01 14:34:07 -08:00
Sergey Kosukhin
c6e2d9c1b0 Updated hdf5: new versions added. (#2442)
* Updated hdf5: new versions added.

* Updated hdf5: url_for_version() accounts for per-version urls.
2016-12-01 14:31:27 -08:00
Bruno Turcksin
bc4237c93e Update trilinos version to 12.10.1 (#2454) 2016-12-01 11:52:05 -06:00
Denis Davydov
6ce0ee49a9 likwid: add new package (#2455) 2016-12-01 11:51:23 -06:00
Gregory Lee
8e816f8f88 Merge pull request #2364 from davydden/ips_mkl
intel-parallel-studio: fix location of MKL libs
2016-12-01 09:21:37 -08:00
George Hartzell
8ab69c4d32 Update R&friends to use our X11 libs (#2053)
* Update R&friends to use our X11 libs

Add `depends_on()`'s for R, Cairo, and Tk so that they use the Spack X
bits.

* Conditionalize X stuff on variant

Another step towards hooking up the X stuff.

There's still discussion happening on the issue, but this is better
than the 'everything must build with X' state that it was in.
2016-11-30 15:49:49 -06:00
Javier
5eb7026dd1 New package - r-irkernel (#2434)
* New package - r-irkernel

* New package - r-pbdzmq, dependency of r-irkernel

* Adding blank line expected by flake8 tests
2016-11-29 16:59:28 -08:00
Joseph Ciurej
3d439d8946 Added the '+debug' and '+except' variants to the 'tetgen' package. (#2370)
Fixed a bug that was causing memory errors after asserts in 'tetgen@1.5.0'.
2016-11-29 16:18:03 -06:00
Javier
e3778923b6 New package - r-rbokeh (#2436) 2016-11-29 11:29:46 -06:00
Erik Schnetter
00ad8e87f4 jemalloc: Update to 4.3.1 (#2435)
This corrects a severe problem (segfault) on macos Sierra.
2016-11-29 09:51:55 -06:00
Barry Smith
4d56d4f1f9 add support for installing the development (master) version of PETSc (#2431)
Funded-by:  IDEAS
Project:  IDEAS/xSDK
Time:   .3 hours
x
2016-11-29 09:28:09 -06:00
Adam J. Stewart
664939eeba Fix building latest version of flex (#2401)
* Fix building latest version of flex

* Don't need when clause

* Remove perl deps, shebang too long
2016-11-28 09:48:34 -08:00
hegner
a2e6de9b5d add missing zeromq dependency to r-rzmq (#2425) 2016-11-28 09:14:16 -08:00
Javier
bb5bd8091d New package - r-pryr (#2424) 2016-11-28 09:14:10 -08:00
Javier
2d43b56deb New package - r-uuid (#2423) 2016-11-28 09:14:05 -08:00
Javier
6e68a01e50 New package - r-rmarkdown (#2422) 2016-11-28 09:14:00 -08:00