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Author SHA1 Message Date
homerdin
5bad9dfeac New Package: MiniAMR (#4701) 
* New Package: MiniAMR

* Removed empty braces string formatting
 2017-07-10 18:30:08 -05:00
homerdin
45e731d574 New Package: HPCCG (#4693) 
* New Package: HPCCG

* Moved Run Script Install Location
 2017-07-10 12:31:41 -05:00
homerdin
c908ccecdc New Package: MiniAero (#4694) 2017-07-10 12:31:23 -05:00
Audrey Thoma
02258056fd exabayes: new pacakge (#4695) 
* exabayes: new pacakge

* exabayes: added configure arg

* exabayes: adding comments regarding compilers
 2017-07-10 12:29:59 -05:00
Audrey Thoma
1f9d6927b7 csdp: new pacakge (#4700) 2017-07-10 12:28:51 -05:00
Audrey Thoma
c80bca00ff ea-utils: new package (#4690) 
* ea-utils: new package

* ea-utils: simplifying self.spec.prefix

* ea-utils: added comment about perl

* ea-utils: fixing flake8 error
 2017-07-10 12:26:03 -05:00
EmreAtes
1abf31d3fa New package: CoMD (#4697) 
* New package: comd

* Avoid re-defining build
 2017-07-09 09:05:11 -05:00
Mike DePaulo
72aa99cb24 GCC: Add strip variant to reduce installation size (#4670) 
* gcc: Add strip variant

* gcc: Fix strip variant description being too long
 2017-07-07 22:17:52 -05:00
George Hartzell
efecefd4dd Add a package for tophat (#4698) 
Lightly tested on CentOS 7.
 2017-07-07 22:15:38 -05:00
Audrey Thoma
56b959501a fastx-toolkit: solving gcc conflict (#4696) 2017-07-07 16:53:15 -05:00
Christoph Junghans
1886b0b370 New package: quinoa (#4686) 2017-07-07 11:11:53 +02:00
homerdin
60a8b68a7e Added TeaLeaf Package (#4683) 2017-07-07 10:54:34 +02:00
Axel Huebl
46e3c2b274 Isaac Server 1.3.1: New version (#4689) 
adds a new release of isaac-server.
 2017-07-07 10:51:09 +02:00
Audrey Thoma
d64405a30f emboss: new package (#4691) 2017-07-07 10:47:26 +02:00
Axel Huebl
396e76eb7c New Packages: gearshifft, clFFT (#4560) 
Adds the `gearshifft` package, a benchmark suite for heterogeneous implementations of FFTs.
Adds clFFT, a software library containing FFT functions written in OpenCL.

see: https://github.com/clMathLibraries/clFFT
 2017-07-07 10:46:35 +02:00
Gregory Lee
28cb1e4379 patch config.guess after autoreconf step (#4604) 2017-07-06 23:07:54 -05:00
Audrey Thoma
e003e2f78b cap3: new package (#4680) 
* cap3: new package

* cap3: removing boilerplate

* cap3: fixed version and added doc
 2017-07-06 13:34:40 -05:00
George Hartzell
8fe51b3ffc Make vcftools actually install its libraries (#4682) 
The vcftools package was installing its Perl libraries into a
directory in the staging directory named 'lib', instead of installing
them into `prefix.lib` where they should have been because the value
passed to the configure script was wrong.

The result was that any attempt to run one of the scripts in the
package failed with something like:

> Can't locate VcfStats.pm in @INC (you may need to install the
> VcfStats module) [...]

This fix provides the correct information in `configure_args`.

Tested lightly on CentOS 7.
 2017-07-06 13:33:57 -05:00
Axel Huebl
b749986dcc Isaac 1.3.1: New version (#4685) 
adds a new release of isaac.
(1.3.0 forgot to bump the internal version number
in include macros)
 2017-07-06 13:23:11 -05:00
Audrey Thoma
c3d0911cf6 cdbfasta: new package (#4681) 2017-07-06 17:10:25 +02:00
Audrey Thoma
df99fb4980 New package butter (#4679) 
* butter: new package

* butter: fixed dependency type
 2017-07-05 19:33:43 -05:00
Audrey Thoma
4beb76daf6 New package bucky (#4677) 2017-07-05 21:09:01 +02:00
Pramod S Kumbhar
bf195cd8b9 Fix for building osu-micro-benchmarks on OS X (librt not avaialble/required) (#4675) 
* Fix for building osu-micro-benchmarks on OS X (librt not available/required)

* Fixed typo and replaced extend by append
 2017-07-05 13:31:26 -05:00
Audrey Thoma
09681f721d Package ampliconnoise (#4676) 
* ampliconnoise: new package

* ampliconnoise: fixed installation

* ampliconnoise: fixing install again
 2017-07-05 13:30:40 -05:00
Massimiliano Culpo
f403117f71 libint: factored parts of configure_args into their own functions (#4211) 
* libint: factored parts of configure_args into their own functions

* libint: added -xSSE2, as suggested by @lee218llnl
 2017-07-05 09:19:39 -05:00
Michael Kuhn
e3bd6e3d93 gcc: Add version 6.4.0 (#4673) 2017-07-05 15:44:07 +02:00
Philip Davis
58915e6e7f New package: DataSpaces (#4651) 
* Dataspaces spack package, hard-wired for ubuntu VM

* Initial commit of dataspaces spack package

* Made changes and additions necessary to install on Cori and Titan

* Added temp 1.6.2.1 for testing

* Updated tar file for 1.6.2

* Fixed formatting

* Set the type of build dependencies

* Changed the way autogen.sh is called for compatibility

* Use append instead of extend to add configure flags

* Various syntax fixes

* Switched string checking to method for compatibility
Now using the six library for Python 3 compatibility. Thanks @adamjstewart

* Made MPI variant default
 2017-07-04 13:56:33 -05:00
Todd Gamblin
b4d1654e68 Parametrized lock test and make it work with MPI 
- Lock test can be run either as a node-local test or as an MPI test.

- Lock test is now parametrized by filesystem, so you can test the
  locking capabilities of your NFS, Lustre, or GPFS filesystem.  See docs
  for details.
 2017-07-04 11:41:37 -07:00
Todd Gamblin
bd7a591df1 Make filesytem more resilient to concurrent updates. 
- Uses O_CREAT for touch (for guaranteed atomic open on NFS, multi-node)
- Ignore concurrent create errors in mkdirp
 2017-07-04 11:41:37 -07:00
Todd Gamblin
326e2f7f66 Ported lock test to pytest. 2017-07-04 11:41:37 -07:00
Kshitij Mehta
81d696cc66 mpix-launch-swift: MPIX_Launch library tailored to work using swift-t (#4656) 2017-07-03 18:10:06 -07:00
Mark Olesen
f49f7b5bc5 add openfoam community packages for adiosWrite (#3726) 2017-07-03 18:00:59 -05:00
Mark Olesen
76b9563dc3 new OpenFOAM June 2017 release: OpenFOAM-v1706 (#4652) 
- renamed develop version from 'plus' to 'develop'

- patches now prefixed by corresponding OpenFOAM version number.
  This makes it easier to sort and see what old/junk exists.

- remove MPI_BUFFER_SIZEk env variable (for all openfoam variants).
  The OpenFOAM shell setup addresses this and there is no reason
  to pollute the module environment at this stage.
 2017-07-03 17:54:50 -05:00
Levi Baber
245eee7a56 sabre (#4619) 
* sabre initial commit, works but test does not

* removing test until I have time to fix it

* sabre: fixing flake8 errors

* sabre: changing to MakefilePackage
 2017-07-02 08:31:17 -05:00
Jimmy Tang
f6e2320ef0 Apply patch to allow users to change path of lock file (#4649) 
See - https://github.com/Microsoft/CNTK/issues/62
 2017-07-02 08:26:23 -05:00
Barry Smith
182554520f PETSc requires metis build with compatible numerical precision (#4654) 
Commit-type: bug-fix, portability-fix
Funded-by: IDEAS
Project: xSDK
Time: .4 hours
Reported-by: Stanislav Y Sergienko <ssergien@anl.gov>
 2017-07-02 08:09:05 -05:00
Andrey Prokopenko
77527ce1ae Trilinos: add ForTrilinos resource (#4660) 2017-07-02 08:05:47 -05:00
Michael Kuhn
a88e93852d antlr: Use official sources (#4662) 
The tarball used until now is not available anymore.
 2017-07-02 08:05:09 -05:00
Michael Kuhn
51ee9a1a6b Update go and go-bootstrap (#4664) 
* go-bootstrap: Update to 1.4-bootstrap-20170531

Clean up empty patch method.

* go: Update to 1.8.3
 2017-07-02 08:02:27 -05:00
Michael Kuhn
a3765d8a23 shared-mime-info: Depend on pkg-config (#4663) 2017-07-01 12:12:29 -05:00
Michael Kuhn
a9c83d64f0 qt: Update to 5.9.1 (#4661) 
5.9.0 fails to build with disabled OpenGL.
 2017-07-01 09:16:49 -05:00
Adam Moody
4dc79f9efb mpifileutils: update to v0.7 (#4642) 
* mpifileutils: update to v0.7

* mpifileutils: disable --enable-experimental in v0.6 and earlier

* mpifileutils: list newest version first, avoid experimental switch unless at v0.7 or later
 2017-06-30 11:53:47 -05:00
Michael Kuhn
2e6a735b00 mvapich2: Fix mpifort wrapper (#4650) 2017-06-30 11:51:07 -05:00
Mark Olesen
cabcfb032f update libdrm version (fixes #4645) (#4646) 2017-06-30 06:48:43 -05:00
Adam J. Stewart
9933d759ac Update hdfgroup packages to new URL structure (#4643) 
* Update hdfgroup packages to new URL structure

* Update docs now that HDF5 URL isn't that complicated
 2017-06-29 21:38:47 -05:00
George Hartzell
35488e04a0 Helper script support JAVA_{ARGS,OPTS} (#4640) 
Make it possible to pass addition arguments to the
JVM.

Apparently there are two vars and they are [commonly *both* used][1].

Go figure.

[1]: https://stackoverflow.com/questions/23507639/is-it-same-mean-java-args-and-java-opts
 2017-06-29 15:38:12 -05:00
Douglas Duckworth
7d59197b7b added numpy 1.13 - modified albacore to use 1.13 (#4639) 
* albacore 1.24 requires numpy 1.13 - added numpy 1.13

* added numpy 1.13
 2017-06-29 13:42:56 -05:00
George Hartzell
c416983e5f Add package for lftp (#4634) 
* Add package for lftp

* Avoid expensive list processing
 2017-06-29 09:27:18 -05:00
Douglas Duckworth
bdb859f1e1 added albacore 1.2.4 (#4637) 2017-06-29 06:42:43 -05:00
Thierry
dd4fa07de9 make yorick extendable. See plugins on D Munro github. (#4631) 2017-06-28 14:14:24 -05:00