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5564 commits

Author SHA1 Message Date
Federico Ficarelli
8ad40babd6 cmake: new version (#7429) 2018-03-09 09:18:58 +01:00
Yifan Zhu
b6440fd10e r-cner: new package (#7228) 2018-03-09 08:36:26 +01:00
Patrick Gartung
331f5f27eb lua package: add lib64 to LUA_PATH and LUA_CPATH (#7434) 
This is needed when using system lua on RHEL and clones where lua
is installed in /usr/lib64. Note that the path entry for lua in
packages.yaml should specify the major/minor version of lua (since
this is used to calculate the lua lib directory)
 2018-03-08 20:18:55 -08:00
Michael Kuhn
74bb15285b json-c: Update to 0.13.1 (#7419) 
* json-c: Update to 0.13.1

0.12.1 does not compile with GCC 7.

* json-c: Add patch to make 0.12.1 build with gcc 7
 2018-03-08 14:25:29 -08:00
jthies
bcde37633d Added new package: ghost (#7362) 2018-03-08 11:16:51 +01:00
Brock Palen
732432df50 hoomd-blue version bump and compiler updated (#7021) 
updated hoomd-blue to latest tagged release in repo.  This version also supports newer gcc6 compilers, so added constraint for older version to avoid breaking existing installs.
 2018-03-08 09:35:59 +01:00
zenln
ad183f652f Added compiler conflict to prank (#7168) 2018-03-08 08:47:46 +01:00
Kelly (KT) Thompson
ac7fef3253 Help newer versions of trilinos/zoltan2 successfully configure. (#7059) 
+ Newer versions of zoltan2 are doing test compiles that link to parmetis.  If
  these checks don't find `metis.h`, the check fails.
+ This small tweak ensures that the zoltan2 configure step can find `metis.h`
  that is provided by spack.
 2018-03-08 08:39:35 +01:00
Yifan Zhu
66c46ae655 New package r-phangorn and its dependencies (#7034) 2018-03-08 08:30:02 +01:00
Levi Baber
98808196cb star: needs zlib (#7418) 2018-03-08 08:27:41 +01:00
Yifan Zhu
64f1fbb2e2 dislin: new package (#7305) 2018-03-08 06:38:17 +01:00
Robert Pavel
1cf451b62c Generalized ExaSP2 Install (#7422) 
Generalized ExaSP2 Install to use glob due to changes in naming
convention between previous release and current development branch
 2018-03-07 15:46:53 -08:00
Levi Baber
13e6fc730d cdbfasta: needs zlib (#7413) 2018-03-07 15:42:37 -08:00
snehring
cb64e32296 gcta: new package (#7425) 2018-03-07 15:40:51 -08:00
Jim Galarowicz
7f3a72fb33 OpenSpeedShop package: add support for building on cray (#7338) 2018-03-07 14:26:07 -08:00
lingnanyuan
f393a2c146 orthofinder: Create new package. (#7364) 2018-03-07 20:45:45 +01:00
Federico Ficarelli
ef310d9f66 fmt: add version (#7415) 2018-03-07 13:59:20 +01:00
simo-tuomisto
da48d3113c py-gpaw package with variants for MPI, FFTW and ScaLAPACK (#7373) 2018-03-07 09:30:47 +01:00
Douglas Duckworth
0f114d9718 Relion 2.1 - Using CudaPackage class (#6707) 2018-03-07 07:45:48 +01:00
Christoph Junghans
95b2738549 lammps: add version 20180222 (#7408) 2018-03-07 06:32:06 +01:00
Christoph Junghans
360feb4193
minighost: rework link logic (#7402) 2018-03-06 15:51:12 -07:00
Mike Pozulp
b0795d84c7 adds patches required to build hdf5 1.8.10 (#7386) 
For hdf5 `1.8.10` and some compilers, the hdf5 build system adds the
'-ansi' flag. hdf5 1.8.10 is not actually ansi compliant so this
adds a patch to modify the places where it violates ansi
compatibility (which ends up being a few comments).
 2018-03-06 12:49:36 -08:00
Eric
ea7879bce5 bowtie2: Add version 2.3.4.1 (#7252) 2018-03-06 18:48:48 +01:00
Geoffrey Oxberry
5ed6e6f184 pnmpi@1.7: new package (#7051) 
Add PnMPI, a dynamic MPI tool infrastructure that builds on top of the
PMPI interface.
 2018-03-06 18:48:28 +01:00
健美猫
c0f6cb5393 Add the libssh2 variant for curl. (#6980) 2018-03-06 18:41:22 +01:00
Eric
2be8712406 perl-net-scp-expect: Create new package (#7028) 2018-03-06 18:39:13 +01:00
Christoph Junghans
274036bfed gromacs: add v2018 (#7050) 2018-03-06 18:37:45 +01:00
Simon Flood
fa5911af83 Update package.py (#7327) 
Add versions released after 3.5.0 (3.4.3, 3.5.1, and 3.6.x)
 2018-03-06 18:28:02 +01:00
peetsv
d649fda48a py-crossmap: adding new package (#7108) 2018-03-06 18:27:03 +01:00
Sergey Kosukhin
8d6738a3e6 Setup dependent environment for pkgconf. (#7102) 2018-03-06 18:25:00 +01:00
Elizabeth Fischer
02bed55007 py-rasterio: Added with dependencies. (#7156) 2018-03-06 18:21:34 +01:00
Geoffrey Oxberry
45e78a42cf sosflow: add missing dependencies (#7182) 
SOSflow depends on MPI and pkg-config, but neither of these
dependencies are currently in the spack package, so this commit adds
them.
 2018-03-06 18:17:49 +01:00
Paschalis Korosoglou
ceb8963362 Add cmor version 3.3.0 (#7197) 2018-03-06 18:16:52 +01:00
Eric
d77a2eecbe perl-graph-readwrite: Create new package (#7284) 2018-03-06 18:12:06 +01:00
mcneish1
642484caeb Add sqlite 3.22.0 (#7335) 2018-03-06 18:09:09 +01:00
healther
b106c86fa3 Fix apr pick up of log4cxx (#7347) 2018-03-06 18:08:51 +01:00
Michael Kuhn
17772fcd43 likwid: Fix build (#7244) 
likwid uses the current directory when building the paths to its
internal libraries. Spack overwrites PWD, causing likwid to not find
hwloc.h.
 2018-03-06 18:07:37 +01:00
Veselin Dobrev
65a1655022 mumps: add the libs property (#7264) 2018-03-06 18:05:58 +01:00
Ricardo Silva
4a54178ff8 Make neuron package more generic (#7393) 
Make neuron package more generic

* find the bin directory dynamically for use in run_env and spack_env
* replace filter_compilers after install with filter_compiler_wrappers
* update checksum for _current_ 7.5 version
* make +python conflict with ~shared
* prepend the architecture specific lib directory to the LD_LIBRARY_PATH

Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>
 2018-03-06 16:31:28 +01:00
Matthias Diener
8f350d0002 Colordiff: new package (#7070) 2018-03-06 13:14:29 +01:00
Eric
bcae9c3506 py-bitstring: Create new package (#7190) 2018-03-06 13:04:16 +01:00
Veselin Dobrev
7482cf1d9f suite-sparse: add a package-specific 'libs' property (#7269) 2018-03-06 10:09:20 +01:00
Yifan Zhu
9c828f3068 trnascan-se: new package (#7351) 2018-03-06 09:58:05 +01:00
Axel Huebl
c7a8c4a44c libSplash 1.7.0: Root Fix (#7368) 
Fix installs as "root" user for the last libSplash release.
Missing quoting of string compares resulted in a CMake error
when run as root (e.g. in a Docker build).
 2018-03-06 09:38:40 +01:00
lingnanyuan
7aff7cbaec snpEff: Create new package. (#7382) 2018-03-06 09:34:22 +01:00
Eric Müller
2f06292abc mosh build depends on pkg-config (#7365) 2018-03-06 09:34:00 +01:00
Eric
c2d1344c51 perl-file-slurper: Create new package (#7378) 2018-03-06 09:28:37 +01:00
Christoph Junghans
ca367b4de3 exasp2: add v1.0 (#7398) 2018-03-06 09:01:53 +01:00
Yifan Zhu
d90b03db09 braker: added list_url (#7058) 2018-03-06 08:51:43 +01:00
Yifan Zhu
4a7e88cc71 r-sf: new package (#6547) 
* r-sf: new package

* r-sf: added version requirements for dependencies
 2018-03-05 23:45:19 -06:00