jthies
35e7b9ac44
Ghost as cuda package ( #7501 )
...
* add headers property to netlib-lapack and intel-mkl
* ghost: fix finding cblas header and libs (at least for mkl and netlib-lapack, which provide headers())
* fix flake8 errors
* ghost: remove unnecessary query parameter
* fix flake8 errors
* ghost: make it a CudaPackage (as suggested by @davydden, thanks!)
* ghost: missing whitespace
2018-03-20 11:23:45 -05:00
Denis Davydov
ed4640c75b
alglib: fix on Darwin ( #7534 )
2018-03-20 08:33:14 -05:00
Peter Scheibel
2379ed54b9
package_hash: add code to generate a hash for a package file
...
This will be included in the full hash of packages.
2018-03-20 00:29:54 -07:00
Adam J. Stewart
6058cc1770
Add latest version of py-setuptools ( #7523 )
2018-03-20 07:18:20 +01:00
Adam J. Stewart
c11b46ae99
Add DSDP package ( #7526 )
2018-03-20 07:08:18 +01:00
Axel Huebl
106827db03
pocl: fix spec ( #7461 )
...
It seems there has been a change in concretization that resulted in
a request for a llvm latest (5.0.1) while not satisfying the later
more precise request for a version.
Remove the first line and only rely on the last.
2018-03-19 16:44:01 -05:00
Eric
4ea0c16f36
picard: Add version 2.18.0 ( #7528 )
2018-03-19 16:21:04 -05:00
Adam J. Stewart
869cb69985
Add latest version of SuiteSparse ( #7525 )
2018-03-19 16:19:44 -05:00
Massimiliano Culpo
c14c0d8e74
python: dbm module + version 3.6.4 ( #7520 )
...
A build of python@3.X had the following in the logs:
```
The necessary bits to build these optional modules were not found:
_dbm _gdbm _tkinter
```
As Tkinter is already a variant, we adopt the same strategy for dbm.
2018-03-19 22:19:26 +01:00
Adam J. Stewart
3874871512
Add latest version of py-six ( #7524 )
2018-03-19 16:19:19 -05:00
Adam J. Stewart
aea0b84e90
Add latest version of py-packaging ( #7522 )
2018-03-19 16:19:05 -05:00
Adam J. Stewart
a84cfb9ad4
Add latest version of GLPK ( #7521 )
2018-03-19 16:18:42 -05:00
Federico Ficarelli
72fae99a9e
modern-wheel: new package ( #7514 )
...
#Fix imports
2018-03-19 10:43:22 -05:00
Adam J. Stewart
2e9f158a79
Add latest version of libjpeg-turbo ( #7518 )
2018-03-19 10:41:37 -05:00
Adam J. Stewart
9e4bd6267f
Add latest version of libjpeg ( #7517 )
2018-03-19 10:41:17 -05:00
Adam J. Stewart
967194ce26
Add latest version of libpng ( #7516 )
2018-03-19 10:40:56 -05:00
Adam J. Stewart
bb591e675c
Add latest version of nasm ( #7515 )
2018-03-19 08:50:02 -05:00
Massimiliano Culpo
b2822b2582
glib: updated package and fixed issues with dtrace ( #7493 )
...
fixes #6965
closes #6968
2018-03-19 06:38:42 +01:00
Jimmy Tang
ba1b3fdc9d
Update the patches to work with bazel 0.9.0 ( #7013 )
...
Some code got moved around so the patches needed to be updated
2018-03-18 08:53:57 -05:00
Hans Pabst
e61b239a8a
LIBXSMM 1.9 ( #7495 )
2018-03-17 18:29:17 -05:00
jthies
e064927fab
gmp: add oldish version 5.1.3 with checksum ( #7510 )
2018-03-17 18:22:42 -05:00
Eric
5a04ad1273
py-multiqc: Add version 1.5 ( #7506 )
2018-03-17 18:22:12 -05:00
Massimiliano Culpo
49feddf71e
py-performance: added package ( #7500 )
2018-03-17 20:33:13 +01:00
Massimiliano Culpo
e1290b438b
hwloc: constrain dependency on numactl ( #7509 )
...
fixes #7505
2018-03-17 18:18:35 +01:00
Massimiliano Culpo
cf4b3f2af6
hwloc: updated package ( #7483 )
...
This includes:
* Added latest available versions (1.11.9, 2.0.0)
* Added variants to enable graphical output from lstopo
* Enabled build of the bundled netloc package if @2.0.0:
* Added dependency from numactl if @:1.11.9
* Added a constraint to avoid using hwloc@2.0.0 with openmpi
2018-03-15 10:16:33 +01:00
Robert Pavel
30b8dfbeba
Added Tagged Release of ExaMiniMD ( #7485 )
2018-03-14 18:37:21 -06:00
Michael Kuhn
423f2341bc
cube: Fix qt detection ( #7242 )
...
cube's configure only recognizes qt versions with single digit version
components and breaks with qt 5.10. Patch the configure files directly
to avoid having to regenerate them.
2018-03-14 09:01:11 +01:00
Levi Baber
1cde74656b
phylip: new version ( #7467 )
2018-03-14 08:56:15 +01:00
Sinan
e378044f16
postgresql: add newest version 10.3 ( #7455 )
2018-03-14 08:54:02 +01:00
Federico Ficarelli
b5879d7d07
Fix extends('tcl') environment ( #7473 )
2018-03-14 07:02:50 +01:00
Matthias Diener
73dd58b68a
Xterm: Fix URL ( #7476 )
2018-03-14 06:58:42 +01:00
Kelly (KT) Thompson
86f9c9fc73
Provide new package: mscgen. ( #7477 )
...
Mscgen is a small program that parses Message Sequence Chart descriptions and
produces PNG, SVG, EPS or server side image maps (ismaps) as the output.
See http://www.mcternan.me.uk/mscgen/
2018-03-14 06:56:11 +01:00
Yifan Zhu
5bd8ec8160
r-tfbstools: new package ( #7243 )
2018-03-13 12:40:41 +01:00
Stephen McDowell
6f76c2124a
llvm 6.0.0 released as stable ( #7459 )
...
Relase notes: http://releases.llvm.org/6.0.0/docs/ReleaseNotes.html
2018-03-13 11:34:19 +01:00
Cyrus Harrison
f8d3a0225f
add an option to build tbb statically ( #7407 )
2018-03-13 08:08:02 +01:00
f-sim
1329f3baca
Fix dependency conflict in FEniCS. ( #7404 )
2018-03-13 08:04:09 +01:00
Federico Ficarelli
b594f89d5e
Treat tcl as extendable ( #7410 )
...
* Make tcl package extendable
* Let tk extend tcl
* Fix environment for Tcl extensions
2018-03-13 10:31:03 +09:00
Denis Davydov
a4ed76c207
arpack-ng: add develop ( #7458 )
2018-03-12 09:06:37 +01:00
Levi Baber
39bfa12f22
astral: needs zip ( #7443 )
2018-03-10 10:56:59 +09:00
Patrick Gartung
82aa54151a
Fix bug in lua package instroduced by PR #7434 ( #7450 )
...
Fixes issue #7449
2018-03-09 16:57:46 -08:00
Levi Baber
3945b2adb4
Augustus hash ( #7447 )
...
* augustus: 3.3 package hash changed
* augustus: bamtools libraries now seem to be in lib64
* augustus: fix lib problem with older bamtools
2018-03-09 16:05:39 -08:00
sknigh
9d3d7d3216
new package: tcptrace ( #6993 )
...
Also added missing deps for libpcap: bison and flex
2018-03-09 10:46:57 -08:00
Levi Baber
1eeb918f0d
new package: cistem ( #7438 )
2018-03-09 10:19:10 -08:00
Eric
d2f0e57771
new package: py-bcbio-gff ( #7129 )
2018-03-09 10:14:53 -08:00
Eric
2f97aea4e4
new package: deconseq-standalone ( #7290 )
2018-03-09 10:13:41 -08:00
Axel Huebl
869c654c37
Boost: More Bintray ( #7389 )
...
There are two additional releases moved to bintray.
Change to bintray for 1.64 and 1.65 as well since SF downloads are
too instable.
2018-03-09 09:57:41 -08:00
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
Christoph Junghans
96f9576426
minighost: another Ubuntu fix ( #7359 )
2018-03-05 17:39:21 -07:00
Christoph Junghans
94c8299a1e
minismac2d: fix build with external Debian MPI ( #7318 )
2018-03-05 16:07:41 -07:00
Eric
35115127bc
perl-extutils-depends: Create new package ( #7376 )
2018-03-05 21:32:22 +01:00
Federico Ficarelli
fa442ed61a
rapidjson: new package ( #7391 )
2018-03-05 21:10:02 +01:00
