Yifan Zhu
1e702bfab0
r-fftwtools: new package ( #6532 )
2017-12-03 16:20:32 -07:00
Paschalis Korosoglou
79751729c9
Rename variant static to shared ( #6543 )
2017-12-03 16:19:32 -07:00
Denis Davydov
13dade60dd
gcc: remove all variant ( #5283 )
2017-12-03 10:19:55 +01:00
Nils Deppe
07fcd0d115
Add Kvasir MPL ( #6529 )
2017-12-02 16:02:43 -07:00
Eric
6918ee3767
salmon: Add version 0.9.1 ( #6516 )
2017-12-02 12:45:10 -07:00
sknigh
80048ae4a9
Paraview expects qt to have opengl ( #6520 )
2017-12-01 13:46:39 -07:00
Axel Huebl
d6863a2940
ADIOS: 1.13.0 ( #6539 )
...
New release of ADIOS: 1.13.0.
2017-12-01 11:09:37 -07:00
Stephen Hudson
d5c96dbd94
Add new package py-libensemble ( #6525 )
2017-12-01 11:01:08 -07:00
Eric
fa32f8f914
py-dendropy: Create new package ( #6528 )
2017-12-01 11:00:45 -07:00
Paschalis Korosoglou
bd94be818a
Added variant static for hwloc ( #6538 )
2017-12-01 06:25:23 -07:00
Yifan Zhu
e0264404b6
r-udunits2: new package r-udunits2 ( #6533 )
2017-12-01 11:16:35 +01:00
Yifan Zhu
4a55f81051
r-units: new package ( #6531 )
2017-12-01 05:26:05 +01:00
Adam J. Stewart
3dafbe901a
Fix CGAL checksum and switch to more stable URL ( #6511 )
2017-11-30 09:18:54 +01:00
healther
130c56dbaa
add package py-lazy-object-proxy ( #6489 )
2017-11-30 09:17:28 +01:00
lingnanyuan
5382279fa6
r-biomformat: Create new package. ( #6517 )
2017-11-30 09:14:12 +01:00
lingnanyuan
f9c820c39f
r-phyloseq: Create new package. ( #6518 )
2017-11-30 09:13:31 +01:00
Yifan Zhu
86fbcc7140
r-nanotime: new package ( #6519 )
2017-11-30 09:12:58 +01:00
Michael Bentley
a097524281
Flit package ( #6260 )
...
Add initial build support for version 2.0-alpha.1
2017-11-30 09:05:40 +01:00
Stephen Hudson
02371d2ace
Add new package nlopt ( #6499 )
2017-11-29 10:27:08 +01:00
healther
cc5d5295bd
add missing build dependency to py-pytest-runner ( #6490 )
2017-11-28 16:52:18 -07:00
Yan Grange
b5f3ecf3fa
Update globus package version and hash ( #6482 )
2017-11-28 16:51:35 -07:00
Michael Kuhn
9adcb0b4b1
libmongoc: Fix pkg-config file not containing snappy and zlib paths ( #6467 )
2017-11-28 16:47:12 -07:00
healther
f7fda19f5d
remove breaking version and cleanup of dependencies ( #6494 )
2017-11-28 16:46:23 -07:00
healther
8013996661
add conflicts to py-enum34 ( #6496 )
2017-11-28 16:45:08 -07:00
healther
2190ae43a5
Fix astroid dependency and mark broken version ( #6493 )
2017-11-28 16:43:43 -07:00
healther
cab07d2562
add package py-editdistance ( #6492 )
2017-11-28 16:43:00 -07:00
healther
82adc403ad
add package py-isort ( #6491 )
2017-11-28 16:42:47 -07:00
healther
64b121fa87
add package: py-backports-functools-lru-cache ( #6488 )
2017-11-28 13:54:40 -08:00
becker33
acd80b16a8
update scr package for cray ( #6407 )
...
* update scr package for cray
* added info on scr version 1.2.0
2017-11-28 10:33:45 -08:00
Denis Davydov
ddb55c2b26
py-numpy: add 1.13.3 ( #6484 )
2017-11-28 13:42:59 +01:00
Denis Davydov
fdb2386ba7
pi-scipy: add 1.0.0 ( #6486 )
2017-11-28 13:42:27 +01:00
Yifan Zhu
bec8ddcf81
r-classint: created new package ( #6481 )
2017-11-28 09:29:29 +01:00
Yifan Zhu
5cdf94233b
r-rcppcctz: created new package ( #6480 )
2017-11-28 09:28:42 +01:00
lingnanyuan
8d64e192dc
r-topgo: Create new package. ( #6479 )
2017-11-28 09:27:36 +01:00
Eric
6edd782d39
r-seurat: Create new package ( #6477 )
2017-11-28 09:27:14 +01:00
Eric
7f43411e59
Adding list_url to several R module packages ( #6474 )
2017-11-28 09:26:06 +01:00
Yifan Zhu
63a23b93c5
r-cli: new package ( #6476 )
2017-11-28 09:21:12 +01:00
Satish Balay
cd8da5a441
Xsdk 0.3.0 ( #6277 )
...
* xsdk: Added MFEM rc package.
* xsdk: add version entry for xsdk-0.3.0-rc1 - and set it as preferred version
* xsdk: remove 'xsdk' from version - recommended by Todd.
Now the usage is:
'spack install xsdk@0.3.0-rc1'
instead of the previous usage:
'spack install xsdk@xsdk-0.2.0'
* xsdk: add petsc@3.8.0 as a dependency for xsdk-0.3.0-rc1
* mfem: fix dependency to use the corrected xsdk version
* Updated the mfem version tags.
* mfem: fix merge
* fix flake8 warning
* Modified xSDK scripts
* fixing the default package.yaml
* fix bad revert
* revert changes to superlu-dist so that the 5.2.1 update can be merged
* update xsdk to use superlu-dist-5.2.1
* update alquimia for xsdk
* fix whitespace
* update hypre for xsdk
* update sundials for xsdk
* update sundials for xsdk
* Fix checking for MKL and extend range of GCC versions
* pflotran: update to release branch
* plasma: fix spec -> self.spec
* Changes to enable mfem hooks into hypre, superlu-dist, and petsc. Sundials hooks may come in the future.
* adding plasma with comment
* Bumped the version of mfem up to handle integration with sundials3.0.0. Also enabled hypre in sundials.
* Turn on the plasma package definition for testing
* Fix conflict declaration to obey ordering rules
* xsdk: udate superlu-dist dependency to v5.2.2
* plasma: change gcc dependency to workarround potential spack bug #5778
* trilinos: update hdf5 dependency to use 'hdf5+hl'
Without this change - I get the following error [triggered by 161dca6d5
c9810f808
changes]
$ ./bin/spack install trilinos+hdf5
==> Error: An unsatisfiable variant constraint has been detected for spec:
hdf5@1.10.1%gcc@7~cxx~debug~fortran~hl+mpi+pic+shared~szip~threadsafe arch=linux-fedora27-x86_64
while trying to concretize the partial spec:
netcdf+mpi
^m4
^mpich@3.3a2%gcc@7 device=ch3 +hydra netmod=tcp +pmi+romio~verbs arch=linux-fedora27-x86_64
^zlib@1.2.11%gcc@7+optimize+pic+shared arch=linux-fedora27-x86_64
netcdf requires hdf5 variant +hl, but spec asked for ~hl
* plasma: add in -lm dependency per #6046
* update sundials version to 3.0.0
* Add fixes to support Netlib LAPACK
* mfem does not use cmake for builds [anymore] - so remove code corresponding to this dependency.
This enables mfem build on OSX [with xcode/clang compilers]
* mfem: update to v3.3.2-rc4
* add patch for building sundials on mac
* xsdk: enable plasma for gcc-4.9+ - same as what plasma/package.py does.
* magma: Fix for cuda-9.0 as it does not support sm20
nvcc fatal : Unsupported gpu architecture 'compute_20'
* add in code for 'spack install xsdk+cuda' - which installs magma
* fix flake8 warning
* fix flake8 warnings
* Updated to the latest MFEM RC.
* alquimia: fix to use petsc-3.8.0+ versions
* petsc: update to version 3.8.1
* petsc: add in conflict between petsc-3.8.0 & mkl
* xsdk: update petsc to 3.8.1 to get MKL build fix
* petsc: fix superlu_dist dependency
* petsc: when hdf5 depends on zlib - petsc+hdf5 should also be configured with zlib
* petsc: fix dependency [of zlib to be on hdf5 - and not on petsc]
* petsc: fix pkgconfig error - with incorrect library link order that can break mfem examples with static build
* petsc: use the fact that hdf5/package.py has a hard dependency on zlib [so no need to check for this dependency in code]
recommended-by: @davydden
* petsc: change hdf5 dependency to 'hdf5+hl' as petsc configure is looing for -lhdf5_hl
https://github.com/spack/spack/issues/5846
* plasma: also detect -lgfortran
* update sundials version to 3.1.0
* alquimia: xsdk-0.3.0-rc -> xsdk-0.3.0
* petsc: update to version 3.8.2
Includes pkgconfig fix [for mfem static build failure]
* Revert "petsc: fix pkgconfig error - with incorrect library link order that can break mfem examples with static build"
This reverts commit d1afa8c20d4313fdc42a27e5380573b035b32998.
* xsdk: update to use petsc-3.8.2
* Fixed a problem with MFEM trying to use mpicxx instead of the spack defined compiler.
* Minor changes to the mfem build and pointing at mfem's release branch that is currently undergoing internal testing.
* Enabling shared build for Plasma
* plasma: do not look for libgfortran on cray - spack finds the wrong one from the frontend
'-L/usr/lib64/gcc/x86_64-suse-linux/4.3 -L/usr/lib64 -lgfortran'
* Some changes to the mfem package that are in the process of being pulled into spack/develop.
* xsdk: switch from 0.3.0-rc1 to 0.3.0
* fix flake8 warnings
* plasma: extract plasma changes from xsdk-0.3.0
* plasma: cleanup per review
- netlib-lapack: add support for spec['lapack:c'].libs, spec['blas:c'].libs
- add getblaslapacklibs() to eliminate duplicate code in edit() and build_targets()
- eliminate string manipulation of ld_flags
- remove gfortran check (will check later)
- remove build() (will check later)
* netlib-lapack: fix tuple per review
* netlib-lapack: use spec[lapack:c,fortran]
2017-11-27 22:08:08 -08:00
peetsv
52f46d2bee
ViennaRNA: adding version 2.4.3 + disable swig ( #6408 )
...
* Adding version 2.4.3 to ViennaRNA
* Replaced tab indent with spaces
Flake8 error correction
* no swig for viennarna v2.4.3 only
* correcting version/argument conditional syntax error
2017-11-27 16:45:43 -07:00
Mark Berrill
e2abebe8a5
Adding new package amp ( #6471 )
2017-11-27 14:43:03 -07:00
Quinn
1268bc8f45
Adding list_url to r-hms package ( #6473 )
2017-11-27 14:40:02 -07:00
Michael F. Herbst
3d4e51fad2
Add two test examples to bohrium ( #6459 )
2017-11-27 13:55:29 -07:00
Eric
dbb329637b
r-rtsne: Create new package ( #6470 )
...
* r-rtsne: Create new package
* r-rtsne: add rcpp dependency
2017-11-27 13:54:53 -07:00
Eric
ebd796110d
r-pcapp: Create new package ( #6468 )
2017-11-27 13:54:36 -07:00
Satish Balay
23bedc276c
plasma: extract plasma changes from xsdk-0.3.0 ( #6280 )
...
* plasma: extract plasma changes from xsdk-0.3.0
* plasma: cleanup per review
- netlib-lapack: add support for spec['lapack:c'].libs, spec['blas:c'].libs
- add getblaslapacklibs() to eliminate duplicate code in edit() and build_targets()
- eliminate string manipulation of ld_flags
- remove gfortran check (will check later)
- remove build() (will check later)
* netlib-lapack: fix tuple per review
* netlib-lapack: use spec[lapack:c,fortran]
2017-11-27 11:38:10 -08:00
Adam Fidel
557309618f
New Package: GAP Benchmark Suite ( #6452 )
2017-11-27 06:50:49 -07:00
Choong Jun Jin
45e1562162
fixed glog compilation for < 0.3.5 ( #6463 )
2017-11-27 06:50:26 -07:00
Massimiliano Culpo
eacaa1551e
r-rcpp: adds new versions, fixes failing download in Travis CI ( #6464 )
2017-11-27 10:15:47 +01:00
Eric
fcf331f176
r-tsne: Create new package ( #6461 )
2017-11-27 09:30:52 +01:00
Eric
0bb789eb23
r-rcpp: fix list_url to install archived versions ( #6462 )
2017-11-27 09:20:49 +01:00
peetsv
09eeb991a2
dialign-tx adding patch for gcc@5.4.0 ( #6413 )
2017-11-26 16:14:18 -07:00
Michael F. Herbst
41eb496021
New Package: Add libcint to spack ( #6456 )
...
* Add libcint to spack
* Clearifying comment
2017-11-25 21:01:30 -07:00
Michael F. Herbst
178381edf9
Implement opencv libs property ( #6457 )
2017-11-25 21:00:18 -07:00
Eric
9b5e3434ad
r-sn: Create new package ( #6433 )
...
* r-sn: Create new package
* r-sn: fix whitespace and depends_on
2017-11-25 12:50:13 -07:00
Axel Huebl
a465bf3bec
pocl: fix link to libtool ( #6440 )
...
libtool is also needed for linking, otherwise downstream
dependencies such as clfft will fail linking against pocl's
libOpenCL.so with errors such as:
```
>> 182 /usr/bin/ld: warning: libltdl.so.7, needed by /usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pocl-0.14-rwo73qzkcxfupndxoz3pcl2s34o5pt6i/lib/libOpenCL.so, not found (try using -rpath or -rpath-link)
>> 183 /usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pocl-0.14-rwo73qzkcxfupndxoz3pcl2s34o5pt6i/lib/libOpenCL.so: undefined reference to `lt_dlinit'
>> 184 /usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pocl-0.14-rwo73qzkcxfupndxoz3pcl2s34o5pt6i/lib/libOpenCL.so: undefined reference to `lt_dlerror'
>> 185 /usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pocl-0.14-rwo73qzkcxfupndxoz3pcl2s34o5pt6i/lib/libOpenCL.so: undefined reference to `lt_dlopen'
>> 186 /usr/local/opt/spack/linux-ubuntu16.04-x86_64/gcc-5.4.0/pocl-0.14-rwo73qzkcxfupndxoz3pcl2s34o5pt6i/lib/libOpenCL.so: undefined reference to `lt_dlsym'
>> 187 collect2: error: ld returned 1 exit status
```
2017-11-25 11:55:08 -07:00
Gregory Lee
1f2867415a
added intel 18.0.1 compilers ( #6381 )
2017-11-25 11:49:02 -07:00
Michael F. Herbst
25d7ef495c
Expand bohrium package ( #6438 )
...
* GCC greater 4.7 required
* Add variant with opencv extmethods
* Fix and export the config path
2017-11-25 11:46:32 -07:00
healther
d7344d2987
add package py-linecache2 ( #6448 )
2017-11-25 11:42:16 -07:00
healther
8c5c46a7a2
add missing dependencies to py-pylint ( #6445 )
2017-11-25 11:41:45 -07:00
healther
835b1ff03d
add missing build dependency to py-execnet ( #6443 )
2017-11-25 11:40:53 -07:00
Axel Huebl
ed685b0262
gearshifft: enable OpenCL ( #6441 )
...
With pocl builds fixed, we can now also use the OpenCL
implementations in gearshifft :)
2017-11-25 11:40:12 -07:00
healther
86e771bdb3
add missing dependency to py-scikit-image ( #6446 )
2017-11-25 11:39:16 -07:00
healther
ca90372f74
add missing dependency to py-unittest2 ( #6447 )
2017-11-25 11:38:42 -07:00
healther
65fd350eb4
add package py-setuptools-scm ( #6449 )
2017-11-25 11:38:10 -07:00
healther
0c7cf0c7a4
add package py-traceback2 ( #6450 )
2017-11-25 11:37:38 -07:00
健美猫
0d91f51a27
Python: add 3.6.3 . ( #6454 )
2017-11-25 11:34:24 -07:00
健美猫
086a1cfe7e
r: add version 3.4.2. ( #6455 )
2017-11-25 11:34:05 -07:00
healther
7c174f11ec
add new version to node-js ( #6444 )
2017-11-25 09:30:06 +01:00
Eric
be095fdb21
r-lars: Create new package ( #6453 )
2017-11-25 09:24:53 +01:00
Robert Cimrman
77bfda4da6
sfepy: Create new package ( #6439 )
2017-11-24 12:21:09 +01:00
健美猫
70adbaeeba
Octave depends on qt+opengl. ( #6437 )
2017-11-24 09:40:48 +01:00
Massimiliano Culpo
cde5fdde20
Openblas needs FC, not F77 ( #6435 )
...
fixes #5591
2017-11-24 07:15:01 +01:00
Michael Kuron
ff4a4fcd9e
siesta: add netcdf support ( #6431 )
2017-11-23 13:39:32 -07:00
George Hartzell
2a2670175d
boost@1.54 alse needs the call_once patch ( #6434 )
2017-11-23 20:17:17 +01:00
Michael Kuhn
5bbbfe9446
Introduce virtual dependency pkgconfig ( #5198 )
...
There are two providers, pkgconf and pkg-config, with the former being
the default provider.
2017-11-23 08:05:38 -07:00
Sergey Kosukhin
7f0659f032
New version and patch for 'sqlite'. ( #6303 )
2017-11-23 08:04:41 -07:00
Audrey Thoma
cd7d812be9
express: new package ( #6281 )
2017-11-23 08:04:02 -07:00
Ondřej Čertík
7a2b3b2588
Add a patch for Intel 18.0.1 ( #6392 )
2017-11-23 07:28:35 -07:00
Michael F. Herbst
a955f63530
Add bohrium to spack ( #6395 )
...
* Add bohrium package.py
* Changes suggested by @davydden
* Add +cuda guard
* Specify required environment setup
2017-11-23 07:24:55 -07:00
Eric
1dba6435bd
r-plotly: Create new package ( #6423 )
2017-11-23 07:17:17 -07:00
Denis Davydov
ddf10fa322
dealii: limit CMake to 3.9 as 3.10.0 is not supported yet ( #6427 )
2017-11-23 07:16:44 -07:00
sknigh
e2cf933ec1
gcc environment module will set CC, CXX, FC, F77, and F90 flags ( #3954 )
2017-11-23 12:44:55 +01:00
Cameron Smith
951679376e
zoltan: add optional dependency on parmetis ( #6387 )
2017-11-23 09:03:02 +01:00
Eric
6fd1009081
r-mixtools: Create new package ( #6421 )
2017-11-23 09:01:10 +01:00
Eric
bdd8bb1fd9
r-ranger: Create new package ( #6422 )
2017-11-23 09:00:32 +01:00
Chien-Chang Feng
630d7e19db
py-yt: Yt-project is moved. Add new version. ( #6409 )
2017-11-23 07:25:35 +01:00
Jon Rood
8b63cc6ad6
Using MPI environment compiler variables for pnetcdf. ( #6424 )
2017-11-22 21:34:21 -08:00
Massimiliano Culpo
0fc6611dc2
Changed every docs
variant into doc
as decided in #2663 ( #6412 )
...
fixes #2663
2017-11-22 15:06:59 +01:00
Sergey Kosukhin
d4ab511f73
Script for 'eccodes' is compatible with Python 3. ( #6402 )
2017-11-21 15:59:04 -07:00
Audrey Thoma
a0df5ae3e0
phantompeakqualtools: new package ( #6403 )
2017-11-21 15:58:20 -07:00
Eric
9e013ee036
r-pbapply: Create new package ( #6377 )
2017-11-21 13:45:12 -07:00
Eric
5a72d30816
r-ggjoy: Create new package ( #6399 )
2017-11-21 13:44:25 -07:00
Eric
60b50a7bd2
r-ica: Create new package ( #6400 )
2017-11-21 13:43:02 -07:00
Eric
d6a5310df5
r-cppprogress: Create new package ( #6398 )
2017-11-21 13:42:44 -07:00
Eric
d725904803
r-sdmtools: Create new package ( #6397 )
2017-11-21 13:42:28 -07:00
BenBrands
27b9d2614c
CMake: add 3.10.0 ( #6393 )
2017-11-21 08:04:53 -07:00
David Poliakoff
003f83db50
gotcha: new package ( #6391 )
...
* Initial stab at a package for Gotcha
* Commit with no boilerplate
* Flake8
2017-11-21 08:04:43 -07:00
Audrey Thoma
c4613b8e1f
mira: new package ( #6385 )
2017-11-21 08:04:08 -07:00
Michael F. Herbst
f0c0243cd4
Fix to allow installing pocl 0.14 again ( #6372 )
...
* Resolve issue 4669
* Use prefix path magic attribute
2017-11-21 08:03:36 -07:00
Yifan Zhu
5250c8eb0a
r-broom: new package ( #6282 )
2017-11-21 10:49:09 +01:00
Yifan Zhu
e3abc7bfa4
r-haven: created new package ( #6293 )
2017-11-21 09:54:43 +01:00
Yifan Zhu
b7189ecf9e
r-psych: created new package ( #6286 )
2017-11-21 09:40:10 +01:00
Yifan Zhu
ef8429c99c
r-modelr: created new package ( #6289 )
2017-11-21 09:26:44 +01:00
Eric
0743c5bde6
r-crosstalk: Create new package ( #6383 )
2017-11-20 21:52:58 -07:00
Eric
cd5e6a14bb
r-fnn: Create new package ( #6384 )
2017-11-20 21:52:39 -07:00
Audrey Thoma
8b2abfb28b
masurca: new package ( #6386 )
2017-11-20 21:51:35 -07:00
Eric
70ce7e2099
meme: add version 4.12.0 ( #6388 )
2017-11-20 21:50:46 -07:00
Eric
035cce2b81
py-biopython: add version 1.70 ( #6389 )
2017-11-20 21:50:25 -07:00
Eric
17e0b81463
r-ggridges: Create new package ( #6376 )
2017-11-20 14:18:16 -07:00
Eric
30b794254f
py-pysam: add version 0.13 ( #6382 )
2017-11-20 14:08:25 -07:00
BenBrands
93d5a91a56
dealii: fix HDF5 dependency ( #6374 )
2017-11-20 11:57:53 -07:00
BenBrands
83db25967e
Atlas: add 3.11.39 ( #6375 )
2017-11-20 11:57:34 -07:00
Eric
9040f34aba
r-tclust: Create new package ( #6380 )
2017-11-20 11:57:04 -07:00
Eric
1d69dbe7ae
r-diffusionmap: Create new package ( #6378 )
2017-11-20 11:56:47 -07:00
Eric
012acdc7a2
r-chemometrics: Create new package ( #6379 )
2017-11-20 11:56:33 -07:00
Denis Davydov
4e878c21cd
elpa: add 2017.05.002 and 2017.05.003 ( #5306 )
...
* elpa: add 2017.05.002 and 2017.05.03
* add a variant for optimization flags
2017-11-20 11:17:22 -07:00
Denis Davydov
34da07db9b
dealii: add cuda_arch variant via CudaPackage ( #6070 )
2017-11-19 12:39:13 -07:00
Adam J. Stewart
acbdf516f7
Add a new package for rlwrap ( #6371 )
2017-11-19 06:45:25 -07:00
lingnanyuan
cf3df2a321
r-dose: Create new package. ( #6355 )
2017-11-18 12:54:14 -07:00
Eric
20092adb94
r-vgam: Create new package ( #6363 )
2017-11-18 06:39:55 -07:00
Eric
618f4dff6d
r-bindrcpp: Create new package ( #6366 )
2017-11-18 06:36:39 -07:00
Eric
1c55a401b1
r-dtw: Create new package ( #6365 )
2017-11-18 06:35:47 -07:00
Eric
ebfc7bd7aa
r-som: Create new package ( #6364 )
2017-11-18 06:35:21 -07:00
Michael Kuron
e2fea1e1e6
siesta: new package ( #6346 )
...
* siesta: new package
* siesta: use libs instead of ld_flags everywhere
2017-11-17 19:01:15 -07:00
Stephen Hudson
b2f0306c6f
Mpi4py update ( #6342 )
2017-11-17 19:00:36 -07:00
Javier Cervantes
21da747a5d
hepmc: fix hash and urls, add new version 3.0.0 ( #6348 )
2017-11-17 18:59:52 -07:00
健美猫
8bc024d2d9
Add cluster.2017.5 and cluster.2018.1. ( #6349 )
2017-11-17 18:59:18 -07:00
lingnanyuan
9647038f27
r-rvcheck: Create new package. ( #6351 )
2017-11-17 18:59:00 -07:00
lingnanyuan
eda91bebd7
r-gosemsim: Create new package. ( #6352 )
2017-11-17 18:58:43 -07:00
lingnanyuan
d836d7e7ea
r-do-db: Create new package. ( #6353 )
2017-11-17 18:58:23 -07:00
lingnanyuan
c604638681
r-fgsea: Create new package. ( #6354 )
2017-11-17 18:58:01 -07:00
lingnanyuan
5c06255b24
r-clusterprofiler: Create new package. ( #6356 )
2017-11-17 18:57:40 -07:00
sknigh
1f8f593dd6
Added libhio 1.4.0.0 ( #6357 )
2017-11-17 18:57:17 -07:00
Brian Homerding
17debcb9b2
NuT: Add Installation of lib and demo app ( #6341 )
2017-11-16 16:30:42 -07:00
Matthias Vogelgesang
a62f8698c3
Add UFO and dependencies ( #6337 )
...
* Add json-glib
* Add ufo-core
* Add ufo-filters
2017-11-16 09:37:17 -08:00
healther
ef3c909701
add package py-numba ( #6323 )
...
* add package py-numba
* Update package.py
* Update package.py
* Update package.py
2017-11-16 10:13:20 -07:00
Audrey Thoma
e941f33eaf
meraculous: new package ( #6292 )
...
* meraculous: new package
* adding gcc version conflict
* Update package.py
* Update package.py
2017-11-16 09:40:46 -07:00
lingnanyuan
bb3d5fd313
r-rhdf5: Create new package. ( #6330 )
2017-11-16 09:40:15 -07:00
lingnanyuan
e732a554ff
r-shortread: Create new package. ( #6332 )
2017-11-16 09:30:18 -07:00
lingnanyuan
cca06422fa
r-sva: Create new package. ( #6333 )
2017-11-16 09:28:59 -07:00
David Hows
d89b09493c
Minor package fixes ( #6334 )
...
* Add no-implicit-fallthrough to MsgpackC
* Add 0.2.1 of Neovim
* Lint
2017-11-16 09:28:40 -07:00
Stephen Hudson
9d1224e5d8
py-petsc4py: Update version to 3.8.0 and add dependencies ( #5792 )
...
* py-petsc4py: Update version to 3.8.0 and add dependencies
- Added explicit dependency on python and numpy
* Kept old version - and corrected minimal python version
* Update to 3.8.1
2017-11-15 16:49:36 -07:00
baip
697f3ea71d
cp2k: add dependency on smm and libxc & new version 5.1 ( #6194 )
...
* cp2k: add libxsmm dependency
* cp2k: add libxc dependency
* cp2k: add smm variant to select from libxsmm or libsmm
* cp2k: add version 5.1
2017-11-15 16:49:08 -07:00
Christoph Junghans
7da8a02cbf
git grep --files-with-matches github.com/llnl/spack | xargs sed -i '/github.com/s@llnl/spack@spack/spack@' ( #6329 )
2017-11-15 16:46:39 -07:00
Denis Davydov
cb5fd6035a
intel: add 2018.1 ( #6322 )
2017-11-15 13:13:15 -07:00
Axel Huebl
d1a733bc86
xtensor, xtl, xsimd ( #6315 )
...
Adds the QuantStack libs (C++, header-only) needed for
xtensor.
2017-11-15 13:12:31 -07:00
Yifan Zhu
cde0570c56
r-janitor: created new package ( #6313 )
2017-11-15 13:09:24 -07:00
Yifan Zhu
0d9ab84ebb
r-dbplyr: created new package ( #6311 )
2017-11-15 13:09:11 -07:00
Howard Pritchard
af1b93b3db
Open MPI: add 2.0.4 release to package file ( #6310 )
...
Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2017-11-15 13:03:07 -07:00
健美猫
71f12597a7
Update pgi to 17.10 . ( #6306 )
2017-11-15 13:02:54 -07:00
Sergey Kosukhin
e77b11674f
Update for 'magics' and 'libemos'. ( #6275 )
2017-11-15 13:01:23 -07:00
Benedikt Riedel
2eb7fabe62
Allow openblas to build on a VM ( #6258 )
...
This adds a "virtual_machine" boolean variant which adds build
options that enable building openblas on a VM.
2017-11-15 10:32:02 -08:00
Eric
9acf207023
picard: add versions and fix url format ( #6309 )
2017-11-14 16:41:27 -07:00
Michael Kuhn
ec5d366bcd
likwid: Fix hash for 4.3.0 ( #6307 )
...
Prefer 4.2.1 for now because 4.3.0's hash changes regularly.
2017-11-14 16:41:05 -07:00
健美猫
d9a4e7a038
Update miniconda to 4.3.30. ( #6233 )
2017-11-14 12:11:53 -08:00
Adam J. Stewart
138e9d08c6
Add the latest version of Lmod ( #6297 )
2017-11-14 10:32:41 -08:00
koebbe
50957bd44f
py-h5py: make sure to depend on the hl variant of hdf5 ( #6304 )
2017-11-14 09:26:58 -07:00
vishalkenchan
0692029273
update trilinos checksums ( #6301 )
2017-11-14 09:22:34 -07:00
Michael Kuhn
aa27432a1d
ncl: Check for ncl binary after installation ( #6298 )
...
ncl's build system will happily continue in case of errors, which might
result in the ncl binary not being built.
2017-11-14 09:22:04 -07:00
Michael Kuhn
e31b997162
icu4c: Update to 60.1 ( #6295 )
...
Previous versions try to include xlocale.h, which fails on glibc >= 2.26.
2017-11-14 09:21:35 -07:00
Yifan Zhu
a8f9182ef3
r-forcats: created new package ( #6291 )
2017-11-14 09:21:21 -07:00
Michael Kuhn
93bca2f3a2
libbson, libmongoc: Update to 1.8.1 ( #6290 )
2017-11-14 09:21:05 -07:00
Eric
137a9e64ac
trimgalore: add version 0.4.5 ( #6288 )
2017-11-14 09:20:20 -07:00
Yifan Zhu
392e25b7e6
r-mnormt: created new package ( #6287 )
2017-11-14 09:20:06 -07:00
Yifan Zhu
05eb287ed9
r-bindr: created new package ( #6285 )
2017-11-14 09:19:49 -07:00
Yifan Zhu
c042644b53
r-glue: created new package ( #6283 )
2017-11-13 16:25:52 -07:00
Douglas Duckworth
c7d2b4dbd6
relion 2.1 - update variant defaults ( #6201 )
...
Default precision should be double for CPU. Generally users also want
to use GPUs so the +cuda variant is now also enabled by default.
2017-11-13 12:29:43 -08:00
Christoph Junghans
bde727e187
mpibash: move to autotools ( #6253 )
2017-11-13 10:48:31 -07:00
Christoph Junghans
02335fa849
ucx: initial commit ( #6265 )
2017-11-13 10:47:58 -07:00
Eric
306aca812d
ont-albacore: add version 2.1.2 ( #6278 )
2017-11-13 10:47:40 -07:00
Satish Balay
6fd92e4257
petsc: update to version 3.8.2 ( #6244 )
...
Includes pkgconfig fix [for mfem static build failure]
2017-11-11 07:16:03 -07:00
Brian Homerding
19f8940c01
Nekbone: Installing data files for example runs ( #6243 )
...
* Nekbone: Installing data files for example runs
* Typo Fix
2017-11-10 19:59:33 -07:00
Sergey Kosukhin
263126bc5d
Create symlink for 'swig' binary after installation. ( #6240 )
2017-11-10 19:50:11 -07:00
Aaron Fisher
af06ea0e74
Fixed mfem mpi build issue. ( #6254 )
...
* Fixed mfem mpi build issue.
* Fixed a non-mpi build issue and switched to the latest official MFEM release.
2017-11-10 19:49:17 -07:00
Yifan Zhu
e38f31e773
feature/r-reprex: new package ( #6257 )
2017-11-10 19:47:21 -07:00
Cyrus Harrison
b079e1dbd5
add alpine ascent ( #6224 )
...
* add ascent package and and deps
* proper use of site_packages_dir prop
* flake8
* add maitain, small updates
* flake8
* flake8
* fixs for docstrings for sphinx
2017-11-10 17:00:47 -08:00
becker33
917d021997
Add version 1.04 ( #6259 )
2017-11-10 15:52:48 -08:00
becker33
a7b817b494
elfutils: add --no-as-needed flag for library ordering issue ( #6256 )
...
* add --no-as-needed flag for library ordering issue libelf
* fix syntax error.
2017-11-10 11:42:37 -08:00
Yifan Zhu
f6ed8d856a
xclip: created new package ( #6248 )
2017-11-10 11:13:00 -07:00
Yifan Zhu
a872dc5927
r-clipr: created new package ( #6249 )
2017-11-10 11:11:45 -07:00
lingnanyuan
acc3817ffc
r-purrr: Create new package. ( #6241 )
2017-11-09 14:51:30 -07:00
lingnanyuan
65a278c927
r-covr: Create new package. ( #6239 )
2017-11-09 13:19:53 -07:00
lingnanyuan
e43e29209d
r-readxl: Create new package. ( #6238 )
2017-11-09 13:19:43 -07:00
lingnanyuan
0902f58f3d
r-cellranger: Create new package. ( #6237 )
2017-11-09 13:19:25 -07:00
lingnanyuan
5e0e3092f6
r-rematch: Create new package. ( #6236 )
2017-11-09 13:19:12 -07:00
Satish Balay
2b07379831
petsc: when hdf5 depends on zlib - petsc+hdf5 should also be configur… ( #6189 )
...
* petsc: when hdf5 depends on zlib - petsc+hdf5 should also be configured with zlib
* petsc: fix dependency [of zlib to be on hdf5 - and not on petsc]
* petsc: use the fact that hdf5/package.py has a hard dependency on zlib [so no need to check for this dependency in code]
recommended-by: @davydden
* petsc: change hdf5 dependency to 'hdf5+hl' as petsc configure is looing for -lhdf5_hl
https://github.com/spack/spack/issues/5846
2017-11-09 11:34:59 -08:00
Satish Balay
8d512ce9ae
magma: cuda updates [from xsdk-0.3.0 branch] ( #6160 )
...
- add gcc dependency per cuda versions
- Fix for cuda-9.0 as it does not support sm20
nvcc fatal : Unsupported gpu architecture 'compute_20'
2017-11-09 11:34:40 -08:00
lingnanyuan
ee867db5de
r-log4r: Create new package. ( #6133 )
2017-11-09 10:23:48 -07:00
Simone Bnà
c79a0fbbf2
mesa: fixed url for version ( #5818 )
2017-11-09 10:16:52 -07:00
Benedikt Riedel
266de67c24
ROOT needs to have a consistent version of binutils, as it is very sensitive to the version of libopcodes. You can't move the code from one system (with the same OS) as another. ( #6226 )
2017-11-09 06:49:27 -08:00
lingnanyuan
935a6b00d7
r-analysispageserver: Create new package. ( #6135 )
2017-11-09 07:23:10 -07:00
Levi Baber
74d38b3150
py-dlcpar ( #6229 )
...
* py-dlcpar: new package
* py-dlcpar: whitespace
2017-11-09 07:21:56 -07:00
baip
acf6653933
pexsi: add version 0.10.2 ( #6232 )
2017-11-09 07:21:39 -07:00
David Gardner
d9fc26b2a5
add sundials 3.1.0 ( #6230 )
2017-11-09 14:04:03 +01:00
Luigi Calori
24bb3c61de
fix perl dependent modules, #5900 ( #5937 )
...
* FIX perl dependent environmwent setup to avoid void lines in generated modules as #5900
* remove debug prints
* fix flake8
2017-11-08 22:10:50 -07:00
Alfredo Adolfo Gimenez
a754bd7eee
Package/sosflow ( #6122 )
...
* Added missing deps to libffs
* SOSflow spack package pointing to sos_flow feature/spack branch
* Using tag for spack build
* Change url to spack/spack
2017-11-08 22:07:37 -07:00
David Gardner
a656bc300a
add patch for building sundials ( #6161 )
...
* add patch for building sundials on mac
* add upper limit on the patch
2017-11-08 22:06:34 -07:00
Yifan Zhu
3159841e33
r-callr: created new package ( #6223 )
2017-11-08 21:59:21 -07:00
lingnanyuan
72bec9a7a0
r-rex: Create new package. ( #6221 )
2017-11-08 21:57:09 -07:00
Yifan Zhu
ca2ffd9299
r-rvest: created new package ( #6220 )
2017-11-08 21:56:50 -07:00
Levi Baber
ef126523f1
fastme: new package ( #6219 )
2017-11-08 21:56:32 -07:00
Yifan Zhu
edc1e6a0d8
r-selectr: created new package ( #6218 )
2017-11-08 21:56:02 -07:00
lingnanyuan
e57564e899
r-tseries: Create new package. ( #6216 )
2017-11-08 21:55:45 -07:00
sknigh
699748a2be
Added missing build dependency to json-c ( #6211 )
2017-11-08 21:55:28 -07:00
lingnanyuan
e2004076b1
r-allelicimbalance: Create new package. ( #6044 )
2017-11-08 21:52:46 -07:00
Yifan Zhu
ac7f5a1af1
r-mzr: created new package ( #6206 )
2017-11-08 19:53:00 -07:00
Yifan Zhu
cd4b19ffa8
r-msnbase: new package ( #6207 )
2017-11-08 19:52:38 -07:00
lingnanyuan
912d39908d
r-sqldf: Create new package. ( #6208 )
2017-11-08 19:52:08 -07:00
lingnanyuan
4585d6426a
r-gsubfn: Create new package. ( #6209 )
2017-11-08 19:51:51 -07:00
Yifan Zhu
b110cd0b12
r-vsn: new package ( #6210 )
...
* r-hexbin: updated md5
* r-vsn: created new package
2017-11-08 19:51:35 -07:00
lingnanyuan
7848e0d4b6
r-quantmod: Update version to 0.4-11 ( #6212 )
2017-11-08 19:51:13 -07:00
Yifan Zhu
ecdaea1c8e
r-xml2: created new package ( #6217 )
2017-11-08 19:50:53 -07:00
lingnanyuan
1c2292dcd4
r-timedate: Create new package. ( #6215 )
2017-11-08 19:50:37 -07:00
lingnanyuan
5558cce438
r-fracdiff: Create new package. ( #6214 )
2017-11-08 19:50:18 -07:00
lingnanyuan
2cd57876c7
r-forecast: Create new package. ( #6213 )
2017-11-08 19:49:58 -07:00
Christoph Junghans
b3f678c1c0
gasnet: add 1.30.0 ( #6167 )
...
* gasnet: add 1.30.0
* gasnet: expose more options as variants
* gasnet: change defaults
2017-11-08 19:43:13 -07:00
Audrey Thoma
877bee3cb5
guidance: new package ( #6079 )
...
* guidance: new package
* not really fixed yet
* adding loop
* fixing url
* dang typos
2017-11-08 14:07:13 -07:00
lingnanyuan
dd3a6d7f18
r-ampliqueso: Create new package. ( #6132 )
2017-11-08 14:05:53 -07:00
Yifan Zhu
96f70606e8
r-tiff: created new package ( #6134 )
2017-11-08 14:05:33 -07:00
lingnanyuan
f73b409968
r-anaquin: Create new package. ( #6138 )
2017-11-08 14:05:17 -07:00
lingnanyuan
2cba0d4d5f
r-qvalue: Create new package. ( #6137 )
2017-11-08 14:05:00 -07:00
baip
4273ebac3c
libxsmm: add libs property ( #6193 )
2017-11-08 14:04:26 -07:00
lingnanyuan
17b9a479b6
r-aneufinderdata: Create new package. ( #6192 )
2017-11-08 14:03:35 -07:00
lingnanyuan
bb619aa091
r-aneufinder: Create new package. ( #6191 )
2017-11-08 14:03:22 -07:00
Christoph Junghans
d8db861fec
flecsi: fix build ( #6168 )
2017-11-08 14:03:05 -07:00
lingnanyuan
04f32377b2
r-rhtslib: Create new package. ( #6164 )
2017-11-08 14:02:12 -07:00
Audrey Thoma
3fcc911737
kraken: new package ( #6163 )
2017-11-08 14:01:55 -07:00
Audrey Thoma
743a87abb3
fpc: new package ( #6162 )
2017-11-08 14:01:31 -07:00
lingnanyuan
6556a5c914
r-cowplot: Create new package. ( #6190 )
2017-11-08 13:58:57 -07:00
Yifan Zhu
5f70d578ec
r-maldiquant: created new package ( #6188 )
2017-11-08 13:58:43 -07:00
lingnanyuan
860834e094
r-reordercluster: Create new package. ( #6187 )
2017-11-08 13:58:21 -07:00
Yifan Zhu
605c8e65b3
r-mzid: created new package ( #6186 )
2017-11-08 13:58:04 -07:00
Yifan Zhu
98baf49ba6
r-xde: created new package ( #6185 )
2017-11-08 13:57:46 -07:00
lingnanyuan
3943bc945b
r-ggdendro: Create new package. ( #6184 )
2017-11-08 13:57:30 -07:00
lingnanyuan
241e1b56b5
r-dnacopy: Create new package. ( #6183 )
2017-11-08 13:57:15 -07:00
Yifan Zhu
92a582d5f8
r-mergemaid: created new package ( #6182 )
2017-11-08 13:56:59 -07:00
lingnanyuan
146db9adef
r-bamsignals: Create new package. ( #6181 )
2017-11-08 13:56:34 -07:00
Yifan Zhu
87aafeb78a
r-xmapbridge: created new package ( #6180 )
2017-11-08 13:56:15 -07:00
Sergey Kosukhin
c7a855ba57
Missing dependency for 'cdo'. ( #6175 )
2017-11-08 13:55:57 -07:00
baip
ed00757265
gcc: add 5.5.0 ( #6171 )
2017-11-08 20:27:08 +01:00
vishalkenchan
392929ba77
lammps: add more packages ( #6174 )
...
* lammps : adding new varients and dependencies therein
* Update package.py
* removing trailing whitespaces
2017-11-08 09:01:14 -07:00
Matthew Scott Krafczyk
00d48e60bf
Fix for nghttp2 installation ( #5904 )
...
nghttp2 depends on python, and requires the install directory to exist,
and contain the python module directory which it will eventually
install the python modules into.
2017-11-07 15:59:15 -08:00
James Dickson
841d42b308
TyphonIO: new package + Updated MACSio package ( #6177 )
2017-11-07 13:13:06 -07:00
Audrey Thoma
8bae192d5c
repeatmasker: new package ( #6108 )
2017-11-06 17:27:42 -07:00
Michael Kuhn
ca73103dac
Introduce static_to_shared_library function ( #6092 )
...
The static_to_shared_library function takes an existing static library
and produces a shared library based on it.
2017-11-06 17:21:46 -07:00
Satish Balay
dc78e60c83
trilinos: update hdf5 dependency to use 'hdf5+hl' ( #6025 )
...
* trilinos: update hdf5 dependency to use 'hdf5+hl'
Without this change - I get the following error [triggered by 161dca6d5
c9810f808
changes]
$ ./bin/spack install trilinos+hdf5
==> Error: An unsatisfiable variant constraint has been detected for spec:
hdf5@1.10.1%gcc@7~cxx~debug~fortran~hl+mpi+pic+shared~szip~threadsafe arch=linux-fedora27-x86_64
while trying to concretize the partial spec:
netcdf+mpi
^m4
^mpich@3.3a2%gcc@7 device=ch3 +hydra netmod=tcp +pmi+romio~verbs arch=linux-fedora27-x86_64
^zlib@1.2.11%gcc@7+optimize+pic+shared arch=linux-fedora27-x86_64
netcdf requires hdf5 variant +hl, but spec asked for ~hl
* fix flake8 warning
2017-11-06 13:03:06 -08:00
Luigi Calori
f0d33df3a9
some missing X11 "*proto" dependencies ( #6158 )
...
* fix xinput deps
* adding other x11 proto missing deps, see #6157
2017-11-06 13:02:05 -08:00
Satish Balay
436ebc4490
petsc: update petsc dependency on superlu-dist ( #6159 )
2017-11-06 12:52:10 -08:00
Yifan Zhu
cd4d26705e
Bioconductor package url change ( #5797 )
2017-11-06 11:17:59 -07:00
Michael Kuhn
450f2fa034
likwid: Use external lua if possible ( #6009 )
2017-11-06 11:14:34 -07:00
Douglas Duckworth
47b15feec3
added new package - MotionCor2 ( #6151 )
2017-11-06 11:09:46 -07:00
Denis Davydov
f538b7ac3e
dealii: make sure bundled libs are not used ( #6106 )
2017-11-06 12:38:59 +01:00
Besnard Jean-Baptiste
84c6fea32e
Graphviz : Add a GTS variant ( #6149 )
...
Enable support for the GNU Triangulated Surface Library
- New variant +gts for graphviz
- Optionnal dependency for GTS (already packaged)
2017-11-05 16:55:44 -08:00
Douglas Duckworth
ccc51cea7d
added relion v 2.1 ( #6023 )
...
* added relion v 2.1
* relion 2.1 - misssed comma
* relion now pulling from master branch - removed 2.03 - added cuda 8 as dependency given 9 does not yet work with relion per https://github.com/3dem/relion/issues/296
2017-11-05 15:01:21 -08:00
Ben Boeckel
22df09315f
Re-add list_url for all R packages ( #6110 )
...
* r-igraph: find old packages in the archive
Fixes #6104 .
* r-irlba: find old packages in the archive
Fixes #6101 .
* r-lazyeval: find old packages in the archive
Fixes #6102 .
* packages: set list_url for all packages hosted on CRAN
* packages: consistently use the CRAN archive URLs
2017-11-05 13:42:24 -08:00
Adam Moody
2a8c97d440
dtcmp: add v1.1.0 ( #6146 )
2017-11-05 09:25:03 -08:00
Satish Balay
d34d0d6cbc
petsc: update to version 3.8.1 ( #6150 )
...
* petsc: update to version 3.8.1
* petsc: add in conflict between petsc-3.8.0 & mkl
2017-11-05 09:24:42 -08:00
Axel Huebl
5d9dd24daa
ISAAC 1.3.3 ( #6152 )
...
Add a new release of ISAAC.
2017-11-05 09:24:18 -08:00
Todd Gamblin
05fa302655
Replace github.com/llnl/spack with github.com/spack/spack ( #6142 )
...
We moved to a new GitHub org! Now make the code and docs reflect that.
2017-11-04 17:08:04 -07:00
vishalkenchan
386e0af089
add rol variant ( #6105 )
2017-11-04 12:14:46 -07:00
Yifan Zhu
9d234c4f8e
r-yapsa: created new package ( #6121 )
2017-11-03 14:21:00 -06:00
Yifan Zhu
fb1160d052
r-keggrest: created new package ( #6120 )
2017-11-03 14:20:36 -06:00
lingnanyuan
3921948b03
r-statmod: Create new package. ( #6119 )
2017-11-03 14:20:14 -06:00
lingnanyuan
b204c7e793
r-deseq: Create new package. ( #6118 )
2017-11-03 14:19:38 -06:00
lingnanyuan
f91c25ddee
r-samr: Create new package. ( #6117 )
2017-11-03 14:19:16 -06:00
lingnanyuan
d54627659a
r-impute: Create new package. ( #6116 )
2017-11-03 14:18:46 -06:00
lingnanyuan
95e290eaf3
r-altcdfenvs: Create new package. ( #6115 )
2017-11-03 14:18:17 -06:00
lingnanyuan
64689bdb01
r-makecdfenv: Create new package. ( #6114 )
2017-11-03 14:17:58 -06:00
lingnanyuan
b614c7970b
r-hypergraph: Create new package. ( #6113 )
2017-11-03 14:17:36 -06:00
Axel Huebl
5a4544ab05
ISAAC 1.3.2 ( #6129 )
...
Add a new release of ISAAC.
2017-11-03 14:58:38 +01:00
Ben Boeckel
be01b2d5f0
aspell: refuse to work with non-global extensions
...
Aspell compiles in the paths it looks for rather than looking relative
to its binary location. There are also no environment variables to
redirect it other than changing the path to the configuration file it
looks at.
2017-11-02 18:45:40 -07:00
Ben Boeckel
a81485cb3f
perl: support extensions in views
2017-11-02 18:45:40 -07:00
Oliver Breitwieser
643a28aac5
python: extensions support for easy-install.pth
2017-11-02 18:45:40 -07:00
Ben Boeckel
d5a3d9d20e
view: test conflicting packages in views
2017-11-02 18:45:40 -07:00
Ben Boeckel
13b669de8e
view: test that extension paths exist
2017-11-02 18:45:40 -07:00
Ben Boeckel
41dfba0ba1
extension1: add a second version
2017-11-02 18:45:40 -07:00
Ben Boeckel
a7925bb927
bdftopcf: require xproto and fontsproto at build time ( #6112 )
...
These are technically "link" depends of libxfont, but they have no
actual libraries.
Fixes #5936 .
2017-11-02 15:47:18 -06:00
lingnanyuan
13f1781bea
Add package r-reportingtools and update url for its dependencies. ( #6071 )
...
* r-reportingtools: Create new package.
* r-go-db: Update url.
* r-gseabase: Update url.
* r-pfam-db: Update url.
2017-11-02 14:21:32 -06:00
Michael Kuhn
d1db161aeb
adios: Fix hdf5 and sz dependencies ( #6016 )
...
- hdf5's +hl variant is required because the build uses libhdf5_hl.
- sz is only compatible up to version 1.4.10 because the library has
been renamed to libSZ in 1.4.11.
2017-11-02 13:41:25 -06:00
Brice Goglin
3a1b013291
hwloc: add version 1.11.8 ( #6099 )
...
Signed-off-by: Brice Goglin <Brice.Goglin@inria.fr>
2017-11-02 13:40:46 -06:00
Audrey Thoma
f9341857c7
arlecore: new package ( #6109 )
2017-11-02 13:40:03 -06:00
Christoph Junghans
c4db3d384e
gromacs: add develop version ( #6098 )
2017-11-02 15:16:21 +01:00
Adam J. Stewart
e47ceefc43
sundials+hypre depends on hypre ( #6075 )
2017-11-02 08:16:43 +01:00
Denis Davydov
11ba60413b
the-silver-searcher: add missing dependency ( #6095 )
2017-11-02 08:10:40 +01:00
Michael Kuhn
61ed583266
xqilla: Use append instead of extend ( #6094 )
2017-11-02 08:09:24 +01:00
Brian Van Essen
932068d725
Update candle ( #6097 )
2017-11-01 23:58:55 -06:00
Yifan Zhu
7d0c6361ee
r-getoptlong: created new package ( #6069 )
2017-11-01 19:09:54 -06:00
Yifan Zhu
f15969d624
r-gtrellis: created new package ( #6088 )
2017-11-01 19:09:20 -06:00
Brian Van Essen
86b7b84ddf
LBANN flags and OpenCV variant ( #5951 )
...
* Fixed the datatype flag in the LBANN package.
Fixed where the datatype flag should be set.
* Added variant to OpenCV to disable building DNN support
* Fixed a bug in how the elemental package tries to find its Fortran
library. The current method does not work with Intel compilers.
* Added necessary paths for cuDNN and CUB.
* Addressed flake8 issues in Elemental package.
* Fixed several flake8 errors. Added variant to build with or without
support for arbitrary-precision floating point arithmetic.
* Added the proper CMake flag when MPFR support is disabled.
* Fixed a bug in how the cudnn path was being set when there was no
cudnn requested. Also requested that OpenCV is built without eigen
support.
* Fixed another bug where a dependency may not be there and thus should
not be always checked.
2017-11-01 17:25:28 -07:00
Michael Kuhn
0d624eac55
lua: Build a shared library ( #6008 )
...
Patch is inspired by Arch Linux and Homebrew.
2017-11-01 17:10:14 -06:00
Yifan Zhu
f3af8272f5
r-circlize: new package ( #6087 )
2017-11-01 17:08:46 -06:00
lingnanyuan
ef240f59b8
r-alsace: Create new package. ( #6064 )
2017-11-01 17:04:56 -06:00
Yifan Zhu
26ade0c9ae
r-globaloptions: new package ( #6068 )
2017-11-01 17:04:38 -06:00
lingnanyuan
a05cca49d8
r-affycoretools: Create new package and its dependency r-ff. ( #6082 )
...
* r-ff: Create new package
* r-affycoretools: Create new package.
* r-ff: update url.
2017-11-01 17:04:17 -06:00
lingnanyuan
541818ed06
r-agimicrorna: Create new package. ( #6083 )
2017-11-01 17:03:48 -06:00
Yifan Zhu
616a43b76d
r-complexheatmap: created new package ( #6084 )
2017-11-01 17:03:30 -06:00
Yifan Zhu
ebff5086d7
r-shape: created new package ( #6086 )
2017-11-01 17:03:15 -06:00
Yifan Zhu
7fb6fbea54
r-pmcmr: new package ( #6085 )
2017-11-01 17:02:58 -06:00
Brian Van Essen
0c075b4923
Opencv eigen ( #6014 )
...
* Added a package for the MDAnalysis toolkit.
* Changed dependency for the eigen library to not include support for
multiple-precision (arbitrary-precision) floating point arithmetic,
since OpenCV does not support these data types.
* Fixed incorrect implementation
2017-11-01 13:50:06 -07:00
Mark Grondona
165e6bfe5f
flux: update flux-core to v0.8.0 ( #5914 )
...
* dockbook: remove update to dependent environment
Remove override of setup_dependent_environment in both docbook-xml
and docbook-xsl, which seems to generate a warning from spack about
"Suspicious requests to set or unset 'XML_CATLOG_FILES' found."
* flux: update version/dependencies to 0.8.0
Update flux-core to v0.8.0. Clean up dependencies and remove unneeded
extra invocation of ./autogen.sh when building from @master.
* flux: modify environment for Lua tests
Modify Spack environment to add `./?.lua` to LUA_PATH so that
fluxometer.lua can be found by tests during `make check` run
from `spack install --tests all flux`
* flux: fix broken flux version when on master
When building @master with spack, the flux version test from
`make check` fails because spack is using a shallow clone. Add
a setup section for @master that calls git pull --depth=50 --tags
to pull down tags and (hopefully) enough information for git-describe
to work properly.
2017-11-01 08:53:37 -07:00
Satish Balay
445ffc46a1
mfem does not use cmake for builds [anymore] - so remove code corresponding to this dependency. ( #6073 )
...
This enables mfem build on OSX [with xcode/clang compilers]
2017-11-01 08:52:03 -07:00
Elsa Gonsiorowski
b53adc90f7
MACSio and JSON-CWX packages ( #6018 )
2017-10-31 19:07:00 -06:00
Patrick Gartung
8a812294e0
Preinstall some llvm shared libraries so tblgen will work. ( #5988 )
2017-10-31 18:34:33 -06:00
Yifan Zhu
0ecef7d7f8
r-somaticsignatures: created new package ( #6065 )
2017-10-31 18:31:06 -06:00
lingnanyuan
1ec8f6ea3f
r-nloptr: Create new package. ( #6063 )
2017-10-31 18:30:49 -06:00
lingnanyuan
cfb685aa32
r-ptw: Create new package. ( #6062 )
2017-10-31 18:29:45 -06:00
lingnanyuan
aa1808c9a1
r-iso: Create new package. ( #6061 )
2017-10-31 16:17:53 -06:00
lingnanyuan
6af19477ef
r-nnls: Create new package. ( #6060 )
2017-10-31 16:17:36 -06:00
lingnanyuan
77b29288e6
r-als: Create new package. ( #6059 )
2017-10-31 16:17:21 -06:00
Yifan Zhu
10fcd9382a
r-ggbio: new package ( #6058 )
2017-10-31 16:17:07 -06:00
Bill Williams
f5e68879db
Fix spack build for RAJA: master requires submodules ( #6052 )
...
* Fix spack build for RAJA: master requires submodules
* Rename version: git to develop
2017-10-31 15:08:32 -06:00
Scott Wittenburg
3cb2d5341d
Fix incorrect checksum value for adios2 tarball ( #6054 )
2017-10-31 15:08:08 -06:00
lingnanyuan
6427406fc6
r-gviz: Create new package. ( #6043 )
2017-10-31 15:06:30 -06:00
Brian Homerding
8a86016bef
Added fftw dependency ( #6057 )
2017-10-31 14:33:01 -06:00
Brian Homerding
180dcfc652
sw4lite: Added -lgfortran and set to serial build ( #6055 )
...
* Added -lgfortran and set to serial build
* Update package.py
2017-10-31 14:29:06 -06:00
Christoph Junghans
d98e337706
ecp-proxy-suite: add nekbone and candle-benchmarks ( #6053 )
2017-10-31 13:11:08 -06:00
Christoph Junghans
182c11dd92
nekbone: add v17 ( #5978 )
2017-10-31 10:47:24 -06:00
Christoph Junghans
178107699c
candle-benchmarks: initial commit ( #6020 )
2017-10-31 09:11:04 -06:00
Christoph Junghans
ea35f49cdd
flang: fixed a typo ( #6048 )
2017-10-31 14:21:29 +01:00
Nils Deppe
4997291bf4
Add v3.2 of Blaze library ( #5992 )
2017-10-31 08:33:55 +01:00
George Hartzell
e69542c019
Fix tarball URL's for htslib ( #5993 )
...
A recent update (#5907 ) to htslib added a different URL for an old
version of htslib.
Now the package is using that URL as the pattern for the newer
versions too.
I have a vague memory of running into this before, that it's a known
issue.
This fixes it by adding an explicit `url_for_version` routine.
2017-10-30 22:49:52 -06:00
David Gardner
10b27ec788
sundials: update to v3.0.0 ( #6004 )
2017-10-30 22:49:13 -06:00
Jon Rood
50d932d9f1
Merging netcdf dependency lines in trilinos into one line for better coverage. ( #5990 )
2017-10-30 22:48:21 -06:00
Satish Balay
f5863d6708
superlu_dist: update to v5.2.2 ( #6024 )
2017-10-30 22:46:41 -06:00
Yifan Zhu
a31a1fef28
r-progress: new package ( #6034 )
...
* r-progress: created new package
* added version
2017-10-30 22:43:57 -06:00
Yifan Zhu
a97068a861
r-prettyunits: created new package ( #6033 )
2017-10-30 22:43:20 -06:00
lingnanyuan
6ddba08434
r-seqinr: Update version to 3.4-5 ( #6032 )
2017-10-30 22:42:51 -06:00
Yifan Zhu
8cc3bcb649
r-ggplot2: dependecy r-scales version should be 0.4.1: ( #6031 )
2017-10-30 22:42:31 -06:00
Yifan Zhu
fb072d1472
r-scales: added dependencies and version 0.5.0. ( #6030 )
...
* r-scales: Update url.
* r-scales: added version 0.5.0 and dependencies
2017-10-30 22:42:05 -06:00
lingnanyuan
7e4ac9a559
r-segmented: Update version to 0.5-2.2 ( #6029 )
2017-10-30 22:41:32 -06:00
Yifan Zhu
34c6ff10e9
r-ggally: new package ( #6036 )
...
* r-ggally: created new package
* r-ggally: version modified
2017-10-30 22:41:12 -06:00
lingnanyuan
65785cc3f5
r-speedglm: Create new package. ( #6035 )
2017-10-30 22:40:48 -06:00
lingnanyuan
a4138b6041
r-alpine: Create new package. ( #6037 )
2017-10-30 22:40:25 -06:00
Yifan Zhu
22f9125164
r-ensembldb: created new package ( #6038 )
2017-10-30 22:39:54 -06:00
Yifan Zhu
2a7027e2cc
r-pcamethods: created new package ( #6041 )
2017-10-30 22:39:29 -06:00
Yifan Zhu
cbb433655c
r-proxy: created new package ( #6039 )
2017-10-30 22:39:05 -06:00
lingnanyuan
8271434632
r-backports: Create new package. ( #6040 )
2017-10-30 22:38:35 -06:00
lingnanyuan
81d3c9fdc6
r-biovizbase: Create new package. ( #6042 )
2017-10-30 22:38:10 -06:00
Abhinav Bhatele
b37c8fef74
ecp-proxy-apps: release number changed to 1.0 ( #6049 )
2017-10-30 22:37:09 -06:00
Abhinav Bhatele
347c76b7a0
comd: update the git repo ( #6027 )
...
git repo has moved from exmatex to ECP-copa
2017-10-30 14:47:16 -06:00
George Hartzell
e6bc45a04a
Add bowtie2@2.3.0, fix dependencies and sbangs ( #5834 )
...
* Add bowtie2@2.3.0, fix dependencies and sbangs
Add support for bowtie2@2.3.0
- digest
- a patch for 2.3.0 that parallels the existing package. Truth be
told it builds (for me) without this, but I'm assuming that they're
there for a reason...).
- tune up dependencies
- need tbb
- don't need readline or zlib
Several things were installed with sbang's that use `/usr/bin/env` to
fine perl or python. Fix the dependency and clean up the sbang lines.
* Fix python exe name, avoid path banging
I'd cut and pasted the python bit from the perl bit and missed one
reference to perl.
While I'm there, use the cleaner `spec['perl'].command` instead of
banging together the path from its bits.
* Fix up the "when" constraints on the dependencies
Get the edge cases right.
- 2.2.5 doesn't need tbb, 2.3.[01] do.
- 2.3.1 needs readline and zlib.
2017-10-29 15:40:00 -06:00
Denis Davydov
957ded209a
add updated 2017 versions of Intel packages ( #5957 )
2017-10-29 15:38:10 -06:00
mmwolf
73fb02229a
Changed from setting C compiler to setting C++ compiler ( #6011 )
2017-10-29 07:42:27 -06:00
Denis Davydov
f6a8ae230e
dealii: remove bzip2 dependency for newer versions ( #6022 )
2017-10-29 07:39:51 -06:00
Yifan Zhu
56c7832789
r-iranges: changed url to git and added versioned dependency on r ( #5971 )
2017-10-28 12:14:33 -06:00
Audrey Thoma
f340333e6e
r-geomorph and other r fixes ( #5961 )
2017-10-28 12:13:38 -06:00
lingnanyuan
57611397c9
r-e1071: Add list_url. ( #5986 )
2017-10-28 12:12:52 -06:00
Michael Kuhn
b43e2d2546
likwid: Update checksum ( #6007 )
2017-10-28 12:12:21 -06:00
Yifan Zhu
43c1bb5f30
r-organismdbi: new package ( #5997 )
2017-10-28 12:11:44 -06:00
lingnanyuan
3eab6ed4b2
r-aldex2: Create new package. ( #6015 )
2017-10-28 12:10:22 -06:00