Commit graph

11435 commits

Author SHA1 Message Date
Andrew Gaspar
8675f44d45 Kokkos package: add debug variant (#11469) 2019-05-16 17:35:23 -07:00
Massimiliano Culpo
c03be0d65a Command extensions can import code from modules in root or cmd folder (#11209)
#8612 added command extensions to Spack: a command implemented in a
separate directory. This improves the implementation by allowing
the command to import additional utility code stored within the
established directory structure for commands.

This also:

* Adds tests for command extensions
* Documents command extensions (including the expected directory
  layout)
2019-05-16 17:27:42 -07:00
Chris Green
b9370bf20b Allow command access to dump/pickle_environment from #8476 (#11434)
* Allow command access to dump/pickle_environment from #8476
2019-05-17 09:15:32 +09:00
Chris Green
f90507a227 numpy: new version 1.16.3; update historical versions. (#11364) 2019-05-16 11:44:43 -05:00
Chuck Atkins
c2d6095cf3
paraview: fix several dependency issues (#11432)
* Use externally provided mpi4py
* Make mpi4py and numpy both build deps instead of only run deps
* libxt is only on ~osmesa platform=linux
2019-05-16 09:04:44 -04:00
Matthias Wolf
7fcf534b25 junit: escape remaining inputs. (#11382) 2019-05-16 14:40:07 +02:00
David Beckingsale
5ccc695bfb Fix CMake versions dependencies in RAJA package (#11440) 2019-05-16 13:54:52 +02:00
Thomas Gruber
0337170d34 Likwid: added versions 4.3.3 and 4.3.4 (#11479) 2019-05-16 13:35:25 +02:00
Denis Davydov
38a59e6e37 symengine: add 0.4.0, fix dependency in dealii (#11473) 2019-05-16 12:23:21 +02:00
Todd Gamblin
a750237532
flake8: add exceptions for overly pedantic camelcase rules from pep8-naming (#11477)
Rules N813 and N814 prevented import statements like this:

  xml.etree.ElementTree as et
  xml.etree.ElementTree as ET

But both of those seem pretty reasonable.  We see no reason to require any camelcase import to be imported "as" a camelcase word.
2019-05-16 09:47:02 +02:00
ktsai7
f68f5e3014 Update flecsi package.py (#11442)
* Update flecsi package.py

* Update package.py

* Update package.py

* Update package.py
2019-05-15 15:29:08 -06:00
Justin S
bfb0f57492 r-geonames: new package at 0.999 (#11455) 2019-05-15 16:04:50 -05:00
Justin S
11bd795ca8 repeatscout: new package at 1.0.5 (#11409)
* repeatscout: new package at 1.0.5

* repeatscout: add trf runtime dependency

* repeatscout: add nseg runtime dependency
2019-05-15 16:04:17 -05:00
Justin S
19355cafae r-phylostratr: new package (#11053) 2019-05-15 16:03:36 -05:00
Justin S
5f5616d6a2 r-taxizedb: new package at 0.1.4 (#11052) 2019-05-15 16:02:54 -05:00
Justin S
b19429159f r-rmysql: add 0.10.17, mariadb-connector-c dependency (#11044)
* r-rmysql: add 0.10.17, mariadb-connector-c dependency

* r-rmysql: add dbi, mariadb version constraints
2019-05-15 15:58:15 -05:00
Justin S
62fa813678 recon: new package at 1.08 (#11408)
* recon: new package at 1.08

* recon: add period

* recon: use proper decorators, better documentation

* recon: fix incorrect os import

* recon: add repeatmasker patch as variant
2019-05-15 15:55:10 -05:00
Justin S
80d7573df8 r-rnoaa: new package at 0.8.4 (#11461) 2019-05-15 15:52:17 -05:00
Justin S
a99454ec6d r-isdparser: new package at 0.3.0 (#11460) 2019-05-15 15:51:50 -05:00
Justin S
cdd8da7251 r-crul: new package at 0.7.4 (#11459) 2019-05-15 15:51:11 -05:00
Justin S
cfad3cd06c r-httpcode: new package at 0.2.0 (#11454) 2019-05-15 15:50:32 -05:00
Justin S
f3dd933e3f r-urltools: new package at 1.7.3 (#11458) 2019-05-15 15:48:54 -05:00
Justin S
c49017a4c5 r-triebeard: new package at 0.3.0 (#11457) 2019-05-15 15:48:17 -05:00
Justin S
230db7c880 r-curl: add 3.3 (#11456) 2019-05-15 15:47:45 -05:00
Denis Davydov
9d34326992 fix suite-sparse built with tbb from intel-parallel-studio (#11134)
* fix suite-sparse built with tbb from intel-parallel-studio

* intel: add tbb_headers, strip newline from cxx_lib

* use property
2019-05-15 11:03:19 -07:00
Justin S
5c021f5416 New package: NSEG (starting at version 1.0) (#11410)
The source is managed as a set of files in an FTP URL. Since there
are no FetchStrategy's implemented for this setup, the files are
managed as a set of Resource's
2019-05-15 10:35:38 -07:00
Leonhard Reichenbach
eae9b0908a CMake package: add dependencies (#11257)
Add dependencies to CMake and GnuTLS which would otherwise be
picked up from the system

* Add gnutls as explicit dependency of CMake
* Add new package libidn2 as explicit dependency for gnutls
2019-05-15 10:07:31 -07:00
Christoph Junghans
0226a95232
parsplice: fix build (#11462) 2019-05-15 08:18:35 -06:00
Todd Gamblin
1dc8f952a5
Use svn info --xml instead of svn info to get svn revisions (#11466)
- `svn info` prints different results depending on the system locale
  - in particular, Japanese output doesn't contain "Revision:"

- Change Spack code to use XML output instead of using the human output
2019-05-15 13:37:02 +02:00
Brian Van Essen
821b7d3b93 Added setuptools to receipe (#11463) 2019-05-15 12:19:04 +02:00
Michael Kuhn
58c5442d62 kitty: Fix pkgconfig dependency (#11465)
pkgconfig is the correct virtual dependency while pkg-config is a
specific implementation.
2019-05-15 12:18:16 +02:00
Sinan
54d56db1f1 New package: py-pyrosar (#11428) 2019-05-15 10:53:30 +09:00
Sinan
733c2a2554 New package: py-spatialist (#11427) 2019-05-15 10:52:31 +09:00
Sinan
63af41c0c6 New package: py-tblib (#11425) 2019-05-15 10:51:37 +09:00
Sinan
e2ce4386e2 New package: py-scoop (#11423) 2019-05-15 10:50:41 +09:00
Sinan
249845e80b New package: py-progressbar2 (#11421) 2019-05-15 10:49:28 +09:00
Sinan
544cf085b4 New package: py-python-utils (#11422) 2019-05-15 10:47:28 +09:00
Christoph Junghans
6083de3baa
nut: add v0.1.1 (#11444) 2019-05-14 16:36:31 -06:00
Justin S
723eea00f3 r-construct: new package at 1.0.3 (#11452) 2019-05-14 16:24:01 -05:00
Justin S
1ceeac8603 r-rstan: add 2.18.2 (#11447) 2019-05-14 16:23:14 -05:00
Justin S
fc890c80fb r-loo: new package at 2.1.0 (#11448) 2019-05-14 16:22:29 -05:00
Brian Van Essen
92040a475f LBANN: add support for new python front end (#11395)
* LBANN: add python dependency and required python library dependencies
* LBANN: add version 0.99 as alias for develop branch
* LBANN: build Conduit library by default
* LBANN: CUB is included with Hydrogen for later versions
* New package: py-graphviz (dependency for LBANN)
* New package: py-texttable (dependency for LBANN)
* New package: py-onnx (dependency for LBANN)
* New package: py-typing-extensions (dependency for py-onnx)
* Conduit: add version 0.4.0
* NCCL: Add versions 2.4.6-1 and 2.4.2-1
* Protobuf: Add versions 3.7.1 and 3.7.0
* py-protobuf: add version 3.7.1
* py-typing: add version 3.6.4
* cuDNN: add versions. The source differs depending on the
  architecture, so the versions include a suffix to encode this.
  For example this adds 7.5.1-10.1-x86_64 as well as
  7.5.1-10.1-ppc64le
* cuDNN: Newer versions require newer versions of CUDA
* Hydrogen: add configure options for CUB and Aluminum
2019-05-15 06:20:00 +09:00
Justin S
7ff4105ab5 gmap-gsnap: add 2019-05-12 (#11453) 2019-05-14 15:58:48 -05:00
Justin S
f726e14a0a r-rstantools: new package at 1.5.1 (#11451) 2019-05-14 15:57:54 -05:00
Justin S
ea49b64c44 r-caroline: new package at 0.7.6 (#11450) 2019-05-14 15:57:33 -05:00
Justin S
a4ceffa4ff r-stanheaders: add 2.18.1 (#11446) 2019-05-14 15:18:03 -05:00
Justin S
4f1717998a r-withr: add 2.1.2 (#11445) 2019-05-14 15:17:25 -05:00
Justin S
c6d34076dc repeatmasker: add 4.0.9, refactor interactive config (#11385) 2019-05-14 15:16:32 -05:00
Jon Rood
5cd593743e PNetCDF package: enable option required by NetCDF (#11420)
The --enable-relax-coord-bound option was added in 1.8.0. NetCDF
4.6.3 enabled relax coords by default and required it from PNetCDF.
PNetCDF 1.10.0 enabled it by default but for versions between 1.8.0
and 1.10.0 it should be enabled explicitly.
2019-05-15 05:15:38 +09:00
Peter Scheibel
c54f23d405
CUDA package: exclude compat libs (#11449)
CUDA 10.0 provides Compatability libraries for running newer versions
of CUDA with older drivers. These do not work with newer drivers.
2019-05-15 04:59:12 +09:00