Michael Kuhn
464ce2795a
glib: Use correct python command ( #13392 )
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python~pythoncmd does not provide a python symlink for python3, so make
sure we pick the right command.
2019-10-23 09:30:46 -05:00
Satish Balay
25d63aa44c
petsc: add version 3.12.1 [and variant: batch] ( #13390 )
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* petsc: add version 3.12.1 [and variant: batch]
* fix test_prs_update_old_api errors
2019-10-23 09:29:28 -05:00
Greg Becker
95a48b27ec
env activation: use package defined env setup methods ( #13249 )
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This PR ensures that environment activation sets all environment variables set by the equivalent `module load` operations, except that the spec prefixes are "rebased" to the view associated with the environment.
Currently, Spack blindly adds paths relative to the environment view root to the user environment on activation. Issue #12731 points out ways in which this behavior is insufficient.
This PR changes that behavior to use the `setup_run_environment` logic for each package to augment the prefix inspections (as in Spack's modulefile generation logic) to ensure that all necessary variables are set to make use of the packages in the environment.
See #12731 for details on the previous problems in behavior.
This PR also updates the `ViewDescriptor` object in `spack.environment` to have a `__contains__` method. This allows for checks like `if spec in self.default_view`. The `__contains__` operator for `ViewDescriptor` objects checks whether the spec satisfies the filters of the View descriptor, not whether the spec is already linked into the underlying `FilesystemView` object.
2019-10-22 23:27:40 -07:00
Benjamin Fovet
7338730528
gmsh: add version 4.4.1 ( #13366 )
2019-10-22 18:18:19 -05:00
Frédéric Simonis
ab5135db1c
Boost package: Fix iostream autodetect libraries ( #12440 )
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Boost iostream autodetects the compression libraries libzstd and
liblzma outside of the Spack environment.
This commit disables mentioned libraries. In the future if the
Spack zstd/lzma packages were added as dependencies of the Spack
Boost package, additional work could be done to build Boost with
the Spack-built versions of these libraries.
2019-10-22 14:25:03 -07:00
Axel Huebl
0f931cfc87
ADIOS2: Document endian_reverse variant ( #13226 )
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Update the documentation of the `endian_reverse` variant in ADIOS2.
The short description caused some confusion (for me) :-)
2019-10-22 11:06:06 -05:00
Ruben Di Battista
49291d5a40
git-lfs: Add new version ( #13356 )
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PS: The old versions do not work: it's likely that they changed git
history on submodules
2019-10-22 10:45:45 -05:00
Adam J. Stewart
526ee113ea
Default to Python 3.7 ( #10319 )
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* Default to Python 3
* Fix build with Intel compilers
2019-10-22 10:22:32 -05:00
Adam J. Stewart
48e8029fb1
Add latest version of py-scikit-learn ( #13295 )
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* Add latest version of py-scikit-learn
* setup_environment -> setup_build_environment
2019-10-22 09:16:58 -05:00
Adam J. Stewart
09070b0c9b
Add latest version of npth ( #13353 )
2019-10-22 09:16:33 -05:00
Adam J. Stewart
2de807d4cb
Add latest version of py-macs2 ( #13358 )
2019-10-22 09:16:07 -05:00
Adam J. Stewart
e0c310bfd3
Add latest version of py-sphinxcontrib-programoutput ( #13359 )
2019-10-22 09:15:39 -05:00
Adam J. Stewart
809733c7e6
Restrict parallel build of py-astropy to Python 3 ( #13360 )
2019-10-22 09:15:11 -05:00
Adam J. Stewart
6cb972a9d2
Add dependency version constraint to libgcrypt ( #13351 )
2019-10-22 00:43:44 -05:00
Adam J. Stewart
2aa51697c5
Fix configure arg to libassuan ( #13350 )
2019-10-22 00:43:29 -05:00
Adam J. Stewart
598274a278
Fix configure arg to libksba ( #13352 )
2019-10-22 00:43:11 -05:00
Adam J. Stewart
fb219cd91c
Add latest version of gnupg ( #13349 )
2019-10-22 00:42:56 -05:00
Adam J. Stewart
326db657da
Add latest version of patchelf ( #13348 )
2019-10-22 00:42:40 -05:00
Adam J. Stewart
5e6dc7ab4b
Add latest version of zstd ( #13340 )
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* Add latest version of zstd
* setup_environment -> setup_build_environment
2019-10-21 21:45:48 -05:00
Toyohisa Kameyama
98c0d59a0c
sniffles: fix zlib header lookup directory. ( #13063 )
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* sniffles: fix zlib header lookup directory.
* use bamtools and zlib to spack installed package.
* remove unneeded patch.
2019-10-21 18:38:05 -05:00
noguchi-k
7b62b64b03
elsi:add CMAKE Fortran MODDIR FLAG for Fujitsu compiler ( #13244 )
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* add CMAKE Fortran MODDIR FLAG for Fujitsu compiler
* elsi:remove extra fix
2019-10-21 18:28:38 -05:00
t-karatsu
0e3e1836ff
arpack-ng: Fixed error that is not compatible with isnan. ( #13246 )
2019-10-21 18:27:39 -05:00
t-karatsu
26141ad489
bpp-core: Clarify 'isnan' function's namespace. ( #13260 )
2019-10-21 18:24:10 -05:00
Michael Kuhn
edf56d8ac4
qt: Fix build for newer versions ( #13262 )
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For some reason, newer versions of qt fail to build because they cannot
find certain system libraries such as libatomic and libdl.
Leaving the qmake compiler set to gcc seems to fix the problem.
Fixes #13221
2019-10-21 18:23:03 -05:00
健美猞猁
26687988eb
New package: Fl ( #12877 )
2019-10-21 12:04:00 -07:00
Adam J. Stewart
4ab63c17d5
Fix Python 3.8 build on macOS ( #13338 )
2019-10-21 11:21:47 -05:00
Adam J. Stewart
4d99663ef9
Add latest version of py-cffi ( #13322 )
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* Add latest version of py-cffi
* setup_environment -> setup_build_environment
2019-10-21 11:19:48 -05:00
Adam J. Stewart
038f7b1b66
Add latest version of py-numpy ( #13307 )
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* Add latest version of py-numpy
* setup_environment -> setup_build_environment
2019-10-21 11:19:05 -05:00
Adam J. Stewart
72177b6e97
Add latest version of py-tables ( #13291 )
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* Add latest version of py-tables
* setup_environment -> setup_build_environment
2019-10-21 11:17:52 -05:00
Adam J. Stewart
5090071693
Add latest version of py-torch ( #13290 )
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* Add latest version of py-torch
* setup_environment -> setup_build_environment
2019-10-21 11:17:15 -05:00
Adam J. Stewart
f2d91f7e3c
Use specific version of googletest for uriparser ( #13339 )
2019-10-20 19:08:23 -05:00
Adam J. Stewart
01e64886ac
Tut cannot be built with Python 3.7+ ( #13341 )
2019-10-20 19:08:04 -05:00
Adam J. Stewart
7f2aacfffc
Add latest version of proj ( #13337 )
2019-10-20 17:56:37 -05:00
Adam J. Stewart
030b2f8657
Add missing zlib dependency to openjpeg ( #13336 )
2019-10-20 17:06:43 -05:00
Adam J. Stewart
0cfc88c7d7
openblas: http -> https ( #13335 )
2019-10-20 17:06:30 -05:00
Adam J. Stewart
785d5d9ca3
mapserver: http -> https ( #13334 )
2019-10-20 16:31:55 -05:00
Adam J. Stewart
4789ac956c
liblas: http -> https ( #13331 )
2019-10-20 15:51:35 -05:00
Adam J. Stewart
529d1246f6
libtiff: http -> https ( #13332 )
2019-10-20 15:51:23 -05:00
Adam J. Stewart
b56e46ece8
libgeotiff: http -> https ( #13330 )
2019-10-20 15:51:08 -05:00
Adam J. Stewart
f1e595cb61
Add latest version of libyaml ( #13333 )
2019-10-20 15:50:48 -05:00
Adam J. Stewart
04e999162d
Add latest version of libgcrypt ( #13329 )
2019-10-20 14:45:00 -05:00
Adam J. Stewart
73c5a9c736
Add latest version of googletest ( #13328 )
2019-10-20 14:44:43 -05:00
Adam J. Stewart
1673dc5aeb
GEOS: http -> https ( #13327 )
2019-10-20 14:44:28 -05:00
Adam J. Stewart
c767444f88
Add missing test dependency to py-alabaster ( #13325 )
2019-10-20 14:44:14 -05:00
Adam J. Stewart
a602ed873d
Add latest version of py-typing ( #13287 )
2019-10-20 13:18:02 -05:00
Adam J. Stewart
d462749b59
Add missing dependencies to py-apipkg ( #13324 )
2019-10-20 13:17:44 -05:00
Adam J. Stewart
32879df9d0
Add latest version of py-babel ( #13323 )
2019-10-20 13:17:28 -05:00
Adam J. Stewart
ea90d2b88a
Add latest version of py-chardet ( #13321 )
2019-10-20 11:44:12 -05:00
Adam J. Stewart
d2744a072b
Add latest version of py-click ( #13320 )
2019-10-20 11:43:56 -05:00
Adam J. Stewart
41126d457f
Add latest version of py-execnet ( #13317 )
2019-10-20 11:21:59 -05:00
Adam J. Stewart
1007a0f7e5
Add latest version of py-decorator ( #13318 )
2019-10-20 11:21:46 -05:00
Adam J. Stewart
47831a95e1
Add latest version of py-coverage ( #13319 )
2019-10-20 11:21:32 -05:00
Adam J. Stewart
b421c97110
Add latest version of py-sphinxcontrib-websupport ( #13292 )
2019-10-20 11:21:03 -05:00
Adam J. Stewart
21d14a19f6
Add latest version of py-sphinx ( #13293 )
2019-10-20 11:20:46 -05:00
Adam J. Stewart
2268dd9e8f
Add latest version of py-snowballstemmer ( #13294 )
2019-10-20 11:20:21 -05:00
Adam J. Stewart
a2e7f0e9d2
Add latest version of py-requests ( #13296 )
2019-10-20 11:19:51 -05:00
Adam J. Stewart
35362adb97
Add latest version of py-pyyaml ( #13297 )
2019-10-20 11:19:29 -05:00
Adam J. Stewart
b76f1687fb
Add latest version of py-pytest-xdist ( #13298 )
2019-10-20 11:19:11 -05:00
Adam J. Stewart
f832f12ca6
Add latest version of py-pytest-runner ( #13299 )
2019-10-20 11:18:55 -05:00
Adam J. Stewart
3a2eeedf20
Add latest version of py-pytest-mock ( #13300 )
2019-10-20 11:18:39 -05:00
Adam J. Stewart
4d7226e561
Add latest version of py-pytest-httpbin ( #13301 )
2019-10-20 11:18:04 -05:00
Adam J. Stewart
63dd97f84e
Add latest version of py-pytest-cov ( #13302 )
2019-10-20 11:17:47 -05:00
Adam J. Stewart
03b1af0d96
Add latest version of py-pysocks ( #13303 )
2019-10-20 11:17:27 -05:00
Adam J. Stewart
10065b325d
Add latest version of py-pycparser ( #13304 )
2019-10-20 11:17:11 -05:00
Adam J. Stewart
d4f409ea51
Add latest version of py-psutil ( #13305 )
2019-10-20 11:16:53 -05:00
Adam J. Stewart
04af812e03
Add latest version of py-pip ( #13306 )
2019-10-20 11:16:36 -05:00
Adam J. Stewart
c130a2980f
Add latest version of py-mock ( #13308 )
2019-10-20 11:16:07 -05:00
Adam J. Stewart
0d189e779a
Add latest version of py-markupsafe ( #13309 )
2019-10-20 11:15:51 -05:00
Adam J. Stewart
30fdff4ff9
Add latest version of py-lxml ( #13310 )
2019-10-20 11:15:32 -05:00
Adam J. Stewart
51432aa92e
Add latest version of py-jinja2 ( #13311 )
2019-10-20 11:15:16 -05:00
Adam J. Stewart
d61b5125c5
Add latest version of py-itsdangerous ( #13312 )
2019-10-20 11:15:01 -05:00
Adam J. Stewart
e05d165f92
Add latest version of py-idna ( #13313 )
2019-10-20 11:14:46 -05:00
Adam J. Stewart
ac0fee0f34
Add latest version of py-hypothesis ( #13314 )
2019-10-20 11:14:32 -05:00
Adam J. Stewart
5aea70e733
Add latest version of py-httpbin ( #13315 )
2019-10-20 11:14:17 -05:00
Adam J. Stewart
db8f83d333
Add latest version of py-flask ( #13316 )
2019-10-20 11:13:55 -05:00
Adam J. Stewart
de6d53b626
Add latest version of py-torchvision ( #13289 )
2019-10-20 11:12:43 -05:00
Adam J. Stewart
5995c3f85b
Add latest version of py-typing-extensions ( #13288 )
2019-10-20 11:12:27 -05:00
Adam J. Stewart
4e2cce2c9f
Add latest version of py-urllib3 ( #13286 )
2019-10-20 11:11:41 -05:00
Adam J. Stewart
d2202f6d98
Add latest version of py-virtualenv ( #13285 )
2019-10-20 11:11:23 -05:00
Adam J. Stewart
78942c7840
Add latest version of py-werkzeug ( #13284 )
2019-10-20 11:11:06 -05:00
Adam J. Stewart
0443581a20
Add py-mypy-extensions package ( #13283 )
2019-10-20 11:10:40 -05:00
Adam J. Stewart
92a359e4ba
Add py-mypy package ( #13282 )
2019-10-20 11:10:22 -05:00
Adam J. Stewart
9ac7e098d9
Add py-pytest-forked package ( #13281 )
2019-10-20 11:10:04 -05:00
Adam J. Stewart
1dc99765e9
Add py-raven package ( #13280 )
2019-10-20 11:09:44 -05:00
Adam J. Stewart
a6bc0c7ee0
Add py-flake8-import-order package ( #13273 )
2019-10-20 11:09:23 -05:00
Adam J. Stewart
00f766b248
Add py-sphinxcontrib-devhelp package ( #13278 )
2019-10-20 11:09:04 -05:00
Adam J. Stewart
c8285da8e7
Add py-sphinxcontrib-applehelp package ( #13279 )
2019-10-20 11:08:51 -05:00
Adam J. Stewart
d37c95b80b
Add py-sphinxcontrib-htmlhelp package ( #13277 )
2019-10-20 11:08:34 -05:00
Adam J. Stewart
7bda2fe292
Add py-sphinxcontrib-jsmath package ( #13276 )
2019-10-20 11:08:16 -05:00
Adam J. Stewart
d4ac57f3a3
Add py-sphinxcontrib-qthelp package ( #13275 )
2019-10-20 11:07:54 -05:00
Adam J. Stewart
f35bcaf83b
Add py-sphinxcontrib-serializinghtml package ( #13274 )
2019-10-20 11:07:31 -05:00
Adam J. Stewart
3e18e664fc
Add py-typed-ast package ( #13272 )
2019-10-20 11:07:01 -05:00
Adam J. Stewart
95b7f31112
Add py-docutils-stubs package ( #13271 )
2019-10-20 11:06:38 -05:00
Adam J. Stewart
4f56bcc790
Add py-brotlipy package ( #13270 )
2019-10-20 11:06:18 -05:00
Adam J. Stewart
0fb563f3d9
GCC: fix build on macOS Catalina ( #13202 )
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* GCC: speed up build
* Add back 3-stage bootstrapping
2019-10-19 12:18:31 -05:00
Adam J. Stewart
306346356c
brotli: fix darwin install name ( #13258 )
2019-10-19 12:18:06 -05:00
Axel Huebl
327a7368e9
ADIOS2: Dataspaces, libffi, libfabric ( #13230 )
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* DataSpaces: 1.8.0
Add a newer release of DataSpaces for ADIOS2.
Also add missing `-fPIC` flags since this is a static library.
* ADIOS2: Dataspaces, libffi, libfabric
Add missing dependencies to ADIOS2. Without explicit control,
those dependencies might get picked up from the system environment
and will cause unstable builds.
* Hide transitive SST dependencies
* ADIOS2: Simplify SST CMake Flags
As proposed by Chuck
2019-10-18 13:26:56 -07:00
wspear
f9e7bf295c
Updated to latest version. Removed dependency on node-js ( #13055 )
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* Updated to latest version. Removed dependency on node-js
* Refined dependencies
* Added dependencies, including version-specific ones. Re-added 0.9.4.
* Updated py-jupyterhub requirements. Enabled version 0.9.4 and 1.0.0
2019-10-18 12:53:47 -05:00
Christoph Junghans
b4383825be
fftw: altivec only works for float ( #13242 )
2019-10-18 10:36:40 -06:00
wspear
40a11c6bf6
Added package py-python-oauth2, a dependency of py-jupyterhub@0.9.4. … ( #13140 )
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* Added package py-python-oauth2, a dependency of py-jupyterhub@0.9.4. Depends on #13132 , #13133 and #13134
* Remove optional dependencies
2019-10-18 11:29:26 -05:00
