Commit graph

14023 commits

Author SHA1 Message Date
Cameron Smith
e077532baf pumi: new version 2.2.1 (#12282) 2019-08-06 22:09:46 -05:00
Tamara Dahlgren
951d42596b tests: explain and test dependency flattening routines (#11993)
- Add comments to explain that `install_dependency_symlinks` and `flatten_dependencies` are actually used.
- Add a test that exercises the routines.
2019-08-06 17:11:23 -07:00
Seth R. Johnson
09d4fcc6ad graphviz package: add MacOS fixes and quartz support (#11128)
* Add patch to detect newer versions of MacOS and to fix a typo in
  configure.ac (AM_LIBTOOLSFLAGS should be AM_LIBTOOLFLAGS)
* Remove variant declarations for unsupported languages
* Add support for quartz on MacOS
* Add optional X Window support
* Specifically build against qt@4 when building QT support
* Point to appropriate C++ standard libraries when building with
  Clang on MacOS
* Disable parallel build (for all platforms)
* Increase verbosity of configure script by adding
  --disable-silent-rules
2019-08-06 16:26:45 -07:00
Adam J. Stewart
66e9b1279a
Overhaul numpy package (#12170)
* Add numpy 1.17.0

* Overhaul numpy package

* Flake8 fixes

* Undefined reference fix

* HeaderList and LibraryList need an arg

* veclibfort has no headers

* Add patch for older versions of py-numpy

* Remove py-meep hack from py-numpy package

* libflame: always add max arg hack flag

* Fix build with GCC 4.8

* Compiler flags come from self.compiler

* Only apply -std=c99 to cflags

* Try to fix libflame package

* Fix ATLAS build on macOS

* --force-clang flag added in 3.10.3
2019-08-06 18:20:23 -05:00
Greg Becker
15884a679b
mirrors: mirror config should use spack variable expansions (#9027)
- ensure that `$spack` and other variables are substituted into mirror
  paths
2019-08-06 13:54:50 -07:00
Greg Becker
3b4d6ddc03 stacks: fix reference handling in env.write() (#12096)
* stacks: Fix env.write to properly write references
* stacks: regression test for 12095
2019-08-06 12:53:41 -07:00
t-karatsu
d488d04ed3 fltk: fix about variable types (#12292)
* fltk: fix about variable types
2019-08-06 11:07:27 -07:00
Massimiliano Culpo
ae975c48ac Avoid sending empty reports to codecov (#12293)
Before this commit we were sending reports also for unit tests that
were not collecting coverage data.
2019-08-06 10:35:23 -07:00
Daryl W. Grunau
cb7e9c155e Packages/musl (#12288)
* bump eospac version

* Revert "bump eospac version"

This reverts commit 835b1f822d8c083f6ab9eb17222c00409e8eb3da.

* fix-up musl-gcc wrapper script

* address adamjstewart's comments
2019-08-05 20:16:14 -05:00
Toyohisa Kameyama
567cef7ae3 c-blosc package: Add -std=gnu99 flag for gcc (#11959)
When building with GCC, c-blosc requires the -std=gnu99 flag.
Before this patch, the build would only add -std=gnu99 for GCC when
building on specific architectures; this adds -std=gnu99 in all cases
when using GCC.
2019-08-05 18:04:16 -07:00
Adam J. Stewart
2e14cdb8fd
Move new packages from tutorial to builtin (#12289)
* Move new packages from tutorial to builtin

* Remove unicode character from docstring
2019-08-05 19:55:39 -05:00
Satish Balay
0db3d6ca37 Balay/amrex 19.08 (#12287)
* amrex: add version 19.08

* amrex: update sundials dependency for @19.08
2019-08-05 17:34:01 -05:00
Axel Huebl
3457dffdca
openPMD-api: pre-load depend libs (#12279)
When loading `openpmd-api` as a lib to build outside of
spack or to build depending spack packages, the "CMake-PUBLIC"
header-only library MPark.Variant must be available. Also,
the `*Config.cmake` package must be able to find dependent
libs if used.
2019-08-05 14:02:23 -05:00
Satish Balay
5560d5b601
Add version 19.8.0 of PLASMA (#12275) 2019-08-04 20:37:46 -05:00
Satish Balay
480cd9344f
Add version 2.5.1 of MAGMA released today (#12274) 2019-08-04 20:36:48 -05:00
Satish Balay
47aa08081a
ginkgo: add maintainers (#12273) 2019-08-04 20:36:04 -05:00
Sinan
3ad61441f1 new package: py-backports-tempfile (#12261)
* new package: py-backports-tempfile

* Update var/spack/repos/builtin/packages/py-backports-tempfile/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* remove rc version

* fix single quote
2019-08-04 16:10:24 -05:00
Todd Gamblin
54e3bc31f9
add maintainer review action to main.workflow 2019-08-04 10:14:44 -07:00
Todd Gamblin
3179d98e12
actions: add maintainers as PR reviewers for their packages (#12269)
Use `spack pkg changed` and `spack maintainers` to figure out which
packages changed and who their maintainers are in a PR.

Add any maintainers to the PR as reviewers.
2019-08-03 21:48:19 -07:00
Pariksheet Nanda
f68cdd1ad0 Fix typo in config (#12267)
Using "compilers" with the "s" is an invalid config section and throws an error.

Traceback (most recent call last):
  File "spack/bin/spack", line 48, in <module>
    sys.exit(spack.main.main())
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/main.py", line 633, in main
    env = ev.find_environment(args)
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/environment.py", line 263, in find_environment
    return Environment(env)
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/environment.py", line 534, in __init__
    self._read_manifest(f)
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/environment.py", line 561, in _read_manifest
    self.yaml = _read_yaml(f)
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/environment.py", line 402, in _read_yaml
    validate(data, filename)
  File "/home/omsai/src/libkmap/spack/lib/spack/spack/environment.py", line 395, in validate
    e, data, filename, e.instance.lc.line + 1)
spack.config.ConfigFormatError: /home/omsai/src/libkmap/spack.yaml:15: Additional properties are not allowed ('compilers' was unexpected)
2019-08-03 20:18:44 -05:00
Sinan
7ee56c2f36 package/py-apipkg add new version, add sha256 sums (#12260)
* add new version, add sha256 sums

* Update var/spack/repos/builtin/packages/py-apipkg/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* add python dependencies
2019-08-03 18:38:34 -05:00
Sinan
0b606f7c46 new package: py-backports-weakref (#12262)
* new package: py-backports-weakref

* use the version at pypi.org
2019-08-03 18:37:10 -05:00
Sinan
fcfdfb86c7 new package: py-usgs (#12263)
* new package: py-usgs

* Update var/spack/repos/builtin/packages/py-usgs/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>

* Update var/spack/repos/builtin/packages/py-usgs/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-08-03 18:36:55 -05:00
Sinan
cc54d910a6 new package: py-requests-futures (#12264)
* new package: py-requests-futures

* Update var/spack/repos/builtin/packages/py-requests-futures/package.py

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-08-03 18:36:42 -05:00
Sinan
9432b1f789 new package: py-colorlog (#12265)
* new package: py-colorlog

* improve styling.

* remove spaces
2019-08-03 18:36:29 -05:00
Sinan
5bb73d4ad3 new package: py-colorpy (#12266)
* new package: py-colorpy

* remove incorrect dependency
2019-08-03 18:36:17 -05:00
Adam J. Stewart
98605bba0d Fix CNL version detection (#12207) 2019-08-03 12:00:30 -07:00
Adam J. Stewart
36558dc262
Add py-uritemplate package (#12259) 2019-08-03 10:44:13 -05:00
Adam J. Stewart
5e2af206d3
Add py-earthengine-api package (#12253) 2019-08-02 23:37:59 -05:00
Adam J. Stewart
c36c7f2bab
Add py-google-api-python-client package (#12254) 2019-08-02 23:35:21 -05:00
Adam J. Stewart
ccfaeecfeb
Add py-google-auth-httplib2 package (#12255) 2019-08-02 23:35:00 -05:00
Adam J. Stewart
ccc4af4bec
Add py-google-auth package (#12256) 2019-08-02 23:34:32 -05:00
Adam J. Stewart
8b270290c4
Add py-httplib2 package (#12257) 2019-08-02 23:34:04 -05:00
Adam J. Stewart
958d385e09
Add py-pyasn1-modules package (#12258) 2019-08-02 23:33:37 -05:00
Adam J. Stewart
0de42519cf
Add py-cachetools package (#12252) 2019-08-02 20:47:46 -05:00
Adam J. Stewart
eb528f89a7
Add py-pyasn1 0.4.6 (#12251) 2019-08-02 20:09:15 -05:00
Reinhard Prix
7845d91fda swig: add latest version, 4.0.0 (#12243) 2019-08-02 20:08:26 -05:00
Satish Balay
8010965a3d slepc: update python dependencies to be in sync with petsc (#12250) 2019-08-02 20:07:29 -05:00
Daryl W. Grunau
b4f8294408 packages/musl (#12247)
* new musl package
2019-08-02 20:06:59 -05:00
Massimiliano Culpo
90756d0428 Refactor UI logic out of Environment.concretize (#12213)
Environment.concretize returns newly-concretized specs rather than
printing them; as a result, the _display argument is removed from
Environment.concretize (originally only used to avoid printing specs
during unit testing). Command logic which invokes
Environment.concretize prints these explicitly.
2019-08-02 17:27:51 -07:00
Marc-Andre Hermanns
0290170935 Set default resource manager to 'none' (#12092) 2019-08-02 19:23:14 -05:00
Toyohisa Kameyama
50b90ed2bf minimap2, py-mappy: change dependency and build on ARM (#12127)
* minimap2: remove py-mappy dependency and build on ARM
py-mappy: Change URL and new version.

* merge py-mappy to minimap2.

* 1. add type in depends_on.
2. remove unneeded which.
2019-08-02 19:21:33 -05:00
Chris Green
0c1496896d Resolves #11487. (#12136)
* Incorporate as a patch upstream commit 0c20dbf059 (diff-acb9169b4ccbac494ced5140d285a015) resolving problems with `-Wno-...` options not being understood by GCC.
* Incorporate as a patch upstream PR https://github.com/ericniebler/range-v3/pull/1202 fixing upstream issue https://github.com/ericniebler/range-v3/issues/1196.
* Compile tests only if we actually want to run them.
* Optionally compile documentation with a `+doc` variant.
* Add `+examples` and `+perf` variants to avoid unnecessary compilation of components usually not required for install.
* Add conditional build-only dependency on Boost when appropriate.
* Install docs, examples and performance tests if built (not part of upstream build instructions).
* Add @chissg as a maintainer.
2019-08-02 19:19:39 -05:00
Toyohisa Kameyama
b6789b2ba3 py-flye: change to build ARM. (#12176) 2019-08-02 19:15:49 -05:00
Todd Kordenbrock
a54687ead9 FAODEL: Add 1.1906.1 (#12180) 2019-08-02 19:14:21 -05:00
Toyohisa Kameyama
dbeee34829 vdt: add simd variant (#12188)
1. add simd variant and check target.
2. build on source directory before 0.3.8.
2019-08-02 19:10:39 -05:00
TiffanyAnn
ff15f61443 py-mpi4py: Added build argument for mpicc path (#12191)
* added build arguments to resolve error with Cray-MPICH

* fixed indentation
2019-08-02 19:09:37 -05:00
Hironori-Yamaji
53bd964a59 ermod: new package (#12192) 2019-08-02 19:08:35 -05:00
Toyohisa Kameyama
53b1a92f69 parsimonator: Enable build on non x86_64 hosts. (#12194) 2019-08-02 19:07:43 -05:00
Glenn Johnson
6278ba43e9 Update c-blosc and fix building tests with icc (#12204)
- Update c-blosc to 1.17.0
- Add patch to build test_forksafe for versions 1.15.0 through 1.17.0
  when compiled with the Intel compiler.
- Remove code that turned off building the test with the Intel compiler
2019-08-02 19:05:43 -05:00