Commit Graph

20496 Commits

Author SHA1 Message Date
Matthias Diener
1bc104e00e colordiff: add version 1.0.19 (#16431) 2020-05-02 13:26:56 -05:00
Jonathon Anderson
08f88b4be6 Add a gpfs variant to openmpi package (#15793)
Open MPI will detect and link against GPFS if it is present
on the system. This variant allows this to be disabled, even
if GPFS is present.
2020-05-02 11:07:50 -05:00
Sajid Ali
adafdf0644 add hydra/pmix conflict (#16428) 2020-05-01 20:51:54 -05:00
Matthias Diener
668dcb78a1 py-opentuner: add version 0.8.2 (#16423) 2020-05-01 20:50:54 -05:00
Jen Herting
acabe2deba [ncbi-magicblast] added version 1.5.0 (#16424) 2020-05-01 20:50:26 -05:00
Justin S
cf59220edc stata: add version 16 (#16425) 2020-05-01 20:50:13 -05:00
mic84
c7552c0c72 amrex: New version 20.05 (#16427) 2020-05-01 20:47:18 -05:00
Kelly (KT) Thompson
b5b7ef2ce6 Provide update for py-pyside2 version 5.14.2.1. (#16426) 2020-05-01 17:32:31 -05:00
Justin S
f38820f89c tbl2asn: new package at 20200301 (#16280)
* tbl2asn: new package at 20200301

* tbl2asn: remove unused url

* tbl2asn: use spack decompression, fix permissions

* tbl2asn: change version
2020-05-01 16:40:09 -05:00
Peter Scheibel
40df44e021 Revert "Testing: fix unintended interactions between tests (#16003)" (#16420)
This was breaking tests on develop.
2020-05-01 13:39:43 -07:00
Peter Scheibel
31d12d380f Testing: fix unintended interactions between tests (#16003)
* For tests that use the real Spack package repository, the config
  needs to avoid using MPI providers that are not intended to be
  installed by Spack. Without this, it is possible that Spack tests
  which concretize the MPI virtual will end up trying to use an
  implementation that it shouldn't (e.g. one that is always
  provided externally). See #15666 for an example.
* The mutable_config test fixture was not initializing the scope
  roots to the right directories (so the resulting config was empty).
* The current_host fixture in the concretize.py tests was using the
  config fixture rather than mutable_config, and was polluting the
  config cache for other tests.
* One test in concretize.py was clearing a nonexistent cache
  (PackagePrefs._packages_config_cache). This reference has been
  removed.
* The test 'test_preferred_compilers' was was depending on cross
  test config pollution to succeed. The initial spec before
  concretization has been updated to updated to be explicit about
  the desired result.
2020-05-01 10:47:46 -07:00
Axel Huebl
d0dfa1ea4d dev-build: --drop-in <shell> (#14887)
* dev-build: --drop-in <shell>

Add a `--drop-in <shell>` option to `spack dev-build`.
This option will automatically run a
`spack build-env <spec> -- <shell>` at the end of a `dev-build`, e.g.
to quickly drop-and-devel into a build phase of a package.

Example usage:
```
spack dev-build --before cmake --drop-in bash openpmd-api@develop
```

* build_env: drop in unit test

Co-authored-by: Greg Becker <becker33@llnl.gov>
2020-05-01 09:37:21 -07:00
Toyohisa Kameyama
40f70c4d4f mt-metis: New package. (#16380)
* mt-metis: New package.

* variant to 1 line.

* delete useless lines.
2020-05-01 10:51:27 -05:00
Matt Larsen
69a0fbd2cb raja: add awareness of the cuda architecture (#16377) 2020-05-01 10:07:12 +02:00
Jean-Laurent Picard
4f6c4743e3 arborx: fix build with new kokkos-legacy (#16413) 2020-05-01 09:30:27 +02:00
Christoph Junghans
7a56e6fce1 gromacs: add v2020.2 (#16408) 2020-04-30 19:01:07 -06:00
Satish Balay
4c69bc9d16 amrex: repo went through history rewrite - so use updates sha256sums (#16379) 2020-04-30 15:13:45 -05:00
Adam J. Stewart
022c287e47 Fix typos in new AutotoolsPackage function (#16406) 2020-04-30 15:13:04 -05:00
Michael Kuhn
a24a12f229 sqlite: Add 3.31.1 (#16404) 2020-04-30 15:12:51 -05:00
Michael Kuhn
efbd8c1555 readline: Fix homepage (#16403) 2020-04-30 15:12:38 -05:00
Michael Kuhn
9920684600 gettext: Add 0.20.2 (#16402) 2020-04-30 15:12:26 -05:00
Michael Kuhn
f04b0d99a8 glib: Add 2.64.2 (#16401) 2020-04-30 15:12:13 -05:00
Michael Kuhn
d2fc61a019 libffi: Add 3.3 (#16400) 2020-04-30 15:12:00 -05:00
Michael Kuhn
c2704a6037 perl: Add 5.30.2 (#16396) 2020-04-30 15:11:46 -05:00
Michael Kuhn
7adcb23978 libxml2: Add 2.9.10 (#16399) 2020-04-30 14:29:50 -05:00
Michael Kuhn
15c1fbc677 meson: Add 0.54.1 (#16398) 2020-04-30 14:29:36 -05:00
Michael Kuhn
6855e8e10f pcre: Add 8.44 (#16397) 2020-04-30 14:29:24 -05:00
Ben Bergen
6d7daf0def Resolves: https://github.com/spack/spack/issues/16394 (#16395)
Build problem with gcc 10.x
2020-04-30 11:16:00 -06:00
Adam J. Stewart
b55b7d5707 Fix kokkos-kernels tuple unpacking (#16393) 2020-04-30 11:36:50 -05:00
Christoph Junghans
cfb307b8e7 lammps: fix build with kokkos (#16390) 2020-04-30 10:29:08 -06:00
Adam J. Stewart
6c24142ebd Fix coreutils configure_args (#16391) 2020-04-30 11:13:23 -05:00
Christoph Junghans
74c9ba551a cabana: add v0.2 and fix kokkos deps (#16389) 2020-04-30 09:49:02 -06:00
darmac
b0ecaa1093 Add new package: bashtop (#16383) 2020-04-30 10:45:48 -05:00
Satish Balay
b2df39ea3a petsc: switch hdf5 spec from --with-hdf5-dir to --with-hdf5-lib (#16376)
This way - we can detect and use hdf5:hl,fortran - if enabled, but not require it as a dependency
2020-04-30 10:40:25 -05:00
Satish Balay
3a3f871718 xsdk: update to mfem and py-petsc4py changes (#16378)
mfem variant hypre is now rolled into variant mpi - so update spec accordingly

mfem@4.0.1-xsdk+superlu-dist is broken and unsupported - so disable it

with the addition of py-petsc4py@3.13.0 - conretizer gets confused and is not picking py-petsc4py@3.12.0 as a compatible dependency with petsc@3.12. So manually specify it.
Also depends_on('py-libensemble@0.5.2+petsc4py ^py-petsc4py@3.12.0' causes concretizer to hang forever
2020-04-30 10:33:02 -05:00
Christoph Junghans
d5d4e16f3d graphviz: fix cairo dep (#16387) 2020-04-30 10:29:20 -05:00
Christoph Junghans
f005ec016b kokkos: fix typos (#16388) 2020-04-30 09:09:13 -06:00
Jeremy
598c233f78 Update kokkos for new 3.x build systems (#16358)
* change old Makefile-based Kokkos to kokkos-legacy

* add Kokkos 3.x packages

Co-authored-by: Jeremiah J Wilke <jjwilke@kokkos-dev-2.sandia.gov>
2020-04-30 08:13:47 -06:00
Teodor Nikolov
9627cbbe1b lapackpp and blaspp: added packages (develop branch) (#16373) 2020-04-30 16:05:45 +02:00
Toyohisa Kameyama
54b71b2b69 JHPCN-DF: added package at v1.1.0 (#16384) 2020-04-30 15:03:35 +02:00
Benoit Coste
6c751f931c py-pyquaternion: added package at v0.9.5 (#16386) 2020-04-30 14:50:28 +02:00
Chris Green
9698907e74 Spack command extensions: error-handling (#13635)
Generally speaking, errors that are encountered when attempting to load
command extensions now terminate the running Spack instance.

* Added new exceptions `spack.cmd.PythonNameError` and
  `spack.cmd.CommandNameError`.
* New functions `spack.cmd.require_python_name(pname)` and
  `spack.cmd.require_cmd_name(cname)` check that `pname` and `cname`
  respectively meet requirements, throwing the appropriate error if not.
* `spack.cmd.get_module()` uses `require_cmd_name()` and passes through
  exceptions from module load attempts.
* `spack.cmd.get_command()` uses `require_cmd_name()` and invokes
  `get_module()` with the correct command-name form rather than the
  previous (incorrect) Python name.
* Added New exceptions `spack.extensions.CommandNotFoundError` and
  `spack.extensions.ExtensionNamingError`.
* `_extension_regexp` has a new leading underscore to indicate expected
  privacy.
* `spack.extensions.extension_name()` raises an `ExtensionNamingError`
  rather than using `tty.warn()`.
* `spack.extensions.load_command_extension()` checks command source
  existence early and bails out if missing. Also, exceptions raised by
  `load_module_from_file()` are passed through.
* `spack.extensions.get_module()` raises `CommandNotFoundError` as
  appropriate.
* Spack `main()` allows `parser.add_command()` exceptions to cause
  program end.

Tests:

* More common boilerplate has been pulled out into fixtures including
  `sys.modules` dictionary cleanup and resource-managed creation of a
  simple command extension with specified contents in the source file
  for a single named command.
* "Hello, World!" test now uses a command named `hello-world` instead of
  `hello` in order to verify correct handling of commands with hyphens.
* New tests for:
  * Missing (or misnamed) command.
  * Badly-named extension.
  * Verification that errors encountered during import of a command are
    propagated upward.

Co-authored-by: Massimiliano Culpo <massimiliano.culpo@gmail.com>
2020-04-29 18:18:48 -07:00
Carson Woods
d12e588c60 charliecloud: add more checksummed versions (#16146)
* Add more checksummed versions

* Remove all versions not supported by autotools build method

* Add old build system for older versions

* Add suggested changes
2020-04-29 17:22:22 -05:00
Adam J. Stewart
eef75ddd45 py-mypy: setuptools needed at run-time (#16375) 2020-04-29 13:50:34 -05:00
Dr. Christian Tacke
0385e84775 boost: Patch for boostorg/process/issues/116 (#16371)
Patch for "Unable to compile code using boost/process.hpp"
See: https://github.com/boostorg/process/issues/116
2020-04-29 12:53:58 -05:00
Nathan
b6b44948b8 prefix gets removed when adding additional configure options (#16335)
* prefix gets removed when adding additional configure options

* Update waf documentation to reflect the new change
2020-04-29 10:52:23 -05:00
darmac
42d7fd30c4 Add new package: brpc (#16309)
* Add new package: brpc

* change a patch for brpc

* refine brpc version

* refine brpc patch constraint
2020-04-29 09:58:35 -05:00
darmac
5697894b22 Add new package: graylog2-server (#16370) 2020-04-29 09:58:09 -05:00
darmac
890059c635 Add new package: libconfuse (#16368) 2020-04-29 09:57:38 -05:00
darmac
35b9901fa0 Add new package: fping (#16367) 2020-04-29 09:57:16 -05:00