Commit graph

14718 commits

Author SHA1 Message Date
Axel Huebl
c40915db05
openPMD-api: 0.11.0 (#15371)
Add the latest release of openPMD-api.
2020-03-06 11:20:31 +01:00
Chris Green
da5144793e
Allow overrides for spack.config set() and override(). (#14432)
Allows spack.config InternalConfigScope and Configuration.set() to
handle keys with trailing ':' to indicate replacement vs merge
behavior with respect to lower priority scopes.

Lists may now be replaced rather than merged (this behavior was
previously only available for dictionaries).

This commit adds tests for the new behavior.
2020-03-05 19:25:01 -08:00
Tamara Dahlgren
b2e7e7edaa
Recover coverage from subprocesses during unit tests (#15354)
* Recover coverage from subprocesses during unit tests
2020-03-05 16:54:29 -08:00
Adam J. Stewart
dd8afca9d8
Add Checksum for 1.4.1.4 Release (#15363)
* Add Checksum for 1.4.1.4 Release

Add checksum for 1.4.1.4 release.  Mark myself as maintainer.  List develop version.

* Update var/spack/repos/builtin/packages/libhio/package.py

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

* Update package.py

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-03-05 17:28:42 -06:00
Adam J. Stewart
aa0ab13a73
Python: add 3.8.2 (#15365) 2020-03-05 17:02:13 -06:00
Adam J. Stewart
656d1ac5ab
Update legion versions (#15364) 2020-03-05 16:28:35 -06:00
eugeneswalker
8cce884078
unifyfs: add patch to fix #15292 (#15315)
It was reported that UnifyFS had a bug with the --enable-mpi-mount
config option, which corresponds to the auto-mount variant. This bug
was fixed in the UnifyFS dev branch, however remains broken for the
0.9.0 version.

This adds a patch to the unifyfs package to fix the auto-mount
variant when installing with version 0.9.0.

This also removes the openssl dependency as unifyfs does not directly
depend on it. This was said to be a non-explicit dependency in #15258.
However, if it is needed, it is likely a non-explicit dependency of
one of unifyfs's dependencies and should be added there.

Fixes: #15292
2020-03-05 13:54:25 -08:00
Adam J. Stewart
da853a5daa
lammps: add most recent stable release (#15335)
* lammps: add most recent stable release

* Update var/spack/repos/builtin/packages/lammps/package.py

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

Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-03-05 15:19:18 -06:00
Patrick Gartung
820d147e08
Allow buildcaches keys to find public keys on the e4s mirror (#15361) 2020-03-05 15:15:40 -06:00
Adam J. Stewart
28a75a4c35
lastz: declare ch as type int (#15350) 2020-03-05 15:06:20 -06:00
Adam J. Stewart
fde1b2088a
update maintainers for bmi, darshan, and margo (#15356)
Signed-off-by: Phil Carns <carns@mcs.anl.gov>
2020-03-05 15:00:52 -06:00
Axel Huebl
24e6155bac
New package: fd-find (#15344)
* New package: fd-find

Add package for fd-find:

    A simple, fast and user-friendly alternative to 'find'.

* Update copyright date
2020-03-05 10:14:40 -08:00
Axel Huebl
3a8800b6b4
New package: ripgrep (#15343)
Add package for ripgrep:

    ripgrep is a line-oriented search tool that recursively searches
    your current directory for a regex pattern.  ripgrep is similar to
    other popular search tools like The Silver Searcher, ack and grep.
2020-03-05 10:14:18 -08:00
Adam J. Stewart
9940392c2b
New package: opensubdiv (#15310)
* [opensubdiv] created stub for opensubdiv

* [opensubdiv] added homepage and description

* [opensubdiv] removed boilerplate

* [opensubdiv] working on dependencies and variants

* [opensubdiv] fixed syntax error

* [opensubdiv] defined spec

* [opensubdiv] added dev version

* [opensubdiv] building on CudaPackage

* [opensubdiv] always build with open gl and depends_on('gl')

* [opensubdiv] applying cuda flags

* [opensubdiv] worked on doc variant

* [opensubdiv] added some x11 libraries

* [opensubdiv] depends on glfw

* [opensubdiv] locating glew

* [opensubdiv] added openmp variant

* [opensubdiv] flake8 fixing

* [opensubdiv] fixed develop version name

* [opensubdiv] fixed description to not need @
2020-03-05 10:52:20 -06:00
Massimiliano Culpo
752092f46a
Correct pytest.raises matches to match (#15346) 2020-03-05 11:16:02 +01:00
Massimiliano Culpo
d9626cca50
Bugfix: resolve StopIteration message attribute failure (#15341)
Testing the install StopIteration exception resulted in an attribute error:

AttributeError: 'StopIteration' object has no attribute 'message'

This PR adds a unit test and resolves that error.
2020-03-05 10:26:50 +01:00
Adam J. Stewart
9edf812745
py-matplotlib: add 3.2.0 (#15349) 2020-03-04 21:56:00 -06:00
Peter Scheibel
c5dc4a722e
xgboost: add version 0.90 (#15321) 2020-03-04 18:19:03 -08:00
Axel Huebl
1757ec9eae
New version of simplejson (#15325) 2020-03-04 20:34:06 -05:00
Adam J. Stewart
b813887585
ADIOS2: Cleanup, Development Branch Name (#15334)
* ADIOS2: Version `master`

Rename branch version to supported, real development branch `master`.
The old name is legacy Spack when alternative development branch
names were not yet supported.

* ADIOS: Simplify via spec Variable

use the already defined local variable `spec` to shorten
lines
2020-03-04 19:24:16 -06:00
Adam J. Stewart
136a4897b7
ADIOS2: Testing Depends on Python (#15336)
Add the python dependency and CMake hints when build with tests.
`spack install --tests=root adios2`
2020-03-04 19:23:12 -06:00
Patrick Gartung
e2b3d52999
Add function replace_prefix_nullterm for use on mach-o rpaths. (#15347)
This recovers the old behavior of replace_prefix_bin that was
modified to work with elf binaries by prefixing os.sep to new prefix
until length is the same as old prefix.
2020-03-04 19:21:15 -06:00
Adam J. Stewart
d7f84c738e
Fixed the sha has for 1.3.3. (#15331) 2020-03-04 19:19:16 -06:00
Adam J. Stewart
1973d1c53e
libfabric: default 1.8.1 (#15337)
Since 1.9.0 is broken for Darwin, which impacts many developers, and
the fix is still a RC, let's keep the previous release as default.

This avoids distruption for OSX developers and CI.
2020-03-04 19:11:54 -06:00
Peter Scheibel
cf7dbbf65c
Remove DB conversion of old index.yaml (#15298)
Removed the code that was converting the old index.yaml format into
index.json. Since the change happened in #2189 it should be
considered safe to drop this (untested) code.
2020-03-04 16:39:10 -08:00
Patrick Gartung
3ea0e91533
use os.sep instead of null byte to pad replacement paths in binaries (#15338)
* use os.sep instead of null byte to pad replacement paths in binaries

* Prefix the pading os.sep's
2020-03-04 17:15:09 -06:00
Adam J. Stewart
8eda1db50f
precice: Add version 2.0.1 (#15318) 2020-03-04 13:19:41 -06:00
Adam J. Stewart
60439a5040
pgi-19.10 update version (#15330) 2020-03-04 13:18:46 -06:00
Adam J. Stewart
3be3b2d0e3
gcc: Add 8.4.0 (#15323) 2020-03-04 13:18:02 -06:00
Adam J. Stewart
1ade506f54
Add extra version of py-contextlib2 (#15322) 2020-03-04 13:17:09 -06:00
Adam J. Stewart
5cfd862f47
suite-sparse: fix installation for v5.X (#15326)
fixes #15184

GraphBLAS depends on m4 according to CMake error message
Do not use INSTALL= when compiling the library
2020-03-04 13:16:42 -06:00
Christoph Junghans
32a0f3274f
ecp-proxy-apps: version bump (#14680) 2020-03-04 10:45:23 -07:00
Sergey Kosukhin
b472c13803
Fix FCFLAGS handling for Autotools packages (#14788)
Spack's fflags are meant for both f77 and fc. Therefore, they must
be passed as FFLAGS and FCFLAGS to the configure scripts of
Autotools-based packages.
2020-03-03 13:13:38 -08:00
sknigh
370e7c211d
intel-xed does not support python>3.7 (#15308) 2020-03-03 13:38:55 -06:00
sknigh
cec341594d
Added UQTk package (#14801)
* added UQTk package

* Add missing expat dependency to uqtk
2020-03-03 12:50:20 -06:00
Mark W. Krentel
fddb3f291c
elfutils: increase connect timeout (#15262)
Increase the connect timeout for elfutils to 60 sec.  Elfutils (and
bzip2) tar files are on sourceware.org which is often slow to respond.
2020-03-03 11:27:57 -06:00
Brian Van Essen
f83d98a62d
Protobuf's cmake environment does not properly handle being exported (#15293)
and found when using the RelWithDebInfo build type.  Change protobuf
to only support Release and Debug build types.
2020-03-03 11:27:01 -06:00
Mathias Anselmann
d6b0cf75ed
cherry-picking global ordinal type variant from https://github.com/spack/spack/pull/14215 and setting dealii to GO int, to make it compile again (#15288)
Co-authored-by: Andrey Prokopenko <andrey.prok@gmail.com>
2020-03-03 11:26:20 -06:00
Dr. Christian Tacke
c4237e4a10
fairlogger: add version, other improvements (#15300)
* @develop needs the full git repo to use "git describe"
  properly

* If not specifying the cxxstd variant, let cmake use its
  default

* Improve fmt dependencies: fairlogger < 1.6.2 does not
  work with fmt >= 6.

* Small other stuff
2020-03-03 11:24:37 -06:00
Patrick Schratz
71855707ef
Update package.py (#15299) 2020-03-03 11:02:02 -06:00
Jennifer Herting
a237781c48
Created package glfw (#15296)
* Created stub

* added description and homepage

* added dependencies

* removed extra boilerplae

* switched to the pkgconfig provider
2020-03-03 11:01:29 -06:00
Sergey Kosukhin
2d1592cca7
OpenMPI: patch for NAG. (#15301) 2020-03-03 11:00:27 -06:00
Mathias Anselmann
518d1439c7
Suite sparse compilation fix for 5.7.0 and 5.7.1 (#15289)
Suite-sparse 5.7.0 and 5.7.1 need separate make and make install run to be able to compile, too
2020-03-03 12:06:58 +01:00
George Hartzell
dc4e43682c
Tmux should look for tinfo in -ltinfo (#15282)
Just `depend_on('ncurses')`, pkgconfig seems to cause the right thing
to happen if the package is built +termlib or ~termlib (tested both
ways on a CentOS 7 system).

Additional details in: https://github.com/spack/spack/issues/15281

Tested by building all of the releases of tmux on a CentOS 7 box.
2020-03-03 09:12:06 +01:00
Dr. Christian Tacke
b43812c7c4
boost: Add "container" library (#14878)
"container" is partly a misnomer, as it's realy
the extended allocators part of container.

But every part calls it container, so we do too.
2020-03-02 19:48:07 -06:00
Erik Schnetter
059203b2fd
amrex: New version 20.03 (#15294) 2020-03-02 16:09:50 -06:00
Tamara Dahlgren
73f7301ec4
bugfix: ensure proper dependency handling for package-only installs (#15197)
The distributed build PR (#13100) -- did not check the install status of dependencies when using the `--only package` option so would refuse to install a package with the claim that it had uninstalled dependencies whether that was the case or not.

- [x] add install status checks for the `--only package` case.
- [x] add initial set of tests
2020-03-02 11:16:20 -08:00
Kai Torben Ohlhus
1db1ae6887
openblas: Add version 0.3.9. (#15287)
[OpenBLAS 0.3.9](https://github.com/xianyi/OpenBLAS/releases/tag/v0.3.9) was released.
2020-03-02 11:58:54 -06:00
Cody Melton
7df761564a
Qmcpack: new variant +afqmc (#14882)
* add preliminary afqmc support in qmcpack

* afqmc updates

* fix spack typos

* edit AFQMC to only allow up 3.7 or above

* added NCCL library support for AFQMC build

* add CMAKE args for BUILD_AFQMC_WITH_NCCL

* update for just AFQMC support. No AFQMC+GPU support

* remove nccl for afqmc

* flake8 whitespace fix
2020-03-02 11:58:33 -06:00
Gregory Lee
8a4f02fb2d
stat: new version 4.0.2 (#15290) 2020-03-02 09:51:28 -08:00