Commit graph

15501 commits

Author SHA1 Message Date
Nichols A. Romero
d7db42e201 QMCPACK Update Nov2019 (#13832)
* Bump up QE version number to 6.4.1.

* Fix QMCPACK conflicts.

* HDF5 dependencies where over specified which could cause unnecessary installs of HDF5.

* Update QMCPACK testing option.

* Remove support for serial QE 6.4.1 converter. Add support for parallel QE 6.4.1. converter with serial HDF5.

* Switch to setup_run_environment.

* Fix setup_run_environment call arguements.

* Fix typo.

* switch run_env to env
2019-11-27 16:37:51 -06:00
Ken Raffenetti
85ce22a0b8 mpich: Add ucx dependency (#13921) 2019-11-27 16:34:46 -06:00
Federico Ficarelli
484dab6bac cuda: add polymorphic package versions (#13912) 2019-11-27 15:45:07 -06:00
Marc Mengel
206e7bd5aa scm-git-archive python package (#13915)
* scm-git-archive python package

* flake8

* per comments
2019-11-27 15:43:19 -06:00
Marc Mengel
7125d7eebe New package: py-cheroot (#13583)
* package py-cheroot

* package py-cheroot

* autopep8, docutils cleanup

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

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

* missing deps

* flake8

* license bits

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

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

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

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

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

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

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

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

* python dep

* flake8
2019-11-27 14:02:43 -06:00
Howard Pritchard
399336ae89 openmpi: add 3.1.5 and 3.0.5 (#13918)
Note to spack people: these are expected to be end of line releases for both the 3.1.5 an 3.0.5 releases

Signed-off-by: Howard Pritchard <howardp@lanl.gov>
2019-11-27 14:02:05 -06:00
Adam J. Stewart
3cc8c93883
json-fortran: get unit tests working (#13919) 2019-11-27 13:15:55 -06:00
iarspider
9e397042a7 Fix py-pyarrow recipe (#13914)
Fix name of one dependency
2019-11-27 12:21:01 -06:00
t-karatsu
515f1466c8 accfft: fix narrowing error. (#13909) 2019-11-27 10:15:22 -06:00
健美猞猁
f07131a390 Bump intel compiler suite to 2019u5. (#13835)
* Bump intel compiler suite to 2019u5.

* Remove a duplicate line.
2019-11-27 10:04:48 -06:00
Oliver Breitwieser
d207dceb3a Fix py-line-profiler incompatible decorators (#13911)
`@run_after` and `@when` are incompatible, issue #12736.
2019-11-27 15:30:53 +01:00
Hadrien G
51ee8aa639 ACTS: added version v0.11.1 (#13910) 2019-11-27 15:18:49 +01:00
Tim Haines
c80792fc06 Add version check when building intel-tbb with clang (#13893)
* Add version check when building with clang

* Update for flake8 formatting
2019-11-26 23:15:17 -06:00
Christoph Junghans
07325f5fd0 votca: help concretizer (#13906)
* votca: help concretizer

* flake8
2019-11-26 21:47:42 -06:00
darmac
cfe9550bfe add new package : sysstat (#13907) 2019-11-26 21:01:04 -06:00
Greg Becker
1450c30656 use semicolons instead of newlines in module/python command (#13904) 2019-11-26 17:09:24 -08:00
Adam J. Stewart
ad1ad83664
IntelPackage: setup_env -> setup_build_env (#13888) 2019-11-26 16:48:32 -06:00
Massimiliano Culpo
f6781d65f0 buildcache list: do not display duplicate specs (#13758)
fixes #13757
2019-11-26 13:24:15 -07:00
Eric Martin
11e3e332bd metabat: add versions 2.14 and 2.13 (#13369)
* metabat: add versions 2.14 and 2.13

* update build environment

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

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

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-26 14:14:11 -06:00
Axel Huebl
6bc2012ff1
MPark.Variant: Patch NVCC C++14 Build (#13901)
Fix an issue with NVCC when building with C++14.
2019-11-26 13:07:02 -07:00
Andreas Baumbach
3cfab76d25 update py-nbconvert (#13422)
* update py-nbconvert

* add setuptools dependency, like all the other jupyter packages
  it seems to be using setuptools for some commands all the time
  but requires it for the newest version
* added dependencies, not necessarily only needed for the latest one
* depends on new packages (defusedxml, pandocfilters, testpath)
* should also be moved to pypi sources?
* '@5:@5:' is a valid spec -> intended?

* make dependencies optional

* Update dependencies and add description

* relax py-mistune dependency restriction

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-11-26 12:25:48 -06:00
Andreas Baumbach
7764fd0833 new package: py-arrow (#13575)
* new package: py-arrow

* actually use dependencies from 0.14.7 not from current HEAD

* drop dependencies that dont appear in the source

* readd sphinx as doc dependency

* update dependencies

* drop doc-only dependencies
2019-11-26 12:24:02 -06:00
Roman Briskine
eb0561735d Update Mathematica recipe (#13679)
* Add licensing; replace url with url_for_version; create .spack dir during installation; symlink wolframscript; generate spec.yaml if missing

* Reverted url change, .spack directory creation, and spec.yaml generation

* Fix formatting issues
2019-11-26 12:22:31 -06:00
noguchi-k
18cf751d13 ocaml: fix url (#13749) 2019-11-26 12:21:29 -06:00
sknigh
260a4c4904 Days since OpenMPI+UCX trashed my cluster: 0 (#13818) 2019-11-26 12:20:17 -06:00
Matt Larsen
8b85a6ca14 silence vtkm logging until it does not report false positives to std::cerr (#13845) 2019-11-26 12:19:36 -06:00
darmac
b75f2e2c24 add new package : busybox@1.31.1 (#13871)
* add new package : busybox@1.31.1

* 1. add some other version for busybox
2. change Busybox class to MakefilePackage
3. move make('defconfig') and make() to build() function
4. change install_tree('', prefix) to install_tree('.', prefix)
2019-11-26 12:19:16 -06:00
darmac
327de3b3d4 add new package : blktrace (#13872)
* add new package : blktrace

* modify install_tree('', prefix) to install_tree('.', prefix)
2019-11-26 12:19:01 -06:00
noguchi-k
8ea4692ee9 lsof: fix url and checksum (#13801)
* lsof: fix url and checksum

* lsof: change the download url, add list url and version 4.91, 4.90
2019-11-26 12:10:14 -06:00
Massimiliano Culpo
77c206185b Remove warning from the "Custom Extensions" section of the docs (#13804)
Extensions have been available for a while and the overall design
seems solid enough to be feasible for extensions without losing
backward compatibility.
2019-11-26 09:30:49 -08:00
Axel Huebl
7a81c37bde
Package Index: Build in Dockerhub (#13810)
* Package Index: Build in Dockerhub

Prepare to build the package index service, packages.spack.io,
on Dockerhub.

Local build (in spack root dir):
```
docker build -t spack/packages.spack.io:latest -f share/spack/docker/package-index/Dockerfile .
```

Local test:
```
docker run -p 8080:80 spack/packages.spack.io:latest
```

* Travis-CI: Remove Docker

Remove leftover docker stages from Travis-CI.

* Simplify Split Call
2019-11-26 10:11:29 -07:00
健美猞猁
1291ca3410 Bump miniconda2 miniconda3 to 4.7.12.1 . (#13897) 2019-11-26 10:52:07 -06:00
Rao Garimella
52d0940b42 Variant for enabling tests, versions, cleanup (#13882)
* add variant for enabling testing

* enable tests and clean up other options

* add numbered versions

* updates to avoid enable_tests variant; correct versioning

* fixes for style

* appropriate partitioners are enabled if 'all' is specified - so no need to check in spec

* define url so spack knows how to fetch the tar.gz files for different versions
2019-11-26 10:48:34 -06:00
Vivek Kale
07cda58bcc Updating package for SOLLVE (#12607)
* Add SOLLVE package with Shintaro's help on rebasing.

Co-authored-by: Vivek Kale <vivek.lkale@gmail.com>

* sollve: reflect suggestions by @adamjstewart

* sollve: update target detection

Copied from llvm/package.py.

* sollve: fix a few things

- url -> git
- remove git in version()
- explicit cmake options in else clauses
- add newlines for better readability
2019-11-26 10:45:27 -06:00
Hector Martinez-Seara
ad2cc38f22 Py-pymol package has been updated to the latest version (#13764)
* Added new package libmmtf-cpp required by py-pymol

* Added SPDX-License-Identifier to MIT

*  Updated py-pymol to version 2.3.0

* py-pymol: Added mising py-pmw dependency

* py-pymol: flake8 minor change

* py-pymol: Added patch for apbstools_tcltk8.6

This patch is borrowed from archlinux
https://bugs.archlinux.org/task/39526

* libmmtf-cpp: flake8 compliance

* libmmtf-cpp: flake8 compliance

* libmmtf-cpp: change license to  (Apache-2.0 OR MIT) when refering to the MIT license

* libmmtf-cpp: Added header text about license as in examples

* py-pymol: removed unnecesary dependency mesa-glu

* py-pymol: removed unnecesary patch

* py-pymol: Removed empty line at the end of the file to comply with flake8.
2019-11-26 10:42:39 -06:00
Christoph Junghans
7d3d03dea9 cmake: add support for xlf and ninja (#13796) 2019-11-26 11:29:25 -05:00
darmac
577391e62b httperf: added new package (#13875) 2019-11-26 13:38:48 +01:00
Joe Koning
c171ff6335 Add the py-coloredlogs package (#13852)
* Add the py-coloredlogs package

* Remove extraneous line.

* Remove dashed line.

* Add version for humanfriendly dep and build to type.

* Change source url to use pypi.
2019-11-25 16:56:34 -06:00
Hadrien G
b4049c484f Forgot a trailing _PLUGIN (#13884) 2019-11-25 16:56:09 -06:00
Andreas Baumbach
5c8e34160d add new versions to py-mistune (#13887) 2019-11-25 16:55:53 -06:00
Tim Haines
7872435753 Add intel-tbb versions 2019.5 to 2019.8 (#13891) 2019-11-25 16:52:46 -06:00
G-Ragghianti
0aab6068ff Improved library access for lm-sensors and implemented use in papi. (#13885)
* Improved library access for lm-sensors and implemented use in papi.

* Fixed comment formatting

* Removed explicit "None" from return of libs().

* Added two new software release versions.
2019-11-25 15:42:14 -06:00
René Widera
9c10b80591 add package cuda@10.2.89 (#13819)
* add package cuda@10.2.89

add CUDA 10.2 support

* CudaPackage: Add 10.2 Conflicts

* CUDA: Modernize Run Environment

See #11115
2019-11-25 13:23:48 -06:00
David M. Rogers
552ffed171 Updated LAMMPS package to use gpu and kokkos options. (#13886) 2019-11-25 13:22:31 -06:00
iarspider
3eb1a0226d Fix ROOT dependencies (for +r variant) (#13839) 2019-11-25 13:02:03 -06:00
Sinan
70e4377348 Mapnik: fix runtime error involving py-pycairo and PDF (#13865)
* fix runtime error involving py-pycairo and PDF

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

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

* fix env setup
2019-11-25 13:01:14 -06:00
Joe Koning
c349759acd Add the py-importlib-resources package (#13854)
* Add the py-importlib_re package

* Rename package to conform with spack naming convention.

* Rename package to py-importlib-resources
Add python depend modules for previous python versions and depends_on python.

* Add whitespaces.
2019-11-25 13:00:45 -06:00
Toyohisa Kameyama
87e757ee93 cctools: fix python related error. (#13802)
* cctools: fix python related error.

* patch bugfix.
2019-11-25 12:57:09 -06:00
Sinan
448e09e5b2 Add latest version of bazel (#13813)
* use bazel commit in #13112, and add version 0.24.1, and corresponding cc_env patch

* undo preferred java version by dodo47

* patch for v0.26

* Update install steps

* Add patches for more versions

* Add unit tests

* Update patches for new Spack env vars

* env is already defined, use spackEnv
2019-11-25 11:59:12 -06:00
Joe Koning
289aa6ad8a py-celery: added new package (#13851) 2019-11-25 16:28:06 +01:00