Commit graph

9574 commits

Author SHA1 Message Date
t-karatsu
06042ec7ec augustus: Set compile commands for each compiler and Fix for using 'boost' on Spack (#13975)
* augustus: Set compile commands for each compiler and Fix for using 'boost' on Spack

* fix for flake8

* delete 'string' args

* Fix args of filter_file func

* Fix args of other filter_file func
2019-12-06 12:39:23 -06:00
Galen Shipman
5d523dd689 Add patch to fix issue building current llvm develop master on power9 (#13986)
* Add patch to fix issue building current llvm develop master on power9

* Conform to proper block commenting

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-12-06 12:38:58 -06:00
Tamara Dahlgren
dd26cc4004 Fastmath: Added required version (#13990)
* Fastmath: Added required version

* Changed the version to 'latest' (per balay).
2019-12-06 12:38:29 -06:00
Tamara Dahlgren
5e49b76dd7 Ceed: Added required version (#14006) 2019-12-06 12:38:00 -06:00
t-karatsu
246799d4ce sz: Change optimization flags for Fujitsu compiler (#14007) 2019-12-06 12:05:16 -06:00
Paul
67e45096c8 Specify self for internal setup method (#14008) 2019-12-06 12:04:57 -06:00
Brian Homerding
5e20bd86e4 Convert llvm Spackage to use the monorepo (#11392)
* [WIP] Convert llvm spackage to use the monorepo

* Correcting python dependencies

* Adding develop version for llvm monorepo

* Python 2.6 Fix

* Build Flang fork in a different root_cmakelists_dir

* Formatting Fix

* Including flang package changes

* Removing explicit llvm dependencies variants

* flake8 fix

* Updating patches and llvm+flang logic

* Updating env setup API

* Add top level git

* Conflicting flang variant with other variants
2019-12-06 12:01:30 -06:00
Seth R. Johnson
f069a3feda Add h5sh python package (#14001)
* Add h5sh package

* Fix requirements and update version
2019-12-06 11:58:59 -06:00
Mark W. Krentel
f84ad57fe7 hpcviewer: add version 2019.09 (#14004)
Add version 2019.09.  Adjust the iteration through versions to
eliminate the need for version_list.
2019-12-05 18:59:30 -06:00
Dominik Dold
c3eafde7bf Add new TensorFlow package (#13112)
* add tensorflow

Change-Id: Id778c68d148cc42f0b478a9d10a8f937cb54cdc6

* make bazel and tensorflow build

Change-Id: Iae9005e8f4dcc8f1ed36ea9337d2430aeebb291f

* fix flake8

Change-Id: Ib05529dd796eab4a8855a5d7775cc4efea8e479d

* 2nd flake8 attempt

Change-Id: I46224be3a374b2a65793048b0c5178ea64adbd78

* replace md5 sums with sha256

* add version 1.13.2

* bazel() -> bazel('build',...

* specify versions of bazel dependency

* build with CUDA

* add TODOs

* add more todo"s

* improve enum34 dependency

* py-future is a dependency as of v1.14

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

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

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

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

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

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

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

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

* enable nccl, cuda by default

* explain patches

* add todo

* remove unnecessary copt_flag

* use join

* join argument must be an iterable

* split long line; use same opts for non-cuda build

* without opt flags, configure hangs

* introduce build phases; re-arrange

* undo mistake

* restore unset tmp_path

* as of v1.14, nccl_install_path is parsed correctly, hence change ...prefix.lib to ...prefix

* now, version 1.14 compiles successfully with cuda

* add version 2.1.0

* specify bazel dependency for version 2.1.0-rc0

* account for deprecated bazel opts for v2.1.0-rc0

* disable mkldnn contraction kernel

* Flake8 fixes

* md5 -> sha256

* Fix TF and TF-estimator version deps

* Don't just comment out patch

* Add myself as a maintainer

* Patch py-astor to support newer py-setuptools

* Add more versions and bazel version constraints

* Add a build phase

* Add note about configure interactivity

* dev-build -> build-env

* Disable iOS build

* Use correct optimization flags

* Add variants for all possible features

* nccl isn't always a dependency

* Specify correct dependency versions for each release

* Libs may not be in lib or lib64

* Add py-opt-einsum package

* Add newer version of py-protobuf

* Add newer version of py-wrapt

* Fix Python 2.6 syntax error

* Code review

* Set more env vars for older versions

* Add more env vars, fix bazel versions, add conflicts

* Fix config options

* Specify version that support --config args

* Add py-future dependency for Python 2

* Fix cuda config flag and compute capabilities

* Fix installation on macOS, add unit tests

* Override cuda variant default to True on non-macOS

* Rename tensorflow to py-tensorflow

* Has to extend something

* Fix os.symlink call

* convert cuda_arc values to capabilities

* restore nccl prefix path for v1.13.1

* Revert to v2

* Remove extraneous period

* Add new version of jdk/openjdk

* More stable cuda_arch formatting

* Fix bazel unit tests

* Fix symlinking

* Fix unit tests

* +gcp by default until build error figured out
2019-12-05 18:48:20 -06:00
Chuck Atkins
831133a4c3 paraview: Adjust python version constraints (#13999)
py-matplotlib: No constraint necessary for py3 but py2 has an upper bound
py-numpy: No constraint necessary for py3 but py2 has an upper bound
2019-12-05 12:06:47 -06:00
Paul
9a0b1b6aef Added go 1.13.5 and 1.12.14 (#13997) 2019-12-05 11:29:00 -06:00
Chuck Atkins
fcc9a668bf py-pillow: allow older versions to build with python 3.4 (#14000) 2019-12-05 11:27:33 -06:00
Christoph Junghans
2da2fc8bc5
eospac: fix url (#13998) 2019-12-05 09:30:35 -07:00
Alexander Knieps
dbdc6c4a68 New package: swipl (#13978)
* New package: swipl

* Removed boilerplate, added maintainer

* Fixed python 2 incompatibility

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

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

* swipl: Added conflict with intel compiler
2019-12-05 09:51:38 -06:00
Peter Scheibel
e9ee9eaf50 patching: do strict version range checking (#13989)
* apply strict constraint checks for patches, otherwise Spack may incorrectly treat a version range constraint as satisfied when mixing x.y and x.y.z versions
* add mixed version checks to version comparison tests
2019-12-04 22:27:08 -08:00
Adam J. Stewart
ad5d612925
Add py-matplotlib 3.1.2 (#13994) 2019-12-05 00:00:20 -06:00
Axel Huebl
ba156dfcd8 CUDA: Keep 10.1.243 As Preferred (#13983)
Keep CUDA 10.1.243 as the preferred version until the issue
of including implementation details of libcu++ is addressed.
2019-12-04 21:28:10 -06:00
Stephen Hudson
e0e9fb4462 Update libensemble to v0.6.0 (#13987) 2019-12-04 18:01:05 -06:00
Adam J. Stewart
10f4445309
Add latest version of py-scikit-learn (#13979) 2019-12-04 11:47:07 -06:00
Tim Haines
728f5a76f3 Add Elfutils 0.178 (#13976)
* Add elfutils-0.178

* Disable debuginfod server

* Fix flake8
2019-12-04 07:50:44 -06:00
Tim Haines
bb33b6b8e6 Use correct range check for the version (#13977)
Update to #13893
2019-12-04 07:50:05 -06:00
Sheng Di
ba87a7f53a Release a new version v2.1.8.0 for SZ (#13974)
* Release a new version v2.1.8.0 for SZ

* add maintainer

* add parallel = False to avoid potential compile issue
2019-12-03 22:35:46 -06:00
Rob Latham
92ee0659e2 mpich: update build requirements (#13966)
To build from git, MPICH will need newer autoconf, automake, and libtool than
typically available on many systems.
2019-12-03 17:13:52 -06:00
Rob Latham
c7dbb4f103 argobots: consistently use 'master' (#13965)
Commit 71cd91e4 changed "latest from git" to 'master' from former
'develop'.  Build dependencies still pointed to @develop, though
2019-12-03 12:09:15 -06:00
Cameron Smith
5ddf5e2e7b new package: Simmetrix SimModSuite (#8730)
* package for Simmetrix SimModSuite

* simmodsuite: passes flake8

* simmetrix: add version, set cmake prefix path

A given install will either use the libs built on rhel7 or rhel6.
For now, I'm sticking with the non-spack install convention of
placing the libraries into sub-directories named according to their
build process (os + compiler).

* simmetrix: add older version

* simmetrix: set build env paths

easier to build pumi using CMAKE_PREFIX_PATH

* simmetrix: address review comments

* simmetrix: add new version and remove old one

* simmetrix: flake8 fixes

* simmodsuite: oslib var is in self

* simmodsuite: update version and checksum

* simodsuite: set LD_LIBRARY_PATH for cad kernels

* update license

* update setup_environment calls

* increase indentation for flake8

* python3.8 flake8 fixes

* use spack consistent naming

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

* sha256 required, update versions and hashes
2019-12-03 12:07:27 -06:00
t-karatsu
111dc8f823 kaldi: Change process of version analysis when using Fujitsu compiler. (#13960) 2019-12-03 10:34:05 -06:00
asmaahassan90
fb52f1c7e2 fix_cantera_installation (#13962)
For a successful cantera installation, googletest has to be installed with gmock on, and sundials has to be of version less than 3.2
2019-12-03 10:33:27 -06:00
Phil Carns
88680febc9 bump libfabric to 1.9.0 (#13964) 2019-12-03 10:32:53 -06:00
Yuanqi Wang
a5d872f510 Update MrBayes to 3.2.7a and correct MPI variants (#13929)
* Update MrBayes and correct MPI variant

* Use tarballs and remove autotools dependencies

* MrBayes: remove ISA variants
2019-12-03 10:31:00 -06:00
Jannek Squar
7e2d01b238 Update package libgpg error (#13697)
* Added build dependency on gawk

* Use virtual depdendency

* Added patch to prepare libgpg-error for use with gawk@5

* Added reasoning with link for need for patch
2019-12-03 10:29:15 -06:00
Chris White
cb38725a88 Add missing metis include to superlu-dist (#13956)
* Add missing metis include to superlu-dist

* Fix PEP-8 line length

* Fix PEP-8 indent
2019-12-02 18:30:23 -06:00
Sinan
4f8a2eeca2 add more versions (#13957) 2019-12-02 18:30:08 -06:00
Massimiliano Culpo
bca59f8d83 Speedup environment activation (#13557)
* Add a transaction around repeated calls to `spec.prefix` in the activation process
* cache the computation of home in the python package to speed up setting deps
* ensure that module-scope variables are only set *once* per module
2019-12-02 14:05:02 -08:00
Hector Martinez-Seara
1b624b9d45 amber: Improved package.py and added version 18 (#13945)
* amber: Improved package.py and added version 18

- Added amber 18 with ambertools 19
- Added all available patches
- Added +update variant to use the self update
- Added +openmp variant to get openmp optomizations
- Added +x11 variant when possible
- Splitted amber 16 and 18 dependencies
- We now detect the copiler type and compile accordingly
- Added cray variant which is a bit special (untested)
- Improved detection of possible cuda versions
- All compilation optimizations +mpi +openmp +cuda are compatible
- Updated to use setup_build_environment(), setup_run_environment()

* dealii: Added 'threads' variant that controls the TBB dependency (#13931)

* dealii: Added 'threads' variant that controls the DEAL_II_WITH_THREADS cmake option and the dependency on Intel TBB

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

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

* amber: Improved package.py and added version 18

- Added amber 18 with ambertools 19
- Added all available patches
- Added +update variant to use the self update
- Added +openmp variant to get openmp optomizations
- Added +x11 variant when possible
- Splitted amber 16 and 18 dependencies
- We now detect the copiler type and compile accordingly
- Added cray variant which is a bit special (untested)
- Improved detection of possible cuda versions
- All compilation optimizations +mpi +openmp +cuda are compatible
- Updated to use setup_build_environment(), setup_run_environment()

* amber: Adding missing flex and bison dependencies

* Removed cray variant; flex and bison now build only

* amber: Improved package.py and added version 18

- Added amber 18 with ambertools 19
- Added all available patches
- Added +update variant to use the self update
- Added +openmp variant to get openmp optomizations
- Added +x11 variant when possible
- Splitted amber 16 and 18 dependencies
- We now detect the copiler type and compile accordingly
- Added cray variant which is a bit special (untested)
- Improved detection of possible cuda versions
- All compilation optimizations +mpi +openmp +cuda are compatible
- Updated to use setup_build_environment(), setup_run_environment()

* amber: Adding missing flex and bison dependencies

* Removed cray variant; flex and bison now build only

* dealii: Fixed flake8 issues

* amber: corrected typo

* amber: Removed unused variant python
2019-12-02 16:01:14 -06:00
Jim Galarowicz
6d127e29de Fix conflict with respect to openssl and qt3 built for openspeedshop. (#13946)
* Fix conflict with respect to openssl and qt3 built for openspeedshop.

* Another fix because the first was incorrect.
2019-12-02 13:13:31 -06:00
Justin M Wozniak
543f37ea51 eq-r: Fix use of Executable.__call__() (#13952) 2019-12-02 13:13:05 -06:00
Alexander Knieps
8e3ff9b39c dealii: Added 'threads' variant that controls the TBB dependency (#13931)
* dealii: Added 'threads' variant that controls the DEAL_II_WITH_THREADS cmake option and the dependency on Intel TBB

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

Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com>
2019-12-01 13:34:26 -06:00
Sergei Shudler
c7568c9146 Package/sensei: PR request for SENSEI (in situ analysis tool) recipe (#12973)
* Created an initial recipe for Sensei

* Cleanup syntax

* Small fixes for the Sensei recipe

* Cosmetic fixes to comply with PEP8

* More cosmetic fixes before PR

* Added more documentation before PR

* Fixed flake8 errors

* Fixes following PR review

* Fixes to pass Flake8 passes

* Some changes following PR review and support for SENSEI 3

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

Co-Authored-By: Axel Huebl <axel.huebl@plasma.ninja>

* Fixed Flake8 errors
2019-12-01 11:30:14 -06:00
Benjamin Fovet
fdd7a0e236 Add VTK version 8.2.0 (#13941) 2019-11-30 16:32:19 -06:00
jwallior
daaeb412a4 New python packages (#9974)
* New package: add py-jellyfish

* New package: add py-us

* New package: add py-xlwt

* New package: add py-svgpathtools

* New package: add py-svgwrite

* Change checksums to sha256

* Fix Copyright year.

* Add missing dependencies.
2019-11-30 16:32:02 -06:00
Benjamin Fovet
1c8a62aa86 Add package opencascade (#13938)
* Add new package : opencascade

* Remove boilerplate comment

* Fix flake8 errors

* Explicitly disable 3rd parties
2019-11-30 15:08:52 -06:00
Toyohisa Kameyama
c850e80bea cbtf: add rpcsvc-proto and libtirpc dependency. (#13798) 2019-11-30 13:08:24 -06:00
iarspider
aec5874b94 Mark py-argparse dependency everywhere with ^python@:2.6 (#13928)
* Mark py-argparse dependency everywhere with ^python@:2.6

* Update package.py

* Update package.py
2019-11-30 13:07:14 -06:00
darmac
46617b6f12 add new package : lshw (#13933)
* add new package : lshw

* update lshw package

* remove build methord
2019-11-30 01:13:23 -06:00
iarspider
94c8bf0322 Update Geant4 version and recipe (#13840)
* Update Geant4 version and recipe

According to the Geant4 developers, Geant4 supports Qt5 since at least 10.00.

* Update to new API
2019-11-29 16:21:51 -06:00
Adam J. Stewart
ab98ef1765
Mass conversion of setup_(dependent_)?environment (#13924)
* Mass conversion of setup_(dependent_)?environment

* prefix -> self.prefix
2019-11-29 15:00:44 -06:00
Mark W. Krentel
92ca639905 intel-tbb: fix and update patches for latest versions (#13932)
Commit 78724357 added versions 2019.5 to 2019.8 but failed to update
the patches for these versions.

1. gcc_generic-pedantic patch -- include this up through 2019.5.  This
was fixed in the TBB source tree in 2019.6.

2. tbb_cmakeConfig patch -- this needs to be modified (different file)
for 2019.5 and later.

3. tbb_gcc_rtm_key patch -- replace this with filter_file.  This is
simpler and eliminates the need to update the patch whenever the
surrounding context changes.
2019-11-29 13:18:56 -06:00
darmac
0f464b8d9f add new package : pipework (#13934) 2019-11-29 12:19:13 -06:00
darmac
e865856c84 add new package : qperf (#13935) 2019-11-29 12:18:41 -06:00