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2019-06-18Remove test dependency on /usr/bin/gcc (#11769)Greg Becker1-3/+10
The regression test for #11678 fails on at least some Mac OS systems because they have a /usr/bin/gcc that is secretly clang. This PR replaces the dependency on a system gcc executable with a test-generated script that generates the expected output for the compiler logic.
2019-06-18Ensure `brew update` is run before using brew in test environment (#11784)Greg Becker1-0/+1
All macos tests are failing because brew cannot install ccache without updating brew. This ensures that brew update is run before using brew in test environment.
2019-06-18xtensor package: add version 0.20.7 and update dependencies (#11574)Axel Huebl4-7/+35
* xtensor-python: add version 0.23.1 * xtensor-python: update xtensor/xtl dependency version constraints for 0.23.1 * xtensor-python: remove xtensor/xtl dependency version constraints for the develop version to favor the latest (develop) version of these dependencies * xsimd: add version 7.2.3 * xtensor: add tbb variant to enable TBB parallelization * xtensor: add version 0.20.7 * xtensor: update CMake args enable xsimd/tbb support based on variant settings * xtl: add version 0.6.4
2019-06-18Added Cinch Spackage (#11759)Robert Pavel2-10/+41
* Added Cinch Spackage and updated Flecsi to Use It Added spackage for Cinch build system and updated flecsi spackage to use the external version of cinch * Flake8 compliance for Cinch and Flecsi * Fixed Cinch Issue and Requested PR Changes Swapped cinch back to master branch rather than test branch and style issues for PR
2019-06-18Restrict gplates to proj@:5 (#11761)Adam J. Stewart1-2/+4
* Restrict gplates to proj@:5 * Add comment on PROJ dependency
2019-06-18Add py-rasterio 1.0.24 (#11738)Adam J. Stewart1-14/+19
* Add py-rasterio 1.0.24 * Python 3 required in the next release
2019-06-18Add py-shapely 1.6.4.post2 (#11739)Adam J. Stewart1-8/+17
2019-06-18Add CDO 1.9.7.1 (#11758)Adam J. Stewart1-2/+3
2019-06-18repeatmasker: perl and HMMER dependency fixes (#11660)Justin S1-0/+11
repeatmasker depended on HMMER but was never actually configured to use it. The package also had many shebangs pointing to random perl locations, now patched to use Spack's perl installation.
2019-06-18ACTS package: add versions including 0.10.1 (#11606)Hadrien G1-6/+8
* Also add version 0.10.0 * Add leading '0' to 0.9.x versions (e.g. 0.09.1) and 0.8.x versions * Don't mention acts-framework, that package isn't in Spack yet
2019-06-18Ensure proper gopath set for rclone (#11755)Tamara Dahlgren1-0/+4
Fixes #11745 Set the GOPATH environment variable to the stage path to avoid creation of a $HOME/go directory.
2019-06-18Rename build.out to build.txt (#11749)Elizabeth Fischer3-5/+5
Rename build.out to build.txt; makes it easier when people post log files to the Spack mailing list.
2019-06-18r3d: add version 2018-01-07 (#11770)Gabriel Rockefeller1-0/+1
2019-06-17Restrict libspatialite to proj@:5' (#11752)Adam J. Stewart1-1/+1
2019-06-17r-rgdal does not yet support PROJ.6 (#11766)Adam J. Stewart1-1/+1
2019-06-17Add PROJ.6 (#11730)Adam J. Stewart1-9/+12
* Add PROJ.6 * Add back comment about newer PROJ API
2019-06-17PROJ.6 not yet supported in SAGA-GIS (#11768)Adam J. Stewart1-1/+1
2019-06-17py-cartopy does not yet support PROJ.6 (#11765)Adam J. Stewart1-1/+1
2019-06-17Specify which versions of PROJ work with MapServer (#11764)Adam J. Stewart1-0/+2
2019-06-17Restrict magics to proj@:5 (#11763)Adam J. Stewart1-1/+1
2019-06-17GRASS GIS does not yet support PROJ.6 (#11762)Adam J. Stewart1-0/+2
2019-06-17Add GEOS 3.7.2 (#11734)Adam J. Stewart1-5/+6
2019-06-17Add GDAL 3.0.0 (#11733)Adam J. Stewart1-16/+31
* Add GDAL 3.0.0 * Clarify PROJ version requirements
2019-06-17Add py-fiona 1.8.6 (#11736)Adam J. Stewart1-8/+18
* Add py-fiona 1.8.6 * Remove commented code * Python 3 will be required in the next release
2019-06-17Add libgeotiff 1.5.1 (#11731)Adam J. Stewart2-3/+659
2019-06-17Libmesh updates (#11750)Manav Bhatia1-1/+26
* Updates to libMesh: added v1.3.1 checksum, added vtk variant, bugfix for enabling petsc when slepc variant is specified * fixed indentation issues identified by Travis CI * - updates version number - added master as a version - added new variant options for perflog, metaphysicl and blocked storage -- bug-fix for metis * fixes for spack indentation errors * renaming develop to master following review comment of PR.
2019-06-17Add py-pyproj 2.2.0 (#11735)Adam J. Stewart1-12/+19
* Add py-pyproj 2.2.0 * PR review requests * Make Python requirements more explicit
2019-06-17Restrict pism to proj@:4 (#11754)Adam J. Stewart1-1/+1
* Restrict pism to proj@:5 * PROJ.5 is not yet supported either :(
2019-06-17Added newer GoLang versions (#11756)Paul1-1/+5
2019-06-17Restrict ibmisc to proj@:4 (#11753)Adam J. Stewart1-1/+3
* Restrict ibmisc to proj@:5 * Restrict ibmisc to proj@:4
2019-06-17Remove version from py-mpi4py. (#11587)Dan Lipsa1-2/+1
2019-06-17Add version 1.2.2 and 1.2.3 to the package (#11748)Valentin Clement (バレンタイン クレメン)1-0/+2
2019-06-17Fix condition to enable mpi4py. (#11707)Dan Lipsa2-5/+19
* Fix condition to enable mpi4py. * flake8 * Catalyst as paraview for mpi4py. * Catalyst needs numpy and mpi4py. * Remove leftover enable python.
2019-06-17bugfix: use config fixture for stage tests (#11701)Tamara Dahlgren2-6/+23
Some tests introduced in #11528 temporarily set the user's `config:build_stage`, which affected (or created) a config.yaml file in the user's `$HOME/.spack` directory that could leave entries behind if the tests fail. This change ensures only temporary configuration files are used/affected by these tests.
2019-06-17docs: updates for `stage.source_path` (#11702)Tamara Dahlgren3-13/+37
2019-06-16openPMD-api: pybind11>=2.3.0 (#11744)Axel Huebl1-2/+1
Update the dependency on pybind11 to the latest version (constexpr signature support for all C++11 compilers + fixes).
2019-06-16cowsay: new package (#11743)Todd Gamblin1-0/+21
- A program that generates ASCII pictures of a cow with a message. - This is used by the ISC19 Singularity tutorial, so we should probably have it in Spack.
2019-06-16docs: update tutorial page for ISC19 tutorial (#11742)Todd Gamblin1-10/+13
2019-06-16Add py-geopandas 0.5.0 (#11737)Adam J. Stewart1-7/+13
2019-06-16Add libtiff 4.0.10 (#11732)Adam J. Stewart1-1/+2
2019-06-16Add nasm 2.14.02 (#11729)Adam J. Stewart1-3/+4
2019-06-16Add openjpeg 2.3.1 (#11728)Adam J. Stewart1-2/+2
2019-06-16Add py-cligj 0.5.0 (#11727)Adam J. Stewart1-1/+2
2019-06-16Add py-numpy 1.16.4 (#11726)Adam J. Stewart1-1/+2
2019-06-16Add libjpeg-turbo 2.0.2 (#11725)Adam J. Stewart1-1/+2
2019-06-16Update URL for older version of jackcess (#11724)Adam J. Stewart1-1/+2
2019-06-16Add HDF 4.2.14 (#11723)Adam J. Stewart1-3/+4
2019-06-16Add new package py-boto3 (#11722)Adam J. Stewart1-0/+25
2019-06-16Add new package py-s3transfer (#11721)Adam J. Stewart1-0/+22
2019-06-16Add new package py-botocore (#11720)Adam J. Stewart1-0/+30
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