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2020-05-11Charm++: fix build prefix; add ucx/pmi support (#15666)Sajid Ali3-44/+125
* Add pmi support (required by ucx, ofi, and gni backends) * Add support for ucx backend * Add dependency on MPI for pmi=simplepmi, slurmpmi, or slurmpmi2 * Remove charmpp as an MPI provider since the changes in this PR can add MPI as a dependency (mentioned previously) * Install into transport_protocol-OS-arch subdirectory to match default charmpp installation behavior (which helps dependents find it)
2020-05-11python: add -fwrapv to cflags for python@3.8.0: %intel (#16592)Greg Becker1-0/+9
2020-05-11fio: Add 3.19 (#16571)Michael Kuhn1-0/+4
Earlier versions are not compatible with gcc@10:.
2020-05-11adios: Fix build with gcc@10: (#16569)Michael Kuhn1-0/+5
2020-05-11Add avizo version 2020.1 (#16567)asmaahassan901-2/+8
2020-05-11py-plac: remove erroneous argparse dependency (#16584)Adam J. Stewart1-1/+1
2020-05-11mpich: Fix build with gcc@10: (#16568)Michael Kuhn1-0/+4
2020-05-11Remove 'spack bootstrap' and associated docs (#15179)Massimiliano Culpo7-192/+9
fixes #15145 This commit removes the outdated `spack bootstrap` command and any reference to it in the documentation and unit tests.
2020-05-11r-rstudioapi : new version (#16574)Amjad Kotobi1-0/+1
2020-05-11r-rlang : new version (#16575)Amjad Kotobi1-0/+1
2020-05-11r-digest : version updated (#16578)Amjad Kotobi1-0/+1
2020-05-11Map the spack skylake arch to Kokkos BDW, rather than SKX (#16583)Andrew Gaspar1-1/+6
SKX includes AVX-512 extensions that consumer Skylake processors do not have. Therefore, map Skylake to the prior arch to work on these systems. Skylake-X processors will still map as the skylake_avx512 spack arch and get the correct optimzations.
2020-05-11stata: add new libpng dependency (#16582)Justin S1-2/+2
2020-05-11netcdf-fortran: Fix build with gcc@10: (#16573)Michael Kuhn1-0/+5
2020-05-11New package: py-mmcv (#16536)Jen Herting1-0/+24
* [py-mmcv] Created template * [py-mmcv] added description and homepage * [py-mmcv] requires python 3.6+ * [py-mmcv] added dependencies * [py-mmcv] depends on opencv * [py-mmcv] cleaned up fixmes * [py-mmcv] requires numpy >= 1.11.1
2020-05-11gcc: added v10.1.0 (#16525)Michael Kuhn2-3/+37
2020-05-11py-configobj: remove url function (#16522)Sinan1-10/+0
It seems the pypi version of the package somehow compiles just fine Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-05-11py-jupyterlab: added package at v2.1.0 (#16562)takanori-ihara1-0/+30
2020-05-10Add new package:py-jupyterlab-server (#16561)takanori-ihara1-0/+25
2020-05-10PyTorch: fix master and mkldnn builds (#16560)Adam J. Stewart1-3/+4
2020-05-10new version r-rcpp (#16549)Amjad Kotobi1-0/+1
2020-05-10new version r-glue (#16558)Amjad Kotobi1-0/+1
2020-05-10new version r-pkgbuild (#16559)Amjad Kotobi1-0/+1
2020-05-10new version r-jsonlite (#16557)Amjad Kotobi1-0/+1
2020-05-10new version r-dt (#16555)Amjad Kotobi1-0/+1
2020-05-10new version r-covr (#16554)Amjad Kotobi1-0/+1
2020-05-10new version r-callr (#16552)Amjad Kotobi1-0/+1
2020-05-10DGL: add new version (#16547)Adam J. Stewart1-3/+10
2020-05-09Fix MacOS tests on developMassimiliano Culpo1-1/+1
The -u option allows to update the current head, so tests won't fail if we are on develop
2020-05-09macOS nightly: +1hr py-jupyterAxel Huebl1-1/+1
check if failures ares actually a real timeout or an error that just causes a hang.
2020-05-09macOS nightly: two coresAxel Huebl1-0/+1
All GitHub actions provide two cores. Just make sure this does not get oversubscribed with potentially visible additional physical cores.
2020-05-09Add unit test on MacOS using Github Actions (#14220)Massimiliano Culpo4-22/+50
- Remove macos tests from travis - Add macos tests in github actions.
2020-05-09[dd4hep] variant and run env updates (#16524)vvolkl1-2/+8
* [dd4hep] variant and run env updates * address comments from #16524
2020-05-09Add maintainers and variants for building with default earlier api versions. ↵Larry Knox1-0/+12
(#16534) * Add maintainers. Add variants for building with default earlier api versions. * Update var/spack/repos/builtin/packages/hdf5/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-05-09New package: py-addict (#16535)Jen Herting1-0/+19
* [py-addict] created template * [py-addict] added homepage and description * [py-addict] cleaned up fixmes * [py-addict] depends on py-setuptools
2020-05-09QMCPACK Update May 2020 (#16542)Nichols A. Romero1-23/+2
* Add naromero77 as a maintainer for QMCPACK Spack package. * Add QMCPACK 3.9.2 * Remove QE-to-QMCPACK wave function converter from QMCPACK Spack package. Already been moved to QE Spack package.
2020-05-09Fix dependency of geant4 (amends #16497) (#16504)iarspider3-10/+14
* Fix dependency of geant4 (amends #16497) * Update geant4-data dependencies * Reviewer comments (part 1/2) * Reviewer comments (part 2/2) * Update var/spack/repos/builtin/packages/geant4-data/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-05-09Increase coverage of spack.relocate (#16475)Massimiliano Culpo3-120/+286
- add docstrings and make parameter names consistent in `relocate.py` - Make `replace_prefix_*` and other functions private (as they are implementation details) - remove unused function _replace_prefix_nullterm() - Add unit tests for `relocate.py` functions - add patchelf to Travis and use it during tests - add hello_world fixture with a compiled binary, so we can test relocation
2020-05-09update visit package with 3.1.1 release and add comments (#16498)Cyrus Harrison3-7/+154
2020-05-09bugfix: don't use sys.stdout as a default arg value (#16541)Todd Gamblin8-12/+25
After migrating to `travis-ci.com`, we saw I/O issues in our tests -- tests that relied on `capfd` and `capsys` were failing. We've also seen this in GitHub actions, and it's kept us from switching to them so far. Turns out that the issue is that using streams like `sys.stdout` as default arguments doesn't play well with `pytest` and output redirection, as `pytest` changes the values of `sys.stdout` and `sys.stderr`. if these values are evaluated before output redirection (as they are when used as default arg values), output won't be captured properly later. - [x] replace all stream default arg values with `None`, and only assign stream values inside functions. - [x] fix tests we didn't notice were relying on this erroneous behavior
2020-05-09ci: update Travis badge in README.md to point to travis-ci.comTodd Gamblin1-1/+1
2020-05-08spaCy: add new package for en_core_web_sm model (#16539)Adam J. Stewart1-0/+17
2020-05-08Metall: add version 0.2 (#16502)Keita Iwabuchi1-0/+2
2020-05-08Add new package:py-pytest-check-links (#16503)takanori-ihara1-0/+19
2020-05-08py-netcdf4: a couple of improvements (#16505)Sergey Kosukhin2-0/+30
* py-netcdf4: avoid recompilation and make the older versions to work with HDF5@1.10: * py-netcdf4: add a new version and introduce a maintainer list.
2020-05-08precice: Fix conflict with boost 1.73.0 (#16507)Frédéric Simonis1-0/+1
2020-05-08graphviz: fix cairo backend (#16511)Christoph Junghans1-1/+1
2020-05-08Gaudi: separate variant for building documentation (#16515)iarspider1-2/+4
* Gaudi: separate variant for building documentation * Update package.py
2020-05-08New package (#16519)h-denpo1-0/+26
Large Scale Assembly, Structural Correspondence, Multi Dynamics Simulator.In this program, a part of functions of ADVENTURE_Solid ver.1.1 module
2020-05-08Gaudi: syntax fix (#16523)iarspider1-3/+3
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