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2020-10-22New package: py-dominate (#19483)Jen Herting1-0/+24
* [py-dominate] created template * [py-dominate] added dependencies * [py-dominate] added homepage and description. removed fixmes * [py-dominate] fixed url format
2020-10-22Enable packages to use the NVIDIA HPC SDK (#19452)Scott McMillan85-18/+1824
* Enable packages to use the NVIDIA HPC SDK * fix linter and review items * fix linter issue Co-authored-by: Scott McMillan <smcmillan@nvidia.com>
2020-10-22New package: py-torchfile (#19481)Jen Herting1-0/+22
* [py-torchfile] created template * [py-torchfile] set python versions * [py-torchfile] depends on py-numpy * [py-torchfile] fixed url format * [py-torchfile] added homepage and description. removed fixmes * [py-torchfile] fixed url format
2020-10-22Add scratch module roots to test configuration (#19477)Massimiliano Culpo4-82/+23
fixes #19476 Module file content is written to file in a temporary location and read back to be analyzed by unit tests. The approach to patch "open" and write to a StringIO in memory has been abandoned, since over time other operations insisting on the filesystem have been added to the module file generator.
2020-10-22[py-pyarrow] cuda and orc support (#19445)Jen Herting1-0/+6
* [py-pyarrow] telling setup.py that we want cuda support * [py-pyarrow] added orc variant * [py-pyarrow] passing the orc variant down the line * [py-pyarrow] added variant description
2020-10-22Arrow: add orc support (#19442)Jen Herting1-0/+17
* [arrow] added orc support variant * [arrow] depends on orc * [arrow] added explicit disable of features for variants
2020-10-22modified:var/spack/repos/builtin/packages/ppopen-appl-amr-fdm/package.py ↵daichi-nishi1-4/+5
(#19459)
2020-10-22modified : var/spack/repos/builtin/packages/ppopen-appl-bem/package.py (#19460)daichi-nishi1-2/+2
2020-10-22ppopen-appl-dem-util:change download site to github. (#19461)daichi-nishi1-3/+5
* modified:var/spack/repos/builtin/packages/ppopen-appl-dem-util/package.py * modified:var/spack/repos/builtin/packages/ppopen-appl-dem-util/package.py:deleted whitespace
2020-10-22Add opencl-headers and use ocl-icd as OpenCL provider (#19463)lorddavidiii4-0/+96
* ocl-icd: fix build problems * New package: opencl-c-headers * New package: opencl-clhpp * New bundled package: opencl-headers - bundle C and C++ header files * ocl-icd: Add +headers variant to use this as opencl provider * ocl-icd: add new upstream release 2.2.13 * ocl-icd: add asciidoc-py3 and xmlto dependency needed for manpage generation * ocl-icd and opencl-headers provides OpenCL 3.0 - also add more explicit version providing for older ocl-icd versions * opencl-headers: add maximum of supported opencl versions for all versions * opencl-headers: there aren't final releases with OpenCL 3.0
2020-10-22modified:var/spack/repos/builtin/packages/ppopen-appl-fdm-at/package.py (#19464)daichi-nishi1-3/+2
2020-10-22Restrict Python version for Strelka to Python 2. (#19466)dunatotatos1-1/+1
Fix #19465
2020-10-22New Package: py-fastrlock (#19467)Jen Herting1-0/+24
* [py-fastrlock] created template * [py-fastrlock] added dependencies and setting --with-cython * [py-fastrlock] added homepage and description. removed fixmes
2020-10-22hercules (#19434)Andrew W Elble1-0/+22
2020-10-22Add new package: py-cantoolz (#18812)darmac1-0/+26
* Add new package: py-cantoolz * refine depends
2020-10-22New package: orc (#19441)Jen Herting2-0/+242
* [orc] created template * [orc] depends on maven * [orc] building with -fPIC * [orc] fixed name of c flags option * [orc] depends on openssl * [orc] added dependencies and disableing installing vendored libs * [orc] disabling hdfs * [orc] depending on specific versions of dependencies * [orc] no building of third party libs * [orc] helping cmake find the dependencies * [orc] disabling features that would require static protobuf libraries * [orc] dependency versions are ranges * [orc] added homepage and description. removed fixmes * [orc] flake8 * [orc] switching to compilier indipendent code
2020-10-22[treelite] added python and protobuf support (#19444)Jen Herting1-1/+45
* [treelite] added protobuf variant * [treelite] adding python support * [treelite] disable protobuf by default * [treelite] flake8 * [treelite] reordered phases
2020-10-22transrate: new package at 1.0.3 (#19295)Justin S1-0/+24
* transrate: new package at 1.0.3 * transrate: add macOS binary distribution * transrate: fix platform switching
2020-10-22py-tomlkit: new package at 0.7.0 (#19450)Justin S1-0/+22
* py-tomlkit: new package at 0.7.0 * py-tomlkit: add dependencies
2020-10-22New package: py-labours (#19433)Andrew W Elble1-0/+31
* py-labours * fix dep version constraints
2020-10-22py-seriate (#19432)Andrew W Elble1-0/+26
2020-10-22New package: py-or-tools (#19431)Andrew W Elble1-0/+52
* py-or-tools * python is, of course, a runtime dep * more dependency fixes, use extends. * protobuf is >= 3.12.2
2020-10-22r-sf: fix build error (#19386)darmac1-1/+1
* r-sf: fix build error * Update var/spack/repos/builtin/packages/r-sf/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-10-22Add herwig3 (#19406)iarspider1-0/+97
* Add recipe for qgraf * Revert "Add recipe for qgraf" This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd. * Add herwig3 * Prepare fixes based on MR (needs checking) * Set all dependencies (except python) as build-type * OK now * Move import to the top of the file * Fix dependency name Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
2020-10-22cbc (#19419)Andrew W Elble1-0/+23
2020-10-22cgl (#19420)Andrew W Elble1-0/+26
2020-10-21New package: py-lifelines (#19429)Andrew W Elble1-0/+33
* py-lifelines * also carry the newer version of lifelines * 0.25.5 needs python >= 3.6
2020-10-21clp (#19418)Andrew W Elble1-1/+6
2020-10-21Add Gosam (#19401)iarspider1-0/+26
* Add recipe for qgraf * Revert "Add recipe for qgraf" This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd. * Add gosam * Flake-8 * Flake-8 * Delete gosam-1.2.4.patch Remove patch * Remove patch from recipe * Changes from MR Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
2020-10-21tests: increase tolerance of termios tests (#19456)Todd Gamblin1-2/+6
Synchronization on GitHub macOS runners seems to be very slow, and frequently the foreground/background tests fail due to the race this causes. This increases the tolerance for slowness a bit more, to allow up to 4 spurious output lines in the tests. This should hopefully result in no more false negatives on these tests for macOS on GitHub.
2020-10-21Added _poll_lock exception tests (#19446)Tamara Dahlgren1-0/+26
2020-10-21new package: py-tinyarray (#19454)Tom Payerle1-0/+29
2020-10-21New package: py-autograd-gamma (#19426)Andrew W Elble1-0/+18
* py-autograd-gamma * missing dependencies
2020-10-21Add Njet (#19399)iarspider1-0/+23
* Add recipe for qgraf * Revert "Add recipe for qgraf" This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd. * Add NJet * flake-8 * Flake-8 Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
2020-10-21Add qgraf (#19404)iarspider2-1/+25
* Add recipe for qgraf * Revert "Add recipe for qgraf" This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd. * Add qgraf * Update package.py Changes from review * Changes from MR * Fix for URLs containing @ symbol Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-10-21osi (#19424)Andrew W Elble1-0/+27
2020-10-21shell support: make `which spack` output intelligible (#19256)Todd Gamblin1-6/+17
Zsh and newer versions of bash have a builtin `which` function that will show you if a command is actually an alias or a function. For functions, the entire function is printed, and our `spack()` function is quite long. Instead of printing out all that, make the `spack()` function a wrapper around `_spack_shell_wrapper()`, and include some no-ops in the definition so that users can see where it was created and where Spack is installed. Here's what the new output looks like in zsh: ```console $ which spack spack () { : this is a shell function from: /Users/gamblin2/src/spack/share/spack/setup-env.sh : the real spack script is here: /Users/gamblin2/src/spack/bin/spack _spack "$@" return $? } ``` Note that `:` is a no-op in Bourne shell; it just discards anything after it on the line. We use it here to embed paths in the function definition (as comments are stripped).
2020-10-21unzip: fix build for XCode 12 on macosx (#19453)Todd Gamblin1-2/+9
- [x] `build_targets` should use `macosx` on macOS, `generic` on other systems - [x] enable `LARGE_FILE_SUPPORT` by default
2020-10-21Add Madgraph 2.8.1 (#19400)iarspider4-47/+5
* Add recipe for qgraf * Revert "Add recipe for qgraf" This reverts commit 76783f73867a32b4a96e980e31a433ed3c0037fd. * Update madgraph to 2.8.1 * Changes from MR * Changes from MR Co-authored-by: Ivan Razumov <ivan.razumov@cern.ch>
2020-10-21New package: py-fastdtw (#19427)Andrew W Elble1-0/+21
* py-fastdtw * cython is buildtime dep
2020-10-21Lapackpp package update (#19447)G-Ragghianti2-11/+28
* Updated blaspp package * Modified lapackpp for newest release * Formatting * Updates to lapackpp package for new version * Added dependency on cblas * Removed cblas dependency * updated to lapackpp * Added new version for blaspp and lapackpp * Removed debugging output * Converted version matching logic for for loop
2020-10-21py-drmaa: new package at 0.7.9 (#19451)Justin S1-0/+18
2020-10-21py-sqlalchemy-utils: new package at 0.36.8 (#19449)Justin S1-0/+19
2020-10-21py-jsonref: new package at 0.2 (#19448)Justin S1-0/+17
2020-10-21spla: Add version 1.2.1 (#19436)Simon Frasch1-0/+15
2020-10-21Skip malformed spec strings when searching for externals (#19438)Massimiliano Culpo2-12/+17
fixes #19266 fzf search method has also been updated Co-authored-by: Tom Scogland <tom.scogland@gmail.com>
2020-10-21mpich : add python build-only dependency (#19403)Sajid Ali1-0/+5
* mpich: yaksa configure fix modified: var/spack/repos/builtin/packages/mpich/package.py * typo * python is not needed when building from preconfigured tarballs * add maintainers
2020-10-21New package: py-autograd (#19425)Andrew W Elble1-0/+27
* py-autograd * add missing dependencies
2020-10-21Added FFLAGS for apple-clang:11 (#17935)Lígia Diana Amorim1-0/+3
* Added FFLAGS for apple-clang:11 * Added issue # * Update var/spack/repos/builtin/packages/mpich/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-10-21gromacs: fix SIMD argument for ppc64le (#19435)Massimiliano Culpo1-1/+1
fixes #19414
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