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2020-02-20Add extra version of vc (#15119)iarspider1-0/+7
* Add extra version of vc * Update package.py * Update package.py * Update var/spack/repos/builtin/packages/vc/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-20Mark binutils-related conflicts (#15075)Seth R. Johnson3-9/+23
* Mark conflicts with binutils on darwin * Explicitly require binutils bootstrapping and mark conflict with nvptx * Disable gold variant by default on darwin
2020-02-20adding package igv (#15096)snehring1-0/+36
* igv: adding package igv * removing some remaining initial boilerplate * changing path construction to be more correct * adding in type for java dep, also forgot about prefix.bin etc
2020-02-20Add extra version of py-werkzeug (#15115)iarspider1-0/+1
2020-02-20Add extra version of py-wrapt (#15117)iarspider1-0/+1
2020-02-20Add extra version of py-zipp (#15118)iarspider1-1/+2
* Add extra version of py-zipp * Update package.py
2020-02-20Add extra version of xrootd (#15124)iarspider1-14/+15
2020-02-20Add extra version of py-setuptools (#15106)iarspider1-0/+1
2020-02-20Add extra version of vecgeom (#15121)iarspider1-1/+2
2020-02-20Add extra version of xapian-core (#15122)iarspider1-1/+2
2020-02-20Add extra version of xerces-c (#15123)iarspider1-0/+1
2020-02-20Add extra version of prometheus-client (#15067)iarspider1-0/+4
* Add extra version of py-prometheus-client * Update package.py * Update package.py
2020-02-20Add extra version of py-py4j (#15065)iarspider1-0/+2
* Add extra version of py-py4j * Add test dependencies * Update package.py
2020-02-20Add extra version of py-sip (#15108)iarspider1-0/+1
2020-02-20Add extra version of py-qtconsole (#15083)iarspider1-0/+3
* Add extra version of py-qtconsole * Update package.py * Update package.py
2020-02-20Add extra version of py-pyshp (#15072)iarspider1-0/+2
* Add extra version of py-pyshp * Update package.py
2020-02-20Package for IRPF90 (#15076)Anthony Scemama1-0/+23
* Added IRPF90 package * PEP8 * SHA256 * Update var/spack/repos/builtin/packages/py-irpf90/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-19Add extra version of py-multiprocess (#15043)iarspider1-0/+12
* Add extra version of py-multiprocess * Update dependency version * Add url_for_version * Flake-8 * Update package.py
2020-02-19Add extra version of py-packaging (#15047)iarspider1-1/+2
* Add extra version of py-packaging * Update py-packaging `attrs` dependency was only in 19.1
2020-02-19Add extra version of py-psutil (#15063)iarspider1-0/+1
* Add extra version of py-psutil * Add optional dependency on enum34 * Update package.py * Remove unused enum variant
2020-02-19Add extra version of py-ptyprocess (#15064)iarspider1-0/+1
2020-02-19Add extra version of py-pylint (#15068)iarspider1-6/+8
* Add extra version of py-pylint * Update dependencies
2020-02-19libfabric: Always install fabtests (#15081)Dr. Christian Tacke1-6/+25
libfabric used to install fabtests only when installed using --test. fabtests has tools that are useful on a running system, so they should be installed always. * Rewrote the build/install part to always install fabtests alongside libfabric. * Updated a few fabtests resources. * Updated the test related stuff. Works for most versions now. * Include tcp and udp fabrics so that the test suite works.
2020-02-19Add extra version of py-python-gitlab (#15074)iarspider1-4/+6
* Add extra version of py-python-gitlab * Update dependency version
2020-02-19Add extra version of py-rsa (#15084)iarspider1-0/+1
2020-02-19Add extra version of py-scandir (#15085)iarspider1-2/+3
2020-02-19hpctoolkit: adjust libunwind dependency (#15099)Mark W. Krentel1-7/+3
Change hpctoolkit's dependency on libunwind from 2018.10.12 to 1.4:. In libunwind, 2018.10.12 is going away in favor of 1.4-rc1 (they're nearly identical commits). Remove the 'gpu' version. This was a temporary branch that is now folded into master.
2020-02-19py-notebook: make py-setuptools a run dependency (#15095)Glenn Johnson1-1/+1
* py-notebook: make py-setuptools a run dependency The py-setuptools dependency in py-notebook needs to be a run dependency. The following message is received if it is not in the run environment. Traceback (most recent call last): File "/opt/ssoft/apps/2020.1/linu x-centos7-sandybridge/gcc-9.2.0/py-notebook-6.0.1-6usbn4c/bin/jupyter-notebook", line 6, in <module> from pkg_resources import load_entry_point Module NotFoundError: No module named 'pkg_resources' * Remove extraneous whitespace
2020-02-19Add extra version of py-scikit-learn (#15087)iarspider1-0/+1
2020-02-19Add extra version of py-prompt-toolkit (#15062)iarspider1-2/+3
2020-02-19Add extra version of py-pickleshare (#15059)iarspider1-1/+4
* Add extra version of py-pickleshare * Fix dependencies * Flake-8
2020-02-19Add extra version of py-pillow (#15060)iarspider1-0/+1
2020-02-19Add extra version of py-pip (#15061)iarspider1-0/+1
2020-02-19Add extra version of py-pyasn1 (#15066)iarspider1-0/+1
2020-02-19Add extra version of py-pyparsing (#15069)iarspider1-0/+1
2020-02-19Add extra version of py-pyproj (#15070)iarspider1-0/+1
2020-02-19Add extra version of py-pyqt5 (#15071)iarspider1-0/+1
2020-02-19Add extra version of py-pytest (#15073)iarspider1-0/+1
2020-02-19Add extra version of py-pytz (#15077)iarspider1-0/+1
2020-02-19Add extra version of py-pyyaml (#15078)iarspider1-0/+1
2020-02-19Add extra version of py-jedi (#14990)iarspider2-2/+33
* Add extra version of py-jedi * Update package.py * Update package.py Correct dependency types * Update var/spack/repos/builtin/packages/py-jedi/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-jedi/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-jedi/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Add py-parso package * Remove boilerplate from py-parso * Flake-8 Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-19Add extra version of py-isort (#14988)iarspider1-1/+8
* Add extra version of py-isort * Update package.py * Update package.py * Update var/spack/repos/builtin/packages/py-isort/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-isort/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-isort/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-isort/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-19Add extra version of py-dask; add new variant and dependencies (#14973)iarspider4-0/+84
* Add extra version of py-dask * Update package.py * Add extra dependencies for py-dask+distributed * Update package.py * Update var/spack/repos/builtin/packages/py-heapdict/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-heapdict/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-distributed/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-distributed/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py * Update package.py * Update package.py * Update package.py * Update var/spack/repos/builtin/packages/py-distributed/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-distributed/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py * Update var/spack/repos/builtin/packages/py-distributed/package.py Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update package.py * Flake-8 * Add patch step for py-distributed Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-02-19Add extra version of py-pyzmq (#15080)iarspider1-0/+1
2020-02-19Fix gcc 8.3 build on macOS 10.14 (#15089)Seth R. Johnson1-0/+6
2020-02-19Distributed builds (#13100)Tamara Dahlgren81-238/+34
Fixes #9394 Closes #13217. ## Background Spack provides the ability to enable/disable parallel builds through two options: package `parallel` and configuration `build_jobs`. This PR changes the algorithm to allow multiple, simultaneous processes to coordinate the installation of the same spec (and specs with overlapping dependencies.). The `parallel` (boolean) property sets the default for its package though the value can be overridden in the `install` method. Spack's current parallel builds are limited to build tools supporting `jobs` arguments (e.g., `Makefiles`). The number of jobs actually used is calculated as`min(config:build_jobs, # cores, 16)`, which can be overridden in the package or on the command line (i.e., `spack install -j <# jobs>`). This PR adds support for distributed (single- and multi-node) parallel builds. The goals of this work include improving the efficiency of installing packages with many dependencies and reducing the repetition associated with concurrent installations of (dependency) packages. ## Approach ### File System Locks Coordination between concurrent installs of overlapping packages to a Spack instance is accomplished through bottom-up dependency DAG processing and file system locks. The runs can be a combination of interactive and batch processes affecting the same file system. Exclusive prefix locks are required to install a package while shared prefix locks are required to check if the package is installed. Failures are communicated through a separate exclusive prefix failure lock, for concurrent processes, combined with a persistent store, for separate, related build processes. The resulting file contains the failing spec to facilitate manual debugging. ### Priority Queue Management of dependency builds changed from reliance on recursion to use of a priority queue where the priority of a spec is based on the number of its remaining uninstalled dependencies. Using a queue required a change to dependency build exception handling with the most visible issue being that the `install` method *must* install something in the prefix. Consequently, packages can no longer get away with an install method consisting of `pass`, for example. ## Caveats - This still only parallelizes a single-rooted build. Multi-rooted installs (e.g., for environments) are TBD in a future PR. Tasks: - [x] Adjust package lock timeout to correspond to value used in the demo - [x] Adjust database lock timeout to reduce contention on startup of concurrent `spack install <spec>` calls - [x] Replace (test) package's `install: pass` methods with file creation since post-install `sanity_check_prefix` will otherwise error out with `Install failed .. Nothing was installed!` - [x] Resolve remaining existing test failures - [x] Respond to alalazo's initial feedback - [x] Remove `bin/demo-locks.py` - [x] Add new tests to address new coverage issues - [x] Replace built-in package's `def install(..): pass` to "install" something (i.e., only `apple-libunwind`) - [x] Increase code coverage
2020-02-18Add latest 3.9.x releases QMCPACK (#15056)Nichols A. Romero1-0/+3
2020-02-18octave: enable 64-bit BLAS builds. (#15035)Kai Torben Ohlhus1-0/+6
* octave: enable 64-bit BLAS builds. Perform necessary actions [as described in the manual](https://octave.org/doc/v5.2.0/Compiling-Octave-with-64_002dbit-Indexing.html). * Update package.py
2020-02-18modern-wheel: add virtual destructor to BaseMultiParms class (#14899)noguchi-k2-0/+21
* modern-wheel: add virtual destructor * modern-wheel: add maintainers
2020-02-18ENH: add catch2 CMake install (#15008)Tyler Reddy2-16/+21
* ENH: add catch2 CMake install * add a variant allowing catch2 to be installed via CMake, which is useful for generating a .cmake config file for consumption by other projects * Catch2: Simplify Package - CMake install is also single-header for new releases - testing triggered by Spack's test mechanism - default to CMake build (better than simple copy, which is just for old releases to be installed) * Catch: Remove Variant We can control all installs with CMake to be quick and complete. Old versions prior to 1.7.0 will be manually installed, as the `make install` target is missing in those. Releases 1.7.0-1.9.3 do not expose control over test builds. * openPMD-api: Catch Lost single_header ... variant is gone :) Co-authored-by: Axel Huebl <axel.huebl@plasma.ninja>
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