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2020-06-09lib/spack : expand spack config vars in 'include' section (#16210)Joseph Ciurej2-2/+33
* Changed the 'include' config section to use 'substitute_path_variables' to allow for Spack config variables to be used (e.g. $spack). * Fixed a bug with 'include' section path expansion and added a test case for 'include' paths with embedded config variables.
2020-06-09teach spack how to build pmix from git (#16973)Rob Latham1-3/+29
* teach spack how to build pmix from git * add variant for new REST feature * reorder package to match guidance
2020-06-09Add new package: wcs (#16958)Robert Blake2-1/+37
* Adding a package for wcs. * Turning on sbml for wcs. * The cpp flag needs to be available for wcs. * Wcs needs SBML to properly define the namespace. * Flake8 fixes. * Fixing the help string with the description. * Changing cpp to use the new variant syntax. * Fixing flake8 errors. * Forgot to delete one last fixme comment. * Spack "develop" needs to link to repo "devel" Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> Co-authored-by: Robert Blake <rob.c.blake.3@gmail.com> Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-09libffi: add patch for building with clang on power (#16855)Joseph Ciurej2-0/+26
* libffi: add patch for building with '%clang target=power*' * libffi: fix version of clang/power patch
2020-06-09Add new package: py-workload-automationdarmac1-0/+38
2020-06-09New package: py-pygelf (#17004)victorusu1-0/+22
2020-06-09jansson: add versions 2.10 to 2.13.1 (#17011)Rob Latham1-0/+5
2020-06-09Testing: create mock executable fixture (#16999)Massimiliano Culpo2-9/+19
2020-06-09SpecList: fix recursion for references (#16897)Greg Becker2-29/+59
* SpecList: fix and refactor variable expansion
2020-06-09[util-linux] disabling systemd (#17008)Jen Herting1-0/+1
If systemd support is enabled, install will attempt to modify files in system systemd directories.
2020-06-09Set the BOOST_ROOT environment variable when library is loaded (#16818)Nathan1-0/+3
* Adding BOOST_ROOT env variable * Update var/spack/repos/builtin/packages/boost/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-09suite-sparse: build libraries without running demos (#17007)Massimiliano Culpo1-1/+1
fixes #16638
2020-06-08Update miniconda3@4.8.2 (#17003)oracleLee1-0/+1
* Update package.py * Update package.py * Update package.py * Update package.py * Update package.py * Update package.py
2020-06-08Cray: fix Blue Waters support and user-built MPIs on Cray (#16593)Adam J. Stewart4-17/+31
* Cray: fix Blue Waters support * pkg-config env vars needed on Blue Waters * cray platform: fix support for user-build MPI on cray machines * reintroduce cray environment cleaning behind cnl version guard * cray platform: fix support for user-build MPI on cray machines Co-authored-by: Gregory <becker33@llnl.gov>
2020-06-08HELICS: add version 2.5.1 (#17014)Ryan Mast1-0/+1
2020-06-08rt-tests: fix build error (#16998)darmac1-2/+4
This is a makefile package and needs to invoke make.
2020-06-08Add new package: py-devlib (#16982)darmac1-0/+34
* Add new package: py-devlib * Update var/spack/repos/builtin/packages/py-devlib/package.py Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * add depends Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-08Add Package HSF-CMakeTools (#16951)vvolkl1-0/+26
* [hsf-cmaketools] add package * fix formatting * Apply suggestions from code review Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com> * [hsf-cmaketools] remove cmake_prefix_path which is set already by spack Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-08R: url-version custom, release 4 (#16962)Amjad Kotobi1-1/+9
* R: url-version custom, release 4 * r: pcre condition
2020-06-08Add py-storm@0.23 and update URL (#16991)iarspider1-2/+6
* Add py-storm@0.23 and update URL * Update package.py
2020-06-08ltr-retriever: new package at v2.8.7 (#16832)Justin S1-0/+45
Co-authored-by: Adam J. Stewart <ajstewart426@gmail.com>
2020-06-08view remove: directly check whether specs own files before removing from ↵Greg Becker3-5/+72
view (#16955) Bugfix for hardlinks and copies
2020-06-08hpcviewer, ibm-java: updates versions (#16987)Mark W. Krentel2-0/+8
hpcviewer: added v2020.05. ibm-java: added v8.0.6.10.
2020-06-08py-ipykernel: added v5.1.1 (#16988)iarspider1-0/+1
2020-06-07boost: Don't use pre-compiled headers for Fujitsu compiler (#16914)Toyohisa Kameyama1-1/+1
* boost: Dopn't use pre compile header. * move %fj.
2020-06-07rose: Add build dependencies for flex and bison (#16981)John Jolly1-0/+2
2020-06-07py-gast: add version 0.3.3 (#16945)Sinan1-0/+2
* py-gast: add version 0.3.3 * add python version constraints Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-06Add rpy2@3.0.4 (#16924)iarspider1-5/+12
* Add rpy2@3.0.4 * Style fixes * Update package.py * Proper Python version requirement
2020-06-06ffr: fix mpi programs to use mpi compiler wrapper. (#16948)Toyohisa Kameyama1-3/+12
2020-06-06[prmon] add package (#16949)vvolkl1-0/+27
2020-06-06mongo-c-driver: Add 1.16.2 (#16956)Michael Kuhn2-10/+116
This also updates libbson to the corresponding version and adds a few missing older versions.
2020-06-06added CTRE package (#16964)Matthieu Dorier1-0/+25
2020-06-06gcc: Fix error 'size of array is negative' (#16969)John Jolly4-3/+183
gcc 9.3.0 and glibc 2.31 (found in the base install of Ubuntu 20.04) cause the gcc package to error during build with the error: "size of array 'assertion_failed__####' is negative" Previous to this fix, the error was resolved for v8.1.0 <= gcc <= v9.2.0 via two patches. This fix backports those patches for v5.3.0 <= gcc <= v7.4.0 Potentially these patches need to be backported to versions of gcc before v5.3.0, but other compile issues need to be resolved for earlier versions of gcc first. Fixes #16968
2020-06-06intel-tbb: Fix for #16938 add custom libs method (#16972)Tom Payerle1-6/+12
* intel-tbb: Fix for #16938 add custom libs method Override the libs method to look for libraries of form libtbb* (instead of inherited which looks for libintel-tbb*) * Fixing pre-existing flake8 issues
2020-06-06Add new package: py-louie (#16983)darmac1-0/+21
2020-06-06Add new package: lxc (#16984)darmac1-0/+33
2020-06-06py-mysqlclient: relax dependency constraint, add new versions (#16985)Sinan1-4/+5
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-06ensure xla is turned off (#16974)Sinan1-0/+7
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-06py-astunparse: add version 1.6.3 (#16946)Sinan1-0/+1
Co-authored-by: Sinan81 <sbulut@3vgeomatics.com>
2020-06-06protobuf: support aarch64 @2.5.0 (#16862)darmac2-3/+149
* protobuf: support aarch64 @2.5.0 * refine cmake args * fix patch name
2020-06-06Update package for MVAPICH2 2.3.4 release (#16960)Nithin Senthil Kumar1-1/+2
Co-authored-by: senthilkumar.16 <senthilkumar.16@nowlab.cse.ohio-state.edu>
2020-06-06iegenlib: add build dependencies for automake and libtool (#16980)John Jolly1-2/+4
2020-06-05py-flake8: add version 2.8.2 (#16959)Andrew Gaspar3-6/+14
* py-flake8: add version 3.8.2 * This version depends on different versions of py-pycodestyle and py-pyflakes * When built for python@:3.7, this depends on the py-importlib-metadata backport library * py-pycodestyle: add version 2.6.0 * py-pyflakes: add version 2.2.0
2020-06-05xrootd: add version 4.12.1 (#16966)Amjad Kotobi1-0/+1
2020-06-05New package: py-asteval (#16976)Sinan1-0/+19
2020-06-05pkgconf: Add 1.7.3Michael Kuhn1-0/+1
2020-06-05cajita: got merged in cabana (#16971)Christoph Junghans2-30/+0
2020-06-05cmake: add linker option for VerifyFortranC when using Fujitsu compiler. ↵Tomoki, Karatsu2-0/+14
(#16963)
2020-06-05cmake: modify FindMPI.cmake to treat Fujitsu MPI correctly (#16864)Tomoki, Karatsu2-9/+6
2020-06-05suite-sparse: change the condition to add C11 flag. (#16859)Tomoki, Karatsu1-1/+1
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