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2019-05-26r-geomorph: new version (#11556)Levi Baber1-1/+2
2019-05-26Add a new version for gnutls. (#11546)健美猞猁1-0/+2
* Update URL and add a new version. * Fix flake8 issues. * Remove newly-added duplicate url_for_version.
2019-05-26py-markdown: new version (#11548)Levi Baber1-1/+5
2019-05-26Add new versions for intel-mkl-dnn. (#11549)健美猞猁1-1/+4
* Add new versions for intel-mkl-dnn. * Remove the last trailing line. * Update url and set 0.19 as preferred.
2019-05-26r-emmli: new package (#11557)Levi Baber1-0/+18
2019-05-26Update GnuPG and associated packages (#11564)Olaf Mersmann4-1/+6
* libassuan: Update to v2.5.3 * gnupg: Update to v2.2.15 * libgpg-error: Update to v1.36 * libgcrypt: Update to v1.8.4
2019-05-26New Package: sl (#11565)Axel Huebl1-0/+25
Add the sl program.
2019-05-26xsdk@0.4.0: update dealii defaults wrt changes in a973ab475 (#11562)Satish Balay1-2/+2
wrt xsdk@develop - ginkgo requires openmp - so disable until we can add openmp dependencies consistantly
2019-05-24mbedtls: add pic variant (#11558)Mark W. Krentel1-1/+15
Add variant 'pic' for including in shared libraries. Add build dependency on perl. Compiling mbedtls runs several perl scripts. Add versions 2.7.10 and 2.16.1, the heads of the two main stable branches.
2019-05-24Update libensemble to v0.5.0 (#11544)Stephen Hudson1-3/+5
2019-05-24Add nettle@3.4.1 (#11547)健美猞猁1-0/+1
2019-05-24build env: simplify handling of parallel jobs (#11524)Massimiliano Culpo2-2/+7
This PR implements several refactors requested in #11373, specifically: - Config scopes are used to handle builtin defaults, command line overrides and package overrides (`parallel=False`) - `Package.make_jobs` attribute has been removed; `make_jobs` remains as a module-scope variable in the build environment. - The use of the argument `-j` has been rationalized across commands - move '-j'/'--jobs' argument into `spack.cmd.common.arguments` - Add unit tests to check that setting parallel jobs works as expected - add new test to ensure that build job setting is isolated to each build - Fix packages that used `Package.make_jobs` (i.e. `bazel`)
2019-05-24Updated lmod (to version 8.1.5) and associated dependencies (#11552)Massimiliano Culpo3-8/+22
Lmod version 8.1.5 Lua version 5.3.5 Lua Filesystem 1.7.0.2 Turned tcl to a link dependency so that Lmod's configure can find it.
2019-05-23Add latest version of py-cython (#11494)Adam J. Stewart1-5/+21
* Add latest version of py-cython * Fix cython unit tests
2019-05-23LIBXSMM 1.12.1 (#11538)Hans Pabst1-26/+27
2019-05-22Add cppcheck version 1.87. (#11536)Jon Rood1-0/+1
2019-05-22Add CMake 3.14.3 and 3.14.4. (#11534)Jon Rood1-0/+2
2019-05-22package vtk - improve gl handling (#11530)Omar Padron1-21/+20
* package vtk - improve gl handling * package vtk - minor cleanup
2019-05-22Fix typo in openmpi@2.1.6 libmpi.so comment. (#11529)Dustin Wheeler1-1/+1
2019-05-21dealii: add 9.1.0 (#11527)Denis Davydov1-2/+3
2019-05-21py-htseq: new version (#11525)Levi Baber1-0/+1
2019-05-21Add version (#10594)Elizabeth Fischer1-0/+1
2019-05-21Update scorep and friends (#11523)Michael Kuhn4-1/+5
2019-05-21dealii: fix symengine constraints (#11517)Denis Davydov1-7/+8
disable symengine constraints due to limitations of Spack
2019-05-20mesa: Patch missing gl symbols in OSMesa (#11518)Chuck Atkins2-0/+49
2019-05-20OpenMPI: update behavior for fabrics/schedulers=auto (#11431)Glenn Johnson1-10/+19
* When fabrics=auto or schedulers=auto, the intent is to defer to the OpenMPI configure and let it determine and use what it finds available on the system. The current behavior for 'with_or_without' in the case of 'auto' explicitly disables all possible values. This updates the logic to call 'with_or_without' only when the value of fabrics/schedulers is not 'auto'. * To allow explicitly disabling all fabrics/schedulers, each of these variants has added support for 'none' (which is also the default value). * Add a conflict for the loadleveler scheduler for openmpi-3 and above as it is no longer a valid configure option.
2019-05-20Update optional-lite and span-lite to use CMakePackage (#11407)Andrew Gaspar3-3/+70
* Update optional-lite and span-lite to use CMakePackage These packages only have CMake installs on their most recent versions. Therefore, we overload all of the CMake stages to fallback to the old versions (no-op for most, copytree for install), and use CMakePackage on the new versions. * Add new string-view-lite version with CMake install support * Only override phases for old versions of *-lite packages
2019-05-19Add py-kmodes package (#11497)Adam J. Stewart1-0/+25
2019-05-19Add latest version of joblib (#11495)Adam J. Stewart1-4/+7
2019-05-19Add latest version of setuptools (#11493)Adam J. Stewart1-1/+2
2019-05-18Update Umpire package with new versions (#11441)David Beckingsale1-1/+17
* Update Umpire package with new versions * Fix version ordering
2019-05-18trilinos: add variant to disable chaco from seacas (#11482)Denis Davydov2-2/+23
* trilinos: add variant to disable chaco from seacas keep it OFF by default due to the presence of the global symbol "divide" that can lead to symbol clash with other libraries, for example see https://github.com/dealii/dealii/issues/8170#issuecomment-492700787 * dealii: add conflict statement for adol-c and Trilinos SEACAS Chaco
2019-05-18dyninst: rework the cmake args for version 10.1 and later (#11484)Mark W. Krentel1-22/+41
* dyninst: rework the cmake args for version 10.1 and later Add a separate when() case for the cmake args for Dyninst 10.1.0 and later. The prereq args have changed enough that this makes things easier going forward. (My previous commit 26b9369c was inaccurate and temporary.) Dyninst 10.1.0 accepts boost 1.70, but earlier dyninst are restricted to <= 1.69 (not worth back porting every boost change). Change all the dyninst versions to 3 digits for clarity and consistency. * Add version 10.1.0.
2019-05-18QMCPACK Update May 2019 (#11492)Nichols A. Romero1-7/+8
* Add QMCPACK 3.7.0 * SOA is now the default. * Add QMCPACK converter based on QE 6.4
2019-05-18Add conflicts in deal.II package between SymEngine and Trilinos variants ↵Jean-Paul Pelteret1-0/+7
(#11499)
2019-05-18intel-tbb: fix patch for old compilers (#11371)Owen Solberg2-5/+42
* added patch for intel-tbb@2019.1: with old compilers * sparately specify when @:2018 and @2019 the reason we can't say @:2019 is that would include @2019.1 where the patch doesn't work. * should be possible to list when constraint as @:2019 According to my reading of ["Version ranges" in the Spack docs](https://spack.readthedocs.io/en/latest/packaging_guide.html#version-ranges), this should apply to up to `2019` but not `2019.1:` * @:2019.0 appears to be necessary to specify 2019 but not 2019.1 * specifying 2019.1 2019.2 2019.3 2019.4 separately and explcitly * flake8 fixes for long lines. * add comments to explain why so many different patch directives * remove blank like for flake8 * revert spec %gcc@4.8.0:4.99999 -> %gcc@4.8.0:
2019-05-17r-popvar: new package at 1.2.1 (#11490)Justin S1-0/+22
2019-05-17smof: new package at 2.13.1 (#11502)Justin S1-0/+29
2019-05-17r-bglr: new package at 1.0.8 (#11489)Justin S1-0/+19
2019-05-17r-rrblup: new package at 4.6 (#11488)Justin S1-0/+18
2019-05-17r-qtl: new package at 1.44-9 (#11487)Justin S1-0/+18
2019-05-17py-metasv: new package at 0.5.4 (#11476)Justin S1-0/+21
2019-05-17py-pybedtools: new package at 0.6.9 (#11475)Justin S1-0/+23
* py-pybedtools: new package at 0.6.9 * py-pybedtools: add bedtools2 dep
2019-05-17repeatmodeler: new package at 1.0.11 (#11472)Justin S1-0/+66
2019-05-17added branch multisplice to the parsplice package (#11504)Sriram Swaminarayan1-2/+7
2019-05-17gasnet: 2019.3.0 (#11503)Christoph Junghans1-0/+10
2019-05-17parsplice: needs LAMMPS_EXCEPTIONS (#11500)Christoph Junghans2-0/+5
2019-05-17Add version 2.5.1-alpha1 of MAGMA (#11486)Piotr Luszczek1-2/+3
2019-05-17cmake: default to +ownlibs to improve build times (#11483)Todd Gamblin1-2/+6
- CMake is built *very* frequently, and the number of dependencies it has accumulated can take a very long time on some systems. - Use +ownlibs by default to avoid the build overhead. This won't interfere with other packages by introducing conflicting libraries, as CMake is nearly always a build dependency.
2019-05-16OpenSpeedShop/CBTF package updates and fixes (#11470)Jim Galarowicz8-13/+18
This avoids using Boost 1.70.0, fixes library access in OpenSpeedShop packages, adds new versions, and updates QT dependency constraints in CBTF and OpenSpeedShop packages - Constrain Boost dependency to 1.69.0 or earlier to avoid issues with 1.70.0 for Open|SpeedShop and CBTF packages - Update DYNINSTAPI_RT_LIB environment variable to use single library from "find_libraries" (which returns a list) in OpenSpeedShop packages Fixes #11443 - Add version 1.9.3 for CBTF Argo Navis, CBTF Krell, CBTF LANL, and CBTF packages - Add version 2.4.1 for OpenSpeedShop Utils and OpenSpeedShop packages - Update QT dependency to 5.10.0 or greater for QtGraph and CBTF Argo Navis packages