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2019-04-17[WIP] CEED 2.0 (#10903)Veselin Dobrev18-144/+926
* Initial commit for v2.0 of the CEED software suite. * Update Nek packages and gslib * Help spack concretize the hypre version for ceed-2.0. * Fix nekcem install error * Add support for gfortran v8 in nek5000 and nekcem. * Split Nek5000 into Nek5000 and Nektools * Get Nektools to build fine in Theta * Fix travis failure: remove unused 'import numbers' from nek5000. * Check for gfortran if it is wrapped * Tweak the detection of gfortran in nek5000. * Fix Nek packages to add -std=legacy when FC=gcc * spack install ceed~petsc works fine on Theta * Fix flake8 errors * Fix more flake8 tests * Fix an import issue * Tweak the suite-sparse package to avoid interaction with existing system installations of suite-sparse. * petsc: update superlu-dist dependency * Updates in the packages: occa, libceed, and ceed. * In the libceed package, explicitly tell nvcc which host compiler to use. * Fix python formatting. * Simplify the test for gfortran in nek* packages. * ceed: 2.0 uses petsc@3.11.0 * hpgmg-0.4; use from ceed@2.0.0 * Update the hypre dependency for ceed 2.0. * Disable the superlu-dist dependency (through hypre) when using a +quickbuild of ceed 2.0. * petsc-3.11.0: add xlf fix * nekcem: has a build dependency on Python 2.7+ * hpgmg: better setting of compiler options and use python for configure * libceed: use v0.4 tag * libceed: fix 0.4 release oops (pkgconfig version) * Add a patch for magma-2.5.0 that brings it up the current 'master'. * In the mfem package, install the examples, miniapps, and data under $prefix/share/mfem. * In the magma package, apply a patch to v2.5.0 that disables magma_sparse - for testing purposes. * In the magma package, link the 'magma' library with the 'nvToolsExt' library. * In the magma package, update the 'magma-2.5.0.patch' with the latest commits from the magma source repository. Also, remove the library 'nvToolsExt' from the 'magma-2.5.0-cmake.patch' - now it is not needed. * In the magma package, disable OpenMP when using v2.5.0 with the IBM XL compiler. Please enter the commit message for your changes. Lines starting * In the mfem package, add version for the 'laghos-v2.0' tag; also, prefix the versions `laghos-v*` with their respective development version numbers -- this way they are properly ordered within spack relative to the official numbered versions. * petsc: add version 3.11.1 (#11179) (cherry picked from commit 1eab6e3c865836d209db4621d0cd44bc8663656b) * ceed-2.0: use petsc-3.11.1 * this-is-so-dumb.f -> empty.f
2019-04-17mpifileutils v0.9.1 (#11216)Elsa Gonsiorowski, PhD1-0/+1
* mpifileutils v0.9.1 * mpifileutils v0.9.1 for realz
2019-04-17sublime-text: Miscellaneous improvements (#11154)Michael Kuhn1-4/+10
- Add 3.2.1 - Reformat versions to include proper upstream version tags - Add gtk dependency - Add prefix to PATH so sublime_text can be found
2019-04-17ruby: Install certificate for +openssl only (#11184)Oliver Breitwieser1-10/+11
If specifying ~openssl, the post-install step will still try to install the non-existent certificate, leading to an IOError.
2019-04-17gromacs: added 2019 patch releases (#11211)Christoph Junghans1-0/+2
2019-04-17strumpack@3.1.1: add patch for Intel-19 build failure on cori (#11204)Satish Balay2-0/+48
Ref: https://github.com/spack/spack/issues/11202
2019-04-17astral: add 5.6.1 (#11195)Justin S1-0/+2
2019-04-17Add llvm 8.0.0 (#11197)sknigh1-0/+16
2019-04-17lz4: Add 1.9.0 (#11207)Michael Kuhn1-0/+1
2019-04-17zstd: Add 1.4.0 (#11208)Michael Kuhn1-0/+1
2019-04-16Added rust 1.34.0 (#11200)sknigh1-0/+1
2019-04-16Added openmpi 3.1.4 (#11201)sknigh1-1/+2
* Added openmpi 3.1.4 * fix suffix comment
2019-04-16New package: CLN library (#11167)Matthias Mayr1-0/+31
2019-04-16precice package: add versions and dependencies (#11176)Frédéric Simonis1-3/+10
* Add versions 1.4.0, 1.3.0, and 1.2.0 * Add dependencies and update constraints (e.g. version 1.4.0 of precice requires a later version of boost) * Add maintainers
2019-04-16QMCPACK package: Remove Spack MKL hack for older version (#11127)Nichols A. Romero1-18/+23
A Spack hack for MKL usage was needed in QMCPACK prior to version 3.5 when non-Intel compilers were used. This Spack hack could have undesirable side-effects and led to ugly code that was extra work to maintain. For older versions of QMCPACK, we throw a conflict if you want to use Intel MKL with the other compilers commonly found on x86. Note that there is no impact to version of QMCPACK since 3.5.
2019-04-16superlu-dist: fix issue with adding system blas/lapack - when MKL is ↵Satish Balay1-2/+2
explicitly specified (#11187) Version 6 added dependency on LAPACK - so additional -DTPL_LAPACK_LIBRARIES option is required Ref: https://github.com/xiaoyeli/superlu_dist/issues/36 Ref: https://github.com/spack/spack/issues/10173
2019-04-15add charliecloud 0.9.9 (#11190)Jordan Ogas1-0/+1
2019-04-15cmake: add version 3.14.2 (#11192)Matthias Diener1-0/+1
2019-04-15pixman: fix patch (#11173)Denis Davydov1-1/+1
2019-04-15boost: add 1.70.0 (#11183)Denis Davydov1-2/+4
2019-04-15verilator: Fix FlexLexer.h not found (#11185)Oliver Breitwieser1-1/+1
Similar to #10956 flex needs to be a link-dependency for verilator in order for FlexLexer.h to be found during install.
2019-04-15petsc4py: add verson 3.11.0 (#11186)Satish Balay1-0/+4
Also added maintainers
2019-04-12Update FASTMath metapackage (#11171)Mark C. Miller1-3/+1
* Limit to FASTMath-only packages * Replace boxlib with amrex As requested by @asalmgren
2019-04-12petsc: add fftw variant (#11178)Satish Balay1-1/+4
2019-04-12petsc: add version 3.11.1 (#11179)Satish Balay1-0/+1
2019-04-12py-deeptools: adding release 3.2.1 sha256 sum (#11174)Owen Solberg1-0/+1
2019-04-11xsdk@develop: enable amrex@develop+sundials (#11169)Satish Balay1-2/+2
2019-04-11amrex: add sundials variant (#11147)Cody Balos1-1/+5
2019-04-10libxsmm package: add variant to build generator executables (#11114)brietzke1-0/+10
2019-04-10fzf package: change mirror and add vim plugin (#10920)clellsolomon2-3/+39
This commit edits the Makefile to use github.com mirrors rather than the default mirrors of the dependency packages installed by GO.
2019-04-10New Packages: ecp-io-sdk and ecp-viz-sdk (#11073)Chuck Atkins2-0/+91
2019-04-10py-requests: Add missing dependencies for versions 2.16.0 and up (#10996)Eric Martin1-0/+5
2019-04-10Fix bug when system perl is used. (#11034)Patrick Gartung1-7/+11
* Fix bug when system perl is used. If system perl is being used through packages.yaml there cannot be dependent modules. The setup_dependent_packages function should not do anything in that case.
2019-04-10dealii: fix build with tbb from intel parallel studio (#11138)Denis Davydov1-1/+13
2019-04-10suite-sparse: fix tbb patching (#11155)Denis Davydov1-1/+1
2019-04-09libfabric: Add 1.7.1 (#11141)Michael Kuhn1-0/+1
2019-04-09wget: add version 1.20.3 (#11148)Matthias Diener1-0/+1
2019-04-09intel: consolidate libs() in the base class (#11143)Denis Davydov2-28/+0
* intel: consolidate libs() in the base class * white space * flake8
2019-04-09openmpi: add 4.0.1 (#11126)Denis Davydov1-1/+8
* openmpi: add 4.0.1 * openmpi: enable-mpi1-compatibility for 4.0.1 and above * remove preferred * make 3.1.3 preferred
2019-04-09xsdk@develop: enable hypre shared (even on OSX) and superlu-dist variant ↵Satish Balay1-1/+1
(#11131)
2019-04-09cdhit - add new release 4.8.1 checksum (#11130)Owen Solberg1-0/+1
2019-04-09mumps: add version 5.1.2 (#11132)Satish Balay2-0/+70
Add patch for gfortran-8 runtime errors
2019-04-08Unset SPACK_INCLUDE_DIRS so the compiler wrapper does not prepend any -I ↵Patrick Gartung1-0/+1
flags. The assumption is that cmake will set the correct include flags. (#11129)
2019-04-08zfp: Add 0.5.4 (#11016)Michael Kuhn1-0/+1
2019-04-08Add new TFEL' versions (3.0.4, 3.1.4 and 3.2.1). Add new MGIS version ↵thelfer2-1/+6
(1.0.1). (#11109)
2019-04-08kokkos: update cuda conflict (#11110)Cameron Smith1-4/+3
see https://github.com/spack/spack/pull/10943#issuecomment-475303870
2019-04-08sra-toolkit new version (#11111)Levi Baber1-0/+1
2019-04-07netlib-scalapack: fix compatibility with mpi2 i.e openmpi-4 (#11124)Satish Balay2-0/+145
2019-04-06ecp-proxy-apps: update version (#11119)Abhinav Bhatele1-3/+10
2019-04-05hypre: disable variant superlu-dist default (#11097)Satish Balay1-1/+1
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