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2019-07-02py-pyugrid: unstructured grids in netcdf files (#11900)Milton Woods1-0/+21
2019-07-02Add llvm as deps when static analyzer is enabled (#11888)ktsai71-15/+29
* dep llvm if static analyzer dep caliper if caliper * fix typo * adding variants for toggles
2019-07-02portcullis package: remove -m64 on aarch64. (#11905)Toyohisa Kameyama1-0/+5
GCC on aarch64 dose not support -m64. This patch removes the -m64 flag if target is aarch64.
2019-07-02opa-psm2 package: correct installation prefixes and add 11.2.77 (#11658)Phil Carns2-0/+84
This PR corrects a problem with the opa-psm2 package. It was installing headers into <prefix>/usr/include and libraries into <prefix>/usr/lib instead of <prefix>/include and <prefix>/lib. The extra level of usr/ subdirectories causes dependent packages like libfabric to fail to build.
2019-07-01openfoam: rename openfoam-com to openfoam (#11876)Mark Olesen16-30/+25
The original packaging, with openfoam as a virtual and with openfoam-com, openfoam-org and openfoam-extend as providers, adds an obfuscation layer without any benefit. - Rename `openfoam-com` to `openfoam`, and remove the `openfoam` virtual package.
2019-07-01specs: remove parse_anonymous_spec(); use Spec() insteadTodd Gamblin8-144/+224
- `parse_anonymous_spec()` is a vestige of the days when Spack didn't support nameless specs. We don't need it anymore because now we can write Spec() for a spec that will match anything, and satisfies() semantics work properly for anonymous specs. - Delete `parse_anonymous_spec()` and replace its uses with simple calls to the Spec() constructor. - make then handling of when='...' specs in directives more consistent. - clean up Spec.__contains__() - refactor directives and tests slightly to accommodate the change.
2019-07-01cray: use the cle-release file to determine CNL versionTodd Gamblin2-6/+72
- CNL OS previously used the *Cray PE* version to determine the OS version. Cray does not synchronize PE and CLE releases; you can run CLE7 with PrgEnv 6 (and NERSC currently does). - Fix Spack's OS detection by using the cle-release file to detect the OS version. This file is updated with every CLE OS release. - Add some tests for our parsing logic
2019-07-01New packages: libmo-unpack and py-mo-pack (#11895)Milton Woods2-0/+38
* libmo-unpack: package to encode and decode UM fields * py-mo-pack: python interface for libmo-unpack
2019-07-01New package: r-gwmodel (starting at 2.0-9) (#11887)Justin S1-0/+26
2019-07-01New package: r-spatialreg (starting at 1.1-3) (#11886)Justin S1-0/+28
2019-07-01New package: r-spdata (starting at version 0.3.0) (#11883)Justin S1-0/+18
2019-07-01New package: py-nc-time-axis (#11898)Milton Woods1-0/+20
2019-07-01py-markdown package: update dependency version range (#11908)Glenn Johnson1-1/+1
The python dependency specifies that 2.7 or 2.8 are allowed when in fact it should specify a version range (anything between 2.7 and 2.8, inclusive).
2019-07-01mpich: wrapperrpath variant allows disablement of RPATH usage in mpiccSameer Shende1-1/+4
Added a wrapperrpath variant to mpich that defaults to `True`. Users can set this to `False` (e.g., spack install mpich~wrapperrpath) to disable the wrapper RPATHs. This makes it easier to replacing an MPICH installation in a container with an MPICH for the host system, e.g., Cray MPICH with Shifter on Cori, Intel MPI, MVAPICH2, etc. Co-authored-by: Todd Gamblin <tgamblin@llnl.gov>
2019-07-01planck-likelihood: remove -m64 on ARM (#11902)Toyohisa Kameyama2-0/+17
2019-07-01ADIOS2: v2.4.0 (#11904)Axel Huebl1-0/+1
Add the latest release of ADIOS2.
2019-07-01tk: avoid search for X headers and libraries (#11892)Milton Woods1-1/+3
2019-07-01camellia: fix hdf5 dependency (#11810)t-karatsu1-1/+6
* camellia: fix hdf5 dependency * camellia: Add comment
2019-07-01r-spacetime: new package at 1.2-2 (#11885)Justin S1-0/+23
2019-07-01buildcache: add replace_prefix_bin function to deal with hard coded paths in ↵Patrick Gartung1-8/+27
libraries and executables. (#11882)
2019-07-01py-netcdf4: depend on hdf5+hl (#11893)Milton Woods1-1/+1
2019-06-30readme: make list of links even tighter.Todd Gamblin1-5/+3
2019-06-30README: Tighten up text, mention the Code of Conduct in the README.Todd Gamblin1-35/+32
2019-06-30meta: move CODE_OF_CONDUCT.md and CONTRIBUTING.md to .githubTodd Gamblin2-0/+0
- Trying to reduce the number of top-level files in Spack. - CODE_OF_CONDUCT.md can be referenced from the README. - CONTRIBUTING.md is only used to display a message on pull requests, and it still does that when in .github.
2019-06-30llvm: don't build CppBackend for flang versions of llvm (#11841)Dr Owain Kenway1-1/+5
The version of LLVM used by flang is new enough that CppBackend doesn't exist. Unfortunately, `flang-xxxxxxxx` is seen as < `3.9.0` by the version check. * add a special case for `flang` versions.
2019-06-30libtomlc99: Update versionOliver Breitwieser1-0/+1
The PR for shared libraries has been merged upstream -> add new version.
2019-06-30style: remove unnecessary NOQA exceptionsTodd Gamblin1-9/+9
2019-06-29setup-env.sh: send cd output to /dev/null when it affects SpackTodd Gamblin1-9/+12
- We've seen this a few times now where users have set up `cd` to echo the new directory, and it screws up `setup-env.sh` - In the past we've said this is user error. - Here, we just fix it by sending `cd` output to /dev/null where needed. - this works in bash, zsh, and dash
2019-06-29Allow uninstalling missing packages (#11874)Peter Scheibel2-6/+19
Remove package access from directory_layout; add regression test to ensure that specs can be uninstalled without a package being known
2019-06-29legion: added recent releases (#11889)Christoph Junghans1-0/+4
2019-06-28r-intervals: new package at 0.15.1 (#11884)Justin S1-0/+18
2019-06-28docs: add example for an external module in packages.yamlMark W. Krentel1-2/+12
Add an example of a 'modules:' entry for an external package in packages.yaml. The 'External Packages' section of 'Build Customization' mentions 'paths:' and 'modules:' and gives an example of paths, but not modules.
2019-06-28qthreads package: make hwloc dependency optional and add version 1.14 (#11780)Carson Woods1-5/+15
2019-06-28New package: libtomlc99 (#11811)Andreas Baumbach1-0/+33
2019-06-28bib2xhtml: replace version and change the download url (#11837)Hironori-Yamaji1-2/+2
The old version was no longer available for download
2019-06-28PMDK package: requires ncurses dependency (#11868)Matthieu Dorier1-0/+1
2019-06-28OTF package: use autotools. (#11873)Toyohisa Kameyama1-8/+8
2019-06-28blast-plus package: remove --with-64 on ARM. (#11877)Toyohisa Kameyama1-1/+2
This configure option is not supported on ARM
2019-06-28likwid package: Fix build with version 4.3.4 (#11878)Michael Kuhn1-0/+2
2019-06-28Update package.py (#11872)ktsai71-0/+1
2019-06-28fenics, llvm: Fix package names being overriden (#11879)Michael Kuhn2-21/+21
Setting name within the package class allows overriding the package name, which both packages do using several for loops. Fixes #11789
2019-06-28portage: add v1.2.2 (#11842)Christoph Junghans3-0/+36
* portage: add v1.2.2 * Update package.py * Update package.py * Update package.py * Update package.py * flake8
2019-06-27Gotcha package: fixed to build on ARM. (#11840)Toyohisa Kameyama2-0/+20
Apply patch to current version which has not yet been merged in the upstream package repo.
2019-06-27New packages: Chill and IEGenLib (#11406)Derick Huth2-0/+82
* Add Chill package * Add IEGenLib package, a dependency of Chill
2019-06-27pkgconf: Add 1.6.1 (#11863)Michael Kuhn1-0/+1
2019-06-27bml: add v1.3.1 (#11856)Christoph Junghans1-0/+1
2019-06-27f90cache: change the download url (#11838)Hironori-Yamaji1-2/+4
* f90cache: change the download url * f90cache: added the download url for ver 0.99
2019-06-27tcsh: change the download url, add version 6.21.00 (#11836)Hironori-Yamaji1-2/+4
* tcsh: change the download url, add version 6.21.00 * tcsh: change the download url * tcsh: Fix checksum for 6.20.00
2019-06-27Update openfoam (#11866)Mark Olesen1-13/+15
* OpenFOAM: rationalize architecture options - older versions of OpenFOAM had WM_ARCH_OPTION to choose a 32-bit build on 64-bit architectures. This is not exactly relevant anymore and has now been largely removed from OpenFOAM. - simultaneously the newest version of OpenFOAM has rationalized the handling of special settings for KNL by rolling these into the compiler options. We now do the same thing here in spack. 1. Reuse the internal variable arch_option to convey processor-specific optimizations and add these into the C++OPT=... statement. 2. Drop spack support for configuring a 32-bit build on 64-bit hardware. These changes can also be applied to older OpenFOAM versions, and to various OpenFOAM forks without issue. * update openfoam versions. New release 1906, patched 1812 version.
2019-06-27font-util: Add missing mkfontdir build dependency (#11865)Michael Kuhn1-0/+1
Some of the fonts now included in font-util need mkfontdir to build.
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