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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.
2019-06-27Fix pkgconfig dependencies (#11864)Michael Kuhn2-2/+2
pkgconfig is the correct virtual dependency.
2019-06-27cbtf-krell: fixed to build on ARM. (#11859)Toyohisa Kameyama2-0/+132
2019-06-27font-util: fix fontname. (#11860)Toyohisa Kameyama1-2/+2
2019-06-27petsc: add version 3.11.3 (#11857)Satish Balay1-0/+1
2019-06-26cdo: Remove obsolete patch (#11854)Michael Kuhn2-207/+0
Commit ea3e1521fe3bcb260fdea439208f0dd47d3ff062 removed version 1.9.7rc2, making the patch for gcc@9 obsolete.
2019-06-26ncl: Fix build (#11855)Michael Kuhn2-1/+2
ncl does not build with newer versions of gdal (or rather proj). This also needs a small change to gdal, otherwise we end up with both proj@5 and proj@6 in the spec.
2019-06-26Make yaml-cpp build with libc++ (#10504)Greg Becker1-1/+27
- Separate `yaml-cpp` tests into variant - Make conflict between `yaml-cpp` tests and `libc++` explicit
2019-06-26added min version for gasnet and legion (#11853)ktsai71-2/+2
* added min version for gasnet and legion * Update package.py * Update package.py * Update package.py
2019-06-26RELION package: add version 3.0.6 (#11851)Douglas Duckworth1-3/+2
2019-06-26X11fonts: use autotools for new architecture host (#11785)Toyohisa Kameyama38-1235/+88
* Remove individual font-* packages and add them as resources of the font-util package * Update font-util package to Autotools-based package, and call autoreconf to regenerate the old configure script * Add font-adobe-utopia-type1
2019-06-25Rename py-pytables -> py-tables (#11847)Adam J. Stewart3-3/+3
2019-06-25remove binary file that got added inadvertently via #11828 (#11848)Satish Balay1-0/+0
2019-06-25pfunit: fixed a typo (#11843)Christoph Junghans1-1/+1
2019-06-25gnutls: workaround guile build error on macos (#11751)Chuck Atkins1-1/+4
2019-06-25phist can't be compiled with gcc older than 4.9.2 (#11677)jthies1-0/+4
* phist can't be compiled with gcc older than 4.9.2
2019-06-25fmt: Add version 5.3.0 with cxxstd variant support (#11799)Ben Morgan4-2/+80
* fmt: Add cxxstd variant, plus cmake/c++ patches Spack supported versions of fmt default to C++11 for versions less than 5, C++14 greater than 5, with fmt implementing fallbacks to whatever compiler supports. To give better ABI compatibility and use of newer standards, provide a `cxxstd` variant defaulting to 11 with 98-17 options. Use cmake_args to set CMAKE_CXX_STANDARD as appropriate, plus use of `FMT_USE_CPP11` option for C++98 builds. Use `conflicts` to disable use of certain standards in versions that don't support, or fail the build, with those standards. Add patches to unify use of `CMAKE_CXX_STANDARD` in 3.0 versions, remove hard-coding of compiler flags in `fmt-config.cmake`, and prevent use of C++11 features in 4.1.0 when in supported C++98 mode. Default to not building documents as no dependency on Doxygen is yet present, and they are not part of the "all" build. * Use CMake to enforce C++ standard support Fail configure step if fmt tries to build with a cxxstd variant not supported by the compiler (or known to CMake). * fmt: New version 5.3.0
2019-06-24Bumping-up miniVite to version 1.1 (#11828)rvinaybharadwaj2-1/+5
* Bumping-up miniVite to version 1.1 * Keeping both version of miniVite * Changed to >=
2019-06-24New package: Rodinia (starting at 3.1) (#11650)Justin S1-0/+68
2019-06-24UCX package: add versions 1.5.1/1.5.2 (#11832)Carson Woods1-0/+2
2019-06-24Singularity package: add version 3.2.1 (#11833)Carson Woods1-0/+1
2019-06-24clamav: add new package (#11818)Denis Davydov1-0/+36
* clamav: add new package * fix flake8 * remove --dsable lines
2019-06-24add glx variant to libepoxy (#11814)Gregory Lee1-1/+14
2019-06-24The py-pytables package depends on hdf5-blosc (#11823)Glenn Johnson1-0/+16
* The py-pytables package depends on hdf5-blosc * Further modifications to py-pytables package The 3.2.2 version of py-pytables should still build with internal blosc. The issue with locking in a multithreaded environment has been fixed/worked around in version 3.3. Also, add bzip2 and lzo variants.
2019-06-24hypre: superlu-dist-link-2.15.0.patch is now in hypre@develop (#11829)Satish Balay1-1/+1
2019-06-23add new package py-absl-py (#11812)Andreas Baumbach1-0/+25
* add new package py-absl-py Change-Id: I248d30e0a3e5e05d9ea4027d97a85545c63d1125 * Update package.py * Update package.py * Update package.py * Update package.py
2019-06-23New package py-astor (and test dependency py-astunparse) (#11813)Andreas Baumbach2-0/+44
* add package py-astor Change-Id: I2f6becfb5e9771170bf2df5eb629920e1c0998d7 * add new package py-astunparse Change-Id: Id2d3e8dec28e720ed1cb121dad0d1a405c27ca29 * Update package.py * Update package.py * Update package.py
2019-06-23hypre: add v2.16.0 (#11821)Christoph Junghans1-9/+10
* hypre: add v2.16.0 * update checksums * hypre: xsdk-0.2.0 tag is missing on the new repo
2019-06-23awscli: new package (#11796)Neil Flood1-0/+32
* awscli: new package * More precise py-pyyaml version dep, as per setup.py
2019-06-23r-sf may not support PROJ.6 (#11767)Adam J. Stewart1-1/+3
* r-sf may not support PROJ.6 * Add comment explaining dep
2019-06-22new package/py-blessed (#11656)Sinan1-0/+21
* new package/py-blessed * make flake8 happy * fix docstring * tab to spaces * Update var/spack/repos/builtin/packages/py-blessed/package.py specify dependency version. Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * Update var/spack/repos/builtin/packages/py-blessed/package.py specify dependency version Co-Authored-By: Adam J. Stewart <ajstewart426@gmail.com> * add setuptools as depedency
2019-06-21precice: add version 1.5.1 (#11809)Gerasimos Chourdakis1-0/+1
2019-06-21exonerate use autotools. (#11805)Toyohisa Kameyama1-6/+8
2019-06-21mpileaks: use autotools. (#11808)Toyohisa Kameyama1-7/+8
2019-06-21mpe2 use autotools and add libx11 dependency. (#11807)Toyohisa Kameyama1-13/+12
2019-06-21converting to launchmon to autotools package (#11794)Gregory Lee1-12/+13
2019-06-20New packages: nrm and libnrm (#11777)Valentin Reis5-0/+104
Also add new py-warlock, py-jsonpatch, and py-jsonpointer packages as dependencies of nrm.
2019-06-20boost: add variant for symbol visibility (#11801)Mark W. Krentel1-0/+10
Starting with 1.69.0, boost added a bjam option for the default symbol visibility. Up to 1.68.0, the value was always 'global'. 1.69.0 changed the default to 'hidden' but added an option. Most packages will work with hidden and won't notice. But some packages may discover that an interface that they rely on is now hidden and inaccessible. https://boostorg.github.io/build/manual/develop/index.html#bbv2.builtin.features.visibility
2019-06-20subread: add 1.6.4 (#11800)Justin S1-0/+1
2019-06-20Resources: use expanded archive name by default (#11688)Peter Scheibel2-7/+4
For resources, it is desirable to use the expanded archive name of the resource as the name of the directory when adding it to the root staging area. #11528 established 'spack-src' as the universal directory where source files are placed, which also affected the behavior of resources managed with Stages. This adds a new property ('srcdir') to Stage to remember the name of the expanded source directory, and uses this as the default name when placing a resource directory in the root staging area. This also: * Ensures that downloaded sources are archived using the expanded archive name (otherwise Spack will not be able to determine the original directory name when using a cached archive). * Updates working_dir context manager to guarantee restoration of original working directory when an exception occurs * Adds a "temp_cwd" context manager which creates a temporary directory and sets it as the working directory
2019-06-20Add GDL 0.9.9 (#11760)Adam J. Stewart1-2/+6
* Add GDL 0.9.9 * Add comment on PROJ dependency
2019-06-20py-python-dateutil: Version 2.7.0 acquired dependency on setuptools-scm (#11795)Neil Flood1-0/+1
2019-06-19Bump netcdf-fortran version to 4.4.5 (#11790)Carson Woods1-0/+1
2019-06-19py-matplotlib: Fix dependencies in [2.1.0:3.0.0) (#11787)Oliver Breitwieser1-1/+3
Starting with 2.1.0, backports.functools_lru_cache replaces functools32 when using python 2.7.x until python2 support is dropped in 3.0.0. Change-Id: I8db61eac975da0042f6f5babe0f5f0c92807200e
2019-06-19osu-micro-benchmarks: add version 5.6.1 (#11779)Kevin Manalo1-3/+11
Also add mpi osu-micro-benchmarks to runtime PATH
2019-06-19New package: fgsl: fortran interface to GSL (#11775)brietzke1-0/+33
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