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2019-07-15qt: fix patch checksum (#12024)Michael Kuhn1-1/+1
It seems that GitHub's output changed slightly for this patch (one more letter for both short hashes on the index line), probably due to the number of objects in the repository.
2019-07-15binutils: Adding Clang to narrowing conversion error workaround (#12029)Brian Homerding1-1/+2
2019-07-15Add JUBE package definition (#12023)Marc-Andre Hermanns1-0/+41
* Add JUBE package definition * Fixing flake8 errors
2019-07-15Added HPX version 1.3.0. (#12025)Severin Strobl1-0/+1
2019-07-15boost: use clang toolset when building with Fujitsu compiler. (#11827)t-karatsu1-1/+2
2019-07-15Add auto-dispatch specification to Intel packages (#11697)Glenn Johnson2-0/+26
This PR adds the ability to specify the auto-dispatch targets that can be used by the Intel compilers. The `-ax` flag will be written to the respective compiler configuration files. This ability is very handy when wanting to build optimized builds for various architectures. This PR does not set any optimization flags, however.
2019-07-15binutils: added '-Wno-narrowing' to CXXFLAGS when using fj compiler via ↵Hironori-Yamaji1-0/+8
flag_handler (#11922) FJ compiler fails for older versions w/o '-Wno-narrowing' flag.
2019-07-15packages: computation.llnl.gov is now computing.llnl.gov (#12013)Todd Gamblin14-23/+23
2019-07-15py-basemap: install without egg (#11961)Milton Woods1-1/+2
* py-basemap: avoid creating egg during build, for compatibility with mpl_toolkits * py-basemap: not ready for py-pyproj@2 onwards
2019-07-14gdb: add version 8.3 (#12018)Matthias Diener1-0/+1
2019-07-14make cfitsio explicitly depend on curl (#12016)Reinhard Prix1-0/+1
- currently would revert to using system-curl instead, pulling in unwanted system dependencies and lib-paths
2019-07-14bzip2: Add 1.0.8 (#12017)Michael Kuhn1-4/+2
Update URLs to official ones.
2019-07-13Make JDK version more specific (#12008)Adam J. Stewart1-1/+1
2019-07-13Add py-jsonschema 2.6.0 (#12009)Adam J. Stewart1-1/+2
2019-07-12find_libraries searches lib and lib64 before prefix (#11958)Tim Fuller3-24/+10
The default library search for a package checks the lib/ and lib64/ directories for libraries before the root prefix, in order to save time when searching for libraries provided by externals (which e.g. may have '/usr/' as their root). This moves that logic into the "find_libraries" utility method so packages implementing their own custom library search logic can benefit from it. This also updates packages which appear to be replicating this logic exactly, replacing it with a single call to "find_libraries".
2019-07-12New package: Nim (#11649)xfzhao1-0/+41
2019-07-12r package: add rmath variant for standalone rmath library (#11693)Justin S1-0/+14
2019-07-12new package: umap (#12000)egreen771-0/+35
2019-07-12jdk: Add the 'provides' call (#11997)Hironori-Yamaji1-0/+1
2019-07-12Update libensemble (#11990)Stephen Hudson1-1/+2
2019-07-12update scalasca to latest version, simplify recipe (#11999)Phil Tooley1-3/+7
add list_url for use with spack checksum
2019-07-11Modifications to r package (#11957)Glenn Johnson1-7/+21
This PR has several modifications for the r package. - The tk package is always depended on but this pulls in X11, making the 'X' variant non-functional. This PR sets a dependency of tk on '+X'. - There is a missing dependency on libxmu when '+X' is set. - The libraries for R wind up in a non-standard location and are thus left out of the RPATH settings. This PR adds that directory to RPATH. - The MKL integer interface for gfortran is not in the BLAS libs. This PR replaces the intel interface with the gfortran interface if needed. - Use the `LibraryList` `ld_flags` method for blas as that is more in line with th R Installation and Administration manual. Note that this PR depends on PR #11956. This PR closes #8642.
2019-07-11Add variants for tk package (#11956)Glenn Johnson1-3/+16
TK can be built with support for libXft and X Screensaver. Both of these are turned on in the Tk configure script. That means the system libraries will get picked up if they are on the system and nothing is specified in the package. Since the default for both of them is 'True' I set the default value for the variants to 'True'.
2019-07-11bowtie2: Add version 2.5.3.1 and fix to build on ARM (#11974)Toyohisa Kameyama1-1/+14
* bowtie2: Add version 2.5.3.1 and fix to build on ARM 1. Add version 2.5.3.1. 2. Add simde for ARM. 3. Disable -fopenmp-simd when gcc 4.8.X or before for ARM. 4. Add Makefile option POPCNT_CAPABILITY=0 for ARM. * flake8.
2019-07-11velvet: remove -m64 on aarch64. (#11984)Toyohisa Kameyama1-0/+5
2019-07-11Boost: Compile with toolset=clang for Arm compiler (#11992)Nick Forrington1-1/+7
Bootstraps with gcc, but compiles with clang
2019-07-11megahit package: add patch to build on ARM. (#11963)Toyohisa Kameyama2-0/+22
2019-07-11New package: dimemas (#11979)Phil Tooley1-0/+34
2019-07-11OpenFOAM package: update download url (#11973)Mark Olesen1-2/+2
2019-07-11libfabric package: add support for tcp provider (#11965)Phil Carns1-1/+2
2019-07-11luit package: use autotools. (#11962)Toyohisa Kameyama1-8/+4
2019-07-11Rename build logs and make names consistent (#11806)Tamara Dahlgren5-12/+4
Fixes #11781 * Rename build log to spack-build-log.txt * Rename environment variables file to spack-build-env.txt * The name of the log and env files is now the same during the build and after the build completes * Update packages which referred to the build log/env files * For packages installed before this commit using older names for the build and env files, search for the older names
2019-07-10mpich: Add 3.3.1 (#11976)Michael Kuhn1-1/+4
2019-07-10bzip2: Add 1.0.7 (#11975)Michael Kuhn1-0/+1
2019-07-09py-astropy: added latest version 3.2.1 (#11967)Reinhard1-0/+1
- correctly installs under python@3.5:3.7.3 - (partially) fixes https://github.com/spack/spack/issues/11966
2019-07-09package: Add powerapi package (#11845)Carson Woods1-0/+51
* Add powerapi package * Fix flake8 formatting * Fix download URL * Update powerapi version line * Fix how configure arguments are selected to improve readability * Bug Fixes * Fix trailing whitespace * Bug fixes * Remove incorrect configure flag
2019-07-09Ferret: add version 7.2 and adjust dependencies (#11921)Milton Woods1-24/+17
* ferret: use libx11 from spack * ferret: use mpi library with or without fortran support * ferret: add version 7.2 * ferret: no need to specify ~mpi * ferret: creating symlinks may fail for external packages; set include/lib paths instead
2019-07-08diffsplice package: remove -m64 on ARM. (#11899)Toyohisa Kameyama1-0/+5
2019-07-08zoltan: use autotools for new architecture host (#11924)Toyohisa Kameyama1-55/+71
* use autoreconf to regenerate configure script and config.guess for newer architectures * Add perl build dependency for older versions. The required perl version is constrained because the perl script uses syntax that is deprecated in older versions
2019-07-08motif package: fix the download url (#11939)Hironori-Yamaji1-1/+1
2019-07-08preCICE package: add version 1.5.2 (#11949)Frédéric Simonis1-0/+1
2019-07-08environment-modules package: add version 4.2.5 (#11953)Xavier Delaruelle1-0/+1
2019-07-08New package: r-grbase (starting at 1.8-3.4) (#11937)Justin S1-0/+26
2019-07-08r-graph: update R constraint to reflect DESCRIPTION (#11934)Justin S1-1/+1
2019-07-08r-rbgl: add 1.60.0 (#11936)Justin S1-0/+3
2019-07-08r-biocgenerics: add 0.30.0 (#11935)Justin S1-0/+2
2019-07-05tau: add conflicts for libelf/libdwarf variants (#11944)Kevin Huck1-0/+4
Declare a conflict for TAU versions older than 2.28.1, that they can't depend on libelf or libdwarf. The user can still install it by specifying tau@2.24~libelf~libdwarf.
2019-07-05cmake: add v3.14.5Christoph Junghans1-0/+1
2019-07-04py-stratify: vertical interpolation/stratification of atmos/ocean data (#11911)Milton Woods1-0/+22
* py-stratify: vertical interpolation/stratification of atmos/ocean data * py-stratify: download from pypi.io
2019-07-04py-scikit-image: include more dependencies (#11912)Milton Woods1-1/+4
* py-scikit-image: include more dependencies * py-scikit-image: limit some dependencies to recent versions
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