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2018-12-20packages/phist: add maintainer (#10162)jthies1-0/+2
2018-12-19CGNS: Allow use of git branch versions (#10156)Greg Sjaardema1-0/+3
* CGNS: Allow use of git branch versions Add ability to use git `master` and `develop` branches of the CGNS library. The `seacas` package sometimes needs to use the `master` or `develop` branch due to some new changes to the parallel I/O implementation in CGNS which has not yet been released. * CGNS: Reorder to put newest version on top Based on review comments, place newest version (develop) first in list.
2018-12-19dyninst: patch to build dyninst with older gcc (#10160)Mark W. Krentel2-0/+74
* dyninst: patch to build dyninst with older gcc Add 'v9.3.2-auto.patch'. This patch changes some 'auto t: type' usage to the older but equivalent 'type.begin()'. This allows building dyninst 9.3.2 with gcc 4.4 which doesn't support the newer syntax. This patch is harmless with newer gcc. * Fix typo in patch. (My bad for sloppy cut-and-paste.) * Restrict the patch to gcc 4.7 and earlier. gcc 4.8 supports the newer usage and thus doesn't need the patch.
2018-12-19sqlite: add 3.26.0 (#10138)Michael Kuhn3-90/+4
2018-12-19updated checksum for kallisto (#10158)Owen Solberg1-1/+1
2018-12-19fetch_strategy: improve GitFetchStrategy (#10153)Michael Kuhn1-1/+1
Currently, only the Git repsository's URL shows up in the `spack info` output, which makes it hard to distinguish different versions: ``` Safe versions: develop [git] https://github.com/LLNL/H5Z-ZFP.git 0.8.0 [git] https://github.com/LLNL/H5Z-ZFP.git 0.7.0 [git] https://github.com/LLNL/H5Z-ZFP.git ``` This change adds additional information as shown when cloning a Git repository: ``` Safe versions: develop [git] https://github.com/LLNL/H5Z-ZFP.git on branch master 0.8.0 [git] https://github.com/LLNL/H5Z-ZFP.git at commit af165c4 0.7.0 [git] https://github.com/LLNL/H5Z-ZFP.git at commit 58ac811 ```
2018-12-19phist tag 1.7.5 was moved (#10155)jthies1-1/+1
2018-12-19Updated Dakota to 6.9 (#10157)sknigh1-1/+5
* Updated Dakota to 6.9 * Change comment wording
2018-12-19Add python bindings to libxslt (#10149)Adam J. Stewart1-9/+27
2018-12-19Add missing libiconv dependency to libxml2 (#10148)Adam J. Stewart1-5/+18
2018-12-19Add list_url to docbook-xml (#10146)Adam J. Stewart1-10/+7
2018-12-19Add latest version of docbook-xsl (#10147)Adam J. Stewart2-12/+48
2018-12-19Restrict patch to oldest version of libbsd (#10145)Adam J. Stewart1-2/+4
2018-12-19PETSc: add version 3.10.3 (#10154)Satish Balay1-0/+1
2018-12-19mapserver: new package (#10067)Neil Flood1-0/+100
2018-12-18fix for mpifileutils package (#10142)Elsa Gonsiorowski, PhD1-8/+17
* proper include & linking of libarchive * due to linux headers, mfu can't build on mac * hard code deps in configure line rather than relying on pkg-config * +xattr during config * must also link the lib * find mfu.h * long lines
2018-12-18WarpX: Added dependency on fftw when +psatd (#10144)Dave1-0/+2
2018-12-18flatbuffers: add 1.10.0 (#10137)Matthias Wolf2-1/+2
Also unpin the version from the arrow package.
2018-12-18Add pdf variant to cairo (#10135)Adam J. Stewart1-12/+19
2018-12-18clp: add build_directory, remove old hack (#10112)Justin Stanley1-4/+1
* clp: add build_directory, remove old hack * clp: use spack-build for building
2018-12-17Add latest version of libxkbcommon (#10134)Adam J. Stewart1-12/+9
2018-12-17Add variant to ecflow to choose whether to use static boost libraries. (#9933)Alberto Chiusole1-1/+10
When this variant is set, it requires boost to be built with the +pic variant.
2018-12-17Add thread count variant to atlas (#9999)David Hows1-0/+11
* Add thread count variant Atlas automatically configures itself and optimizes to run with a fixed number of threads. This can be overridden during compile by setting a flag and atlas will tune itself to use the specified number, rather than all system CPUs. Default value is the existing logic, autoconfigure. * Fix Linting * Another lint for longline
2018-12-17Add spack package for saga-gis (#10018)Jannek Squar1-0/+80
* Add spack package for saga-gis * Adjusted license header * Adjust saga-gis package, added fixme comments * Removed version constraint * Fixed fixme comment
2018-12-17git: add version 2.20.1 (#10130)Matthias Diener1-0/+5
2018-12-17Added RocksDB package (#10084)Omar Awile1-0/+61
* Added rocksdb package * Fixes based on @tristan0x and @pramodk comments * Cleanup * A couple minor fixes based on @adamjstewart 's advice * Fixed flake8 errors
2018-12-17Add missing gettext dependency to at-spi2-core (#10124)Adam J. Stewart1-0/+1
2018-12-17Revert "mark: Create new package. (#7069)" (#10131)Todd Gamblin1-53/+0
This reverts commit 90b34c96d6a255489ccc03c62f64c191130a32ac.
2018-12-17Add latest version of gdk-pixbuf (#10126)Adam J. Stewart1-11/+38
2018-12-17Add latest version of ghostscript (#10123)Adam J. Stewart1-1/+3
2018-12-17Add missing libbsd dependency to libxdmcp (#10122)Adam J. Stewart1-0/+1
2018-12-17Add latest version of libbsd (#10121)Adam J. Stewart1-1/+2
2018-12-17Add patch to fix windows.h include in freetype (#10075)Adam J. Stewart2-2/+31
* Add patch to fix windows.h include in freetype * Fix patch
2018-12-17ENH: fixes and updates for openfoam-com build (#10065)Mark Olesen2-22/+53
- previous removal of FOAM_EXT_LIBBIN (ThirdParty) from the environment during the build could lead to the system scotch library being found instead of the spack installation. Avoid this largely cosmetic change to the setting in favour of improved build robustness. These modifications will be largely superfluous in the 1812 release anyhow. - Split the patching algorithm into 'regular' and '@:1806' since the next versions of openfoam will again need fewer patches. - Add hook into foamCreateManpage to be used where available
2018-12-17SEACAS: Add preliminary support for seacas package (#9972)Greg Sjaardema1-0/+249
* SEACAS: Add preliminary support for seacas package * Eliminate leftover from package I copied from. * And remove another stray line Sorry, thought I had checked this better... * SEACAS: Shorten long lines; fixup indentation * SEACAS: Remove unused os import * Add PLASMA version 18.11.0 and Lua variant (#9689) * Add PLASMA 18.11.1 with optional Lua and test for headers * New versions for a few python modules (#9969) * py-jupyter-console: Add version 5.2.0 * py-jupyter-core: add version 4.4.0 * py-lxml: add version 4.2.5 * py-zmq: add version 17.1.2 * py-terminado: add version 0.8.1 * py-pexpect: add version 4.6.0 * py-pytables: add version 3.4.4 * SEACAS: Default to mpi on * SEACAS: Modify to reduce variants Instead of using an `allpkgs` or explicitly specifying each individual subset, changed to minimize variants: * By default, the exodus and IOSS libraries are built and a few executables directly related to the IOSS library. * variant `common` defaults to True and builds the "common" seacas applications. This is based on my definition, so there may be could be some discussion on what belongs here. * variant `legacy` defaults to True and builds the remainder of the seacas applications. These are still used, but mainly in more esoteric areas. Might be better to default to False, but I wanted default to just build everything which is what other SEACAS builds always do... Removed the `kokkos` variants for now as I need to do some more thinking on how best to support this. Not often used currently, so shouldn't be an issue. Cleaned up other issues raised by Adam and found by me. * SEACAS: Address flake8 issues * SEACAS: Clean up variant package logic Fixed package variant logic. Consolidated some other variant handling logic Other minor refactors for hopefully better readability * SEACAS: Fix flake8 error Missing whitespace around operator fixed.
2018-12-17GDL: python integration fixes (#9936)Ricardo Silva2-5/+69
* GDL: python integration fixes * renamed python-related variants to follow the convention * building the Python module requires patches currently targetting 0.9.8 othwerwise asking for the Python module *only* builds the Pyhton module * building the python module also requires patching the vendored (with the GDL) antlr to be built as a shared library * Typo Co-Authored-By: rmsds <ricardo.d.silva@gmail.com> * Rename embed-python variant to embed_python
2018-12-17zoltan: rely on MPI wrappers instead of guessing MPI libraries (#8986)TZ1-25/+5
* zoltan: only add gussed MPI libs if no MPI wrappers are used - if MPI-wrappers are used for compilation, we can assume that linking works without manually specifying MPI libs (guessing may result in wrong libs, cf. #8979) - thus, only guess the NPI libs and add them explicitly if no MPI-wrappers are used - use llnl.util.filesystem.find_libraries instead of a locally defined routine to guess the MPI libs if needed (cf. #8979) * zoltan: rely on MPI-wrappers to know the required MPI libs
2018-12-17mark: Create new package. (#7069)lingnanyuan1-0/+53
* mark: Create new package. * mark: change description. * mark: change description. * mark: Delete set_up environment. * mark: replace join_path(prefix.bin, mark) with prefix.bin.mark
2018-12-17Add latest version of atk (#10125)Adam J. Stewart1-3/+6
2018-12-16packages/phist: new version 1.7.5 (#10120)jthies1-0/+1
2018-12-15r-multitaper: new package at 1.0-14 (#10110)Justin Stanley1-0/+18
2018-12-15r-popgenome: new package at 2.6.1 (#10108)Justin Stanley1-0/+21
2018-12-15r-xnomial: new package at 1.0.4 (#10111)Justin Stanley1-0/+21
* r-xnomial: new package at 1.0.4 * r-xnomial: add list_url
2018-12-14Add latest version of libsigcpp (#10103)Adam J. Stewart1-1/+7
2018-12-14Add latest version of bdw-gc (#10100)Adam J. Stewart1-2/+4
2018-12-14Add latest version of libatomic-ops (#10099)Adam J. Stewart1-2/+3
2018-12-14pbsuite: pythonpath should be prepended not set (#10113)Levi Baber1-1/+1
2018-12-14clp: add explicit datadir (#10109)Justin Stanley1-0/+5
2018-12-14Updates to Google Test: (#10079)Andrew Gaspar1-3/+4
- Add version 1.8.1 - Change to sha256 checksums
2018-12-14qt: fix openssl dependency for older versions (#10106)Michael Kuhn1-0/+1
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