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2017-09-27Additional MPICH configs (#5259)Ken Raffenetti1-1/+59
* Add support for building develop version from git * Add device and netmod variants
2017-09-27r-gplots: Create New Package. (#5494)lingnanyuan1-0/+40
* r-gplots: Create New Package. * r-gplots: Correct format.
2017-09-27libbson, libmongoc: Update to 1.8.0 (#5478)Michael Kuhn2-0/+2
2017-09-26r-rcurl: created new package (#5492)Yifan Zhu1-0/+62
2017-09-26r-annotate: new package. (#5490)lingnanyuan1-0/+39
* pr-quantities: add version & py-numpy conflict (#5307) * r-annotate: Create new package. * r-annotate: Create new package.
2017-09-26Autodock vina: spec (#5333)zenln3-0/+130
* Autodock vina: spec * Adding comment to patch. The implemnetation of boost is version dependent on older boost replacing depecrated function of boost. * Adding in boost version dependency
2017-09-26Add ability to build llvm-openmp-ompt alone, with gnu compilers and use the ↵Jim Galarowicz2-6/+38
resulting ompt interface in cbtf-krell and openspeedshop to gather openmp specific performance information. (#5288) * Update the krell institute products to use the latest features of spack for building on cluster platforms. * Address travis error messages and resubmit the pull request. * Update the contents of openspeedshop package.py so it passes the flake8 tests. * Fix flake8 error-whitespack issue in mrnet package.py file. * Add updates based on spack reviewer feedback. * More fixes based on comments from reviewers. Switch using extend to using append, remove additional setting of PATH and LD_LIBRARY_PATH that should not be required due to RPATH. * More review related changes. Update MPIOption.append lines and take out xercesc references. * Create a base options function for common openspeedshop base cmake options to reduce redundencies. * Add libxml2+python depends on to get around issues with the libxml2 package file. * Using boost over 1.60.0 causes compile errors. This is a known boost bug. Also, dyninst-9.2.0 is set to be the vesrion of dyninst to use with OSS, as of now. The newer version fails to build. * Fix bad syntax in specifying the boost version range. * Update the version numbers for the krell institute components and tools: cbtf and openspeedshop. * Do not build glib for qt3, it is not needed and causes build problems at this time anyway. * A fix was added for setting LD_LIBRARY_PATH in the qt3 build, but if LD_LIBRARY_PATH is not set the qt build fails. So so check and set LD_LIBRARY_PATH if not set, update if it is set. * Update the fix for qt3 build by setting LD_LIBRARY_PATH instead of checking for whether it is set or not per Adams comment that spack clears LD_LIBRARY_PATH. * A fix was added for setting LD_LIBRARY_PATH in the qt3 build, but if LD_LIBRARY_PATH is not set the qt build fails. So so check and set LD_LIBRARY_PATH if not set, update if it is set. * Trim comments to fit more concisely. * Fix tabs versus spaces and swap if and else clause check from a negative to a positive check. * Add ability to build llvm-openmp-ompt alone, with gnu compilers and use the resulting ompt interface in cbtf-krell and openspeedshop to gather openmp specific performance information. * Fix flake8 errors. * Fix flake8 errors - stage 2. * Fixes based on reviewer suggestions and comments. * Use build_type variant to set the build type and allow changing of the type. * Fix missing comma in cmake_arg list, found on another test machine.
2017-09-26astyle: homepage dead, use mirror (#5483)Christoph Junghans1-1/+3
2017-09-26snappy: Update to 1.1.7 (#5477)Michael Kuhn1-4/+20
Convert to CMakePackage and add a pkg-config file (otherwise libmongoc's pkg-config file does not contain all required flags).
2017-09-26autoconf, automake: Add missing perl dependency (#5187)Michael Kuhn2-0/+30
* autoconf, automake: Add missing perl dependency * automake: Add 1.15.1
2017-09-26Missing perl dependencies (#5204)Michael Kuhn4-0/+29
* glib: Add missing perl dependency * shared-mime-info: Add missing perl dependency * libx11: Add missing perl dependency * likwid: Add missing perl dependency
2017-09-25r-limma: new package. (#5468)lingnanyuan1-0/+35
* r-limma: Create New Package. * pr-quantities: add version & py-numpy conflict (#5307) * r-limma: Create new package. * r-limma: Correct format. * Update package.py
2017-09-25r-affy: created new package (#5471)Yifan Zhu1-0/+44
2017-09-25r-genefilter: New package. (#5467)lingnanyuan1-0/+38
* r-genefilter: Create New Package. * r-genefilter: Create new package. * r-genefilter: Correct format. * Update package.py
2017-09-25r-xml: updated url and added version 3.98-1.9 (#5466)Yifan Zhu1-3/+4
* r-xml: updated url and added version 3.98-1.9 * Update package.py
2017-09-25r-multtest: new package. (#5469)lingnanyuan1-0/+36
* r-multtest: Create New Package. * pr-quantities: add version & py-numpy conflict (#5307) * r-multtest: Create new package. * r-multtest: Correct format.
2017-09-25r-plogr: new package. (#5443)lingnanyuan1-0/+36
* pr-quantities: add version & py-numpy conflict (#5307) * r-plogr:Create new package. * r-plogr: Correct format.
2017-09-25r-glmnet: update version. (#5470)lingnanyuan3-6/+10
* r-glmnet: Create New Package. * pr-quantities: add version & py-numpy conflict (#5307) * r-glmnet: Update version to 2.0-13 * r-matrix: Update version to 1.2-11 * r-lattice: Update version to 0.20-35.
2017-09-25r-pkgconfig: new package. (#5441)lingnanyuan1-0/+36
* pr-quantities: add version & py-numpy conflict (#5307) * r-pkgconfig: Create new package. * r-pkgconfig: Correct format. * r-pkgconfig: Correct format.
2017-09-25r-bit64: new package. (#5437)lingnanyuan1-0/+47
* pr-quantities: add version & py-numpy conflict (#5307) * r-bit64: Create new package. * r-bit64: Correct format.
2017-09-25r-annotationdbi: new package (#5408)lingnanyuan2-0/+89
* r-annotationdbi: Create New Package. * r-iranges: Create new package. * r-s4vectors: Create new package. * r-annotationdbi: Create new package. * r-s4vectors: Delete file. * r-annotationdbi: Correct format. * r-iranges: Correct format.
2017-09-25r-blob: new package. (#5438)lingnanyuan1-0/+39
* pr-quantities: add version & py-numpy conflict (#5307) * r-blob: Create new package. * r-blob: Correct format.
2017-09-25patch py-mccabe and py-flake8 to not require pytest-runner for install (#5427)Todd Gamblin2-0/+8
- Filter the pytest-runner dependency out of setup.py in py-mccabe and py-flake8
2017-09-25update for conduit 0.3.0 release (#5421)Cyrus Harrison1-14/+32
* update for conduit 0.3.0 release * use mpicxx * Update package.py
2017-09-25Fix Protobuf URLs (#5373)Axel Huebl1-3/+15
The default implementation of Package.fetch_remote_versions will take a URL like https://github.com/google/protobuf/archive/ and automatically search https://github.com/google/protobuf/releases/ for new package versions. In the case of protobuf the release/ path contains release artifacts for a version and the archive/ path contains the desired source. Since both are associated with the version, and Package.fetch_remote_versions only stores one URL for a given version, the two paths are in conflict; previously the URL returned for a given version was arbitrarily chosen between the two paths. This updates the definition for the Protobuf package to always search for URLs in https://github.com/google/protobuf/archive/
2017-09-25lammps: add support of latte package (#5446)Christoph Junghans2-1/+35
2017-09-25Add info for lmod@7.7 and lmod@7.6.14 (#5450)George Hartzell1-0/+2
Lightly tested on CentOS 7
2017-09-25add assimp package. link against it in dealii (#5463)Denis Davydov2-0/+56
2017-09-24New version for mosh1.3.2 (#5448)George Hartzell2-1/+2
Required an update to the protobuf digest value, which seems to be amongst the set creamed by GitHub's change.
2017-09-24llvm: patch lldb for gcc-7 (#5239)Andrey Prokopenko2-0/+13
2017-09-23hdf5: fix macOS build by not using numactl (#5458)Denis Davydov1-1/+4
2017-09-23parsplice: add version 1.1 (#5461)Christoph Junghans1-1/+2
2017-09-23blas_lapack: add multithreading variant consistent in all implementations. ↵Denis Davydov5-22/+67
(#5340) * blas_lapack: add multithreading variant * elemental: update * intel-mkl: extend to macOS * rename multithreading to threads * intel-mkl: avoid long lines * intel-mkl: make one install error a conflict * openblas: fix a minor bug in the test
2017-09-23r-rsqlite: Update version to 2.0. (#5444)lingnanyuan1-3/+10
* pr-quantities: add version & py-numpy conflict (#5307) * r-rsqlite: Update version to 2.0
2017-09-23r-bh: update version. (#5442)lingnanyuan1-2/+3
* pr-quantities: add version & py-numpy conflict (#5307) * r-bh: Update version to 1.65.0-1
2017-09-23r-memoise: update version. (#5440)lingnanyuan1-2/+3
* pr-quantities: add version & py-numpy conflict (#5307) * r-memoise: Update version to 1.1.0
2017-09-23r-tibble: update version. (#5439)lingnanyuan1-3/+4
* pr-quantities: add version & py-numpy conflict (#5307) * r-tibble: Update version to 1.3.4
2017-09-23r-bit: new package. (#5436)lingnanyuan1-0/+34
* pr-quantities: add version & py-numpy conflict (#5307) * r-bit: Create new package.
2017-09-23r-assertthat: update version to 0.2.0 (#5435)lingnanyuan1-1/+2
* pr-quantities: add version & py-numpy conflict (#5307) * r-assertthat: Update version to 0.2.0
2017-09-23r-preprocesscore: created new package (#5434)Yifan Zhu1-0/+35
2017-09-23r-affyio: created new package (#5433)Yifan Zhu1-0/+37
2017-09-23r-xvector: created new package (#5432)Yifan Zhu1-0/+41
2017-09-23superlu-dist: fix has after 09/17/2017 update (#5457)Denis Davydov1-2/+2
2017-09-22tmux: add version 2.5 (#5449)George Hartzell1-0/+1
2017-09-22Ack: add version 2.18 (#5445)George Hartzell1-0/+1
2017-09-23Add info for httpie@0.9.9 (#5451)George Hartzell1-0/+1
Lightly tested on CentOS 7.
2017-09-23Add info for lftp@4.8.1 (#5452)George Hartzell1-0/+1
Lightly tested on CentOS 7.
2017-09-22Update git to @2.14.1, requires pcre+jit variant (#5430)George Hartzell2-1/+13
Update the git package to git@2.14.1. This requires a pcre that has been built with `--enable-jit`, so this adds a variant to pcre to support that and arranges so that git versions before 2.14 depend on pcre and git 2.14 and after depend on pcre+jit.
2017-09-22git-lfs: add 2.2.1 and 2.3.0 (#5429)George Hartzell1-0/+2
2017-09-22emacs: add version 25.3 (security update) (#5447)George Hartzell1-0/+1
25.3 is a security update. Info here: https://lists.gnu.org/archive/html/info-gnu/2017-09/msg00006.html Build both +X and ~X on CentOS 7 and lightly tested.
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