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2018-05-23cgal: added version 4.12 (#8252)Massimiliano Culpo1-0/+1
2018-05-23Update BookLeaf_Cpp and Typhon packages. (#8249)Tim Law2-0/+2
2018-05-23Add latest versions of bazel (#8250)Leonhard Reichenbach2-3/+130
2018-05-23Package/mirdeep/fix for new url take2 (#8247)Sinan1-4/+4
* rename: mirdeep -> mirdeep2 * fixes for new url
2018-05-22Create new package: memkind (#8242)Leonhard Reichenbach1-0/+68
* Create new package: memkind * some style changes * fix type of numactl dependency * fix flake8 errors * use patch() instead of a custom build phase
2018-05-22Add py-docopt package (#8236)Adam J. Stewart1-0/+38
2018-05-22subread: added version 1.6.2 (#8239)Massimiliano Culpo1-0/+1
2018-05-22CUDA 9.2 (#8238)Axel Huebl2-7/+11
Add the latest CUDA release, v9.2 and updated CUDA Compatibility Matrix
2018-05-21Update GlobalArrays package to new releases (#7840)Tim Stavenger2-279/+45
* update globalarrays package to current releases * rename class to Globalarrays to match package folder * rename bytes to int64, minor cleanup of descriptions * int64 False by default * remove reference to external as we aren't supplying paths, and use args.append() * correcting args.append syntax * add conflicts
2018-05-21gdbm: Get working on CentOS5 and Other Older Systems (#8134)Elizabeth Fischer1-1/+9
* Fix #7691 * flake8 * code review
2018-05-21netcdf-cxx4: Update to use CPPFLAGS (#8148)Elizabeth Fischer2-0/+6
* Fix bug; don't know why this ever worked in the first place. * Add fix to netcdf-fortran too; flake8 * Simplify configure_args() * netcdf-fortran: simplify that too
2018-05-21Create new package: fastgbs and its dependency platypus. (#8174)lingnanyuan2-0/+97
* pushing partially done recipe for fast-gbs and platypus * modify platypus * change header * fast-gbs: change dependency type. * modify dependency type. * modify dependency type. * fast-gbs: Change dependency type to run.
2018-05-21r-cghflasso v0 2 1 - new package (#8177)peetsv1-0/+36
* py-pyfaidx: adding new package * updating the url * r-cghflasso v0.2-1 new package * correcting copy/paste error * adding list_url
2018-05-21Add urls into cbtf* and openspeedshop* package files and update the release ↵Jim Galarowicz8-112/+121
versions for the Krell products (#8188)
2018-05-21Rename Tpetra C wrappers for *gemm Fortran functions in Trilinos 12.12.1 (#8228)Dan FitzGerald2-2/+293
* Updated trilinos to compile/install with xl_r * Undo PGI patch added as part of Trilinos XL fix * Remove PGI related changes in Trilinos XL fix
2018-05-21Add Python/Ruby bindings to GEOS package (#8218)Adam J. Stewart1-20/+35
* Add python/ruby bindings to GEOS package * Add comment on Python 3 support
2018-05-21Add lcms 2.9 (#8219)Adam J. Stewart1-1/+3
2018-05-21Add missing dependencies to poppler package (#8220)Adam J. Stewart2-3/+162
2018-05-21Add bmake 20180512 (#8221)Adam J. Stewart1-16/+18
* Add bmake 20180512 * Re-add manpage patch
2018-05-21py-testinfra: Add versions 1.12.0 and 1.13.0 (#8222)Eric1-0/+2
2018-05-21Add info about haveged to gpg/randomness note (#8227)George Hartzell1-3/+18
2018-05-21Update the hash of libjpeg v9c. (#8230)mcneish11-1/+1
The maintainer redid the archive in March, removing a .directory file.
2018-05-21Add cryptopp 7.0.0 (#8224)Adam J. Stewart1-18/+11
2018-05-21Updated sbt to point to github. Added versions 1.1.4, 0.13.17. (#7951)Massimiliano Culpo1-3/+4
2018-05-20Add PCRE2 10.31 (#8214)Adam J. Stewart1-1/+3
2018-05-20Add PCRE 8.42 (#8213)Adam J. Stewart1-1/+2
2018-05-20Add sqlite 3.23.1 (#8212)Adam J. Stewart1-0/+2
2018-05-20Add libxml2 2.9.8 (#8211)Adam J. Stewart1-1/+3
2018-05-20Add cURL 7.60.0 (#8210)Adam J. Stewart1-1/+2
2018-05-20Add Xerces-C++ 3.2.1 (#8208)Adam J. Stewart1-1/+2
2018-05-20Add FYBA package (#8205)Adam J. Stewart2-0/+96
2018-05-20Add libgeotiff package (#8203)Adam J. Stewart1-0/+70
2018-05-20URL parsing: strip x86-64 from filename (#8200)Adam J. Stewart2-2/+4
2018-05-20Add xz 5.2.4 (#8202)Adam J. Stewart1-4/+6
2018-05-20Add libtiff 4.0.9 (#8201)Adam J. Stewart1-2/+4
2018-05-19r-utf8 v1.1.3 - New package (#8206)peetsv1-0/+38
* py-pyfaidx: adding new package * updating the url * r-utf8 v1.1.3 - New package * adding list_url
2018-05-19r-spatial v7.3.11 - New package (#8204)peetsv1-0/+37
* py-pyfaidx: adding new package * updating the url * r-spatial v7.3.11 - New package
2018-05-19r-proc v1 12 1 - New package (#8191)peetsv1-0/+44
* py-pyfaidx: adding new package * updating the url * r-proc v1.12.1 new package * adding list_url
2018-05-19sleef: a new library. (#8198)健美猞猁1-0/+35
2018-05-19fix leftover references to spack.<symbol>Todd Gamblin10-24/+19
- there were some leftover spack.* names being used after we removed globals and moved everything in the top-level namespace to spack.pkgkit - point those references to their new homes
2018-05-18neovim: add info for v0.2.2 (#8189)George Hartzell1-0/+1
2018-05-18imports: remove unnecessary `import spack` statementsTodd Gamblin26-47/+33
- remove most `import spack` statements, except for files that need `spack_version` - import spack is no longer sufficient to use submodules (e.g. spack.directives). - these submodules must be imported directly. Update references accordingly.
2018-05-18init: move symbols in `spack` to `spack.pkgkit`Todd Gamblin9-122/+137
- Spack packages were originally expected to call `from spack import *` themselves, but it has become difficult to manage imports in the Spack core. - the top-level namespace polluted by package symbols, and it's not possible to avoid circular dependencies and unnecessary module loads in the core, given all the stuff the packages need. - This makes the top-level `spack` package essentially empty, save for a version tuple and a version string, and `from spack import *` is now essentially a no-op. - The common routines and directives that packages need are now in `spack.pkgkit`, and the import system forces packages to automatically include this so that old packages that call `from spack import *` will continue to work without modification. - Since `from spack import *` is no longer required, we could consider removing ``from spack import *`` from packages in the future and shifting to ``from spack.pkgkit import *``, but we can wait a while to do this.
2018-05-18Fix libjpeg library finding and opencv build with nonstandard library ↵mcneish12-20/+23
directories (#8160) (#8179) * Use libs[0] and headers.directories[0] instead of hardcoded paths in opencv dependencies * Fix library finding in libjpeg-turbo * Use build_type=Debug instead of +debug to determine build_type
2018-05-18locks: add configuration and command-line options to enable/disable locks ↵Todd Gamblin11-54/+323
(#7692) - spack.util.lock behaves the same as llnl.util.lock, but Lock._lock and Lock._unlock do nothing. - can be disabled with a control variable. - configuration options can enable/disable locking: - `locks` option in spack configuration controls whether Spack will use filesystem locks or not. - `-l` and `-L` command-line options can force-disable or force-enable locking. - Spack will check for group- and world-writability before disabling locks, and it will not allow a group- or world-writable instance to have locks disabled. - update documentation
2018-05-18antlr: Turn off CSharp (#8157)Elizabeth Fischer1-0/+1
Spack doesn't have a CSharp package, so the only time ANTLR would succeed is if a system-installed CSharp was available. This disables CSharp support, which enables building on systems without system-installed CSharp.
2018-05-18Turning off parallel during make install for parallel-netcdf. (#8186)Jon Rood1-0/+4
2018-05-18Added vim 8.1 (#8185)sknigh1-0/+1
2018-05-18task: Add version 2.5.1 (#8184)Eric1-0/+1
2018-05-18nco: Find NetCDF (#8159)Elizabeth Fischer1-0/+7
* nco: Find NetCDF properly * flake8
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