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2016-09-29updated to latest available package and fixed installation issue (old ↵Pramod Kumbhar1-2/+8
packages are no longer available for download) (#1523)
2016-09-29added libxstream (#1454)Mitchell Devlin1-0/+50
2016-09-29Add libint package (#1264)Adam J. Stewart3-5/+127
* Add libint package * Add Intel optimization flags recommended by CP2K * Add new version and Intel compiler optimization flags for libxc * Add older version of libint * Libint depends on GMP C++ library
2016-09-28Library for manipulating grib1 and grib2 files (#1736)Robert D. French1-0/+50
Pro tips from @adamjstewart: * line too long in package description * name it grib-api instead of grib_api * depend on netcdf without reference to unnecessary constraints
2016-09-28py-pil: Protect against building with Python3. (#1868)Elizabeth Fischer2-0/+4
* py-pil: Does not build with Python3. * Set py-pillow to be the default pil provider * Update package.py * Change to comments requested by adamjstewart * Remove version constraint from extends(), avoid a Spack bug.
2016-09-28Update Qthreads to 1.11 (#1863)Erik Schnetter1-2/+3
2016-09-28Fixes #1860. Subversion builds sequentially due to race.Todd Gamblin2-1/+4
2016-09-28vim8 is out! (#1753)Robert D. French1-0/+3
* depends on ncurses for 8.0 or higher
2016-09-28Fixes #1720: spack reindex fails with invalid ref count. (#1867)Todd Gamblin3-49/+80
* Fixes #1720: spack reindex fails with invalid ref count. - Database graph wasn't being built properly; dependencies were set up incorrectly in the nodes that ended up in the graph on reindex. - Reworked _add to increment ref count properly and to always build bottom-up to make the logic simpler to understand. * Add checks to ensure DB is a valid merkle tree.
2016-09-28Tell Mercurial where to find CA certs (#1873)Adam J. Stewart1-5/+30
2016-09-28Prohibit Python3 in Python version check. (#1872)Elizabeth Fischer1-2/+2
2016-09-28Add single letter arg flags for spack graph (#1871)Adam J. Stewart1-3/+3
2016-09-28Merge pull request #1862 from LLNL/features/graph-improvementsTodd Gamblin9-164/+259
spack graph improvements
2016-09-27Make graph_ascii support deptypes.Todd Gamblin6-27/+37
- fix deptype support - by default, graph command omits build depedencies - update docs to use deptype args
2016-09-27Fixes #1098: spack graph crashes for large graphs.Todd Gamblin1-6/+15
- Fixed logic for collapsing backward edges - Last collapse now depends on whether prior step in left collapse sequence alrady did the collapse.
2016-09-27Improvements to the Spack graph command.Todd Gamblin3-29/+103
- Distinguish between static (package) and dynamic (spec) graphs. - static graphs ignore conditions and multiple instances (hashes) and plot raw dependencies among packages. - dynamic graphs include information from particular specs (instances of packages) and can have multiple instances with hashes. - Allow graphing all packages in the install DB. - useful for debugging.
2016-09-27Factor out canonical_deptype function, cleanup spec.pyTodd Gamblin2-41/+100
2016-09-27Clean up Exceptions in `spec.py`Todd Gamblin2-63/+6
2016-09-27Various updates to scipy and numpy (#1856)Adam J. Stewart2-4/+14
2016-09-27Update cdo to 1.7.2 (#1858)Michael Kuhn1-2/+2
2016-09-26Make PETSc build on Darwin (#1835)Erik Schnetter1-4/+7
Don't set cpp when building on Darwin.
2016-09-26Update OpenSSL (#1853)Erik Schnetter1-0/+1
2016-09-26some fixes to blas/lapack usage in packages (#1852)Denis Davydov12-43/+29
* atlas: fix unit test * openblas: remove symlinks; use lapack_libs.ld_flags in the test * mkl: fix openmp variant of blas/lapack libs * intel-parallel-studio: fix openmp variant of blas/lapack libs * netlib-scalapack: fix blas/lapack for multilib case (e.g. mkl) * arpack-ng: fix blas/lapack for multilib case (e.g. mkl) * petsc: explicitly specify blas/lapack * minor * cantera: fix blas/lapack usage * ipopt: fix blas/lapack usage * netlib-lapack: fix external blas usage * mfem: fix lapack/blas usage * superlu-mt: fix blas usage * flake8 fixes
2016-09-23Fix doc bugs, widen columns in the package listTodd Gamblin2-2/+2
2016-09-23a few package used in HEP including ROOT6Patrick Gartung10-0/+607
2016-09-23Remove duplicate ICU package (#1837)Adam J. Stewart7-65/+17
* Remove duplicate ICU package * Ignore deleted files during flake8 tests * Rename Boost ICU variant
2016-09-23m4: fix compilation on Sierra with GCC (#1844)Denis Davydov1-0/+6
* m4: fix compilation on Sierra with GCC * m4: check macOS version
2016-09-23Add Trilinos 12.8.1 (#1843)Bruno Turcksin1-0/+1
2016-09-23Don't require git for Julia @0.5: (#1834)Erik Schnetter1-1/+2
2016-09-23Update jemalloc to 4.2.1 (#1839)Erik Schnetter1-0/+2
2016-09-23Add libmesh, needed for some FEM applications (#1846)Robert D. French1-0/+42
2016-09-23hypre: fix a bug with blas/lapack names (#1841)Denis Davydov1-7/+2
2016-09-23Update OpenSSL (#1836)Erik Schnetter1-0/+2
This is a security update with priority "HIGH".
2016-09-22boost: fix a bug which broke it on macOS with clang+gfortran (#1816)Denis Davydov2-4/+19
* dealii: add missing python dependency * boost: fix a bug which broke it on macOS with clang+gfortran Boost was using gcc compiler instead of clang++, which lead to cryptic Undefined symbols linking errors for boost::python::objects::function_object() when building other packages against boost+python. * boost: add exceptions for intel * boost: use spack_cxx
2016-09-22Updates to CGAL and ICU4C packages (#1828)Adam J. Stewart2-26/+42
2016-09-22package: fix variable name usage (#1829)Ben Boeckel1-1/+1
2016-09-22Fix spack checksum output indentation (#1826)Adam J. Stewart1-1/+1
2016-09-22suitesparse: Added +fpic (for linking with shared libraries) (#1542)Elizabeth Fischer1-0/+3
2016-09-22New package "charm" for the Charm++ parallel programming framework (#1766)Erik Schnetter2-0/+191
2016-09-22Fix sbang for perl (#1802)Eric2-7/+13
* Perform shebang fix for all files * Fix sbang for perl scripts Otherwise perl would look at the #! line and call sbang again, resulting in an infinite loop.
2016-09-22Remove SPACK_DIRTY env var (#1818)Elizabeth Fischer3-10/+6
* Removed SPACK_DIRTY env var support. * Finished removing SPACK_DIRTY support. * Minor changes.
2016-09-22fix : stops infinite recursion for python 2.6 (#1823)Massimiliano Culpo1-2/+3
2016-09-21Reworking of `lapack_shared_libs` and similar properties (#1682)Massimiliano Culpo33-244/+526
* Turned <provider>_libs into an iterable Modifications : - added class LibraryList + unit tests - added convenience functions `find_libraries` and `dedupe` - modifed non Intel blas/lapack providers - modified packages using blas_shared_libs and similar functions * atlas : added pthread variant * intel packages : added lapack_libs and blas_libs * find_library_path : removed unused function * PR review : fixed last issues * LibraryList : added test on __add__ return type * LibraryList : added __radd__ fixed unit tests fix : failing unit tests due to missing `self` * cp2k and dependecies : fixed blas-lapack related statements in package.py
2016-09-21Flake8 fixes.Todd Gamblin1-23/+23
2016-09-21Merge branch 'qt-osx' of git://github.com/mathstuf/spack into mathstuf-qt-osxTodd Gamblin7-12/+158
2016-09-21Add package for bedtools2 (#1572)George Hartzell1-0/+43
Add package for bedtools2, with support for v2.25.0 and v2.26.0.
2016-09-21Add package for bamtools (#1571)George Hartzell1-0/+45
bamtools provides a C++ API & command-line toolkit for working with BAM data.
2016-09-21Update espresso recipe to track change in spack internals (#1734)Mayeul d'Avezac1-1/+1
2016-09-21Add missing build dependencies to hdf package (#1812)Adam J. Stewart1-7/+7
2016-09-21Update to allow netlib-scalapack to build against netlib-lapack. (#1539)Kelly Thompson1-5/+7
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