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2018-03-06adds patches required to build hdf5 1.8.10 (#7386)Mike Pozulp2-0/+56
For hdf5 `1.8.10` and some compilers, the hdf5 build system adds the '-ansi' flag. hdf5 1.8.10 is not actually ansi compliant so this adds a patch to modify the places where it violates ansi compatibility (which ends up being a few comments).
2018-03-06bowtie2: Add version 2.3.4.1 (#7252)Eric1-1/+2
2018-03-06pnmpi@1.7: new package (#7051)Geoffrey Oxberry1-0/+67
Add PnMPI, a dynamic MPI tool infrastructure that builds on top of the PMPI interface.
2018-03-06Add the libssh2 variant for curl. (#6980)健美猫1-0/+3
2018-03-06perl-net-scp-expect: Create new package (#7028)Eric1-0/+34
2018-03-06gromacs: add v2018 (#7050)Christoph Junghans1-0/+2
2018-03-06Update package.py (#7327)Simon Flood1-3/+8
Add versions released after 3.5.0 (3.4.3, 3.5.1, and 3.6.x)
2018-03-06py-crossmap: adding new package (#7108)peetsv1-0/+39
2018-03-06Setup dependent environment for pkgconf. (#7102)Sergey Kosukhin1-0/+13
2018-03-06py-rasterio: Added with dependencies. (#7156)Elizabeth Fischer4-0/+171
2018-03-06sosflow: add missing dependencies (#7182)Geoffrey Oxberry1-0/+2
SOSflow depends on MPI and pkg-config, but neither of these dependencies are currently in the spack package, so this commit adds them.
2018-03-06Add cmor version 3.3.0 (#7197)Paschalis Korosoglou1-1/+2
2018-03-06perl-graph-readwrite: Create new package (#7284)Eric1-0/+34
2018-03-06Add sqlite 3.22.0 (#7335)mcneish11-0/+2
2018-03-06Fix apr pick up of log4cxx (#7347)healther1-1/+4
2018-03-06likwid: Fix build (#7244)Michael Kuhn1-0/+2
likwid uses the current directory when building the paths to its internal libraries. Spack overwrites PWD, causing likwid to not find hwloc.h.
2018-03-06mumps: add the libs property (#7264)Veselin Dobrev1-0/+8
2018-03-06Make neuron package more generic (#7393)Ricardo Silva1-39/+36
Make neuron package more generic * find the bin directory dynamically for use in run_env and spack_env * replace filter_compilers after install with filter_compiler_wrappers * update checksum for _current_ 7.5 version * make +python conflict with ~shared * prepend the architecture specific lib directory to the LD_LIBRARY_PATH Signed-off-by: Ricardo Silva <ricardo.silva@epfl.ch>
2018-03-06Colordiff: new package (#7070)Matthias Diener1-0/+40
2018-03-06py-bitstring: Create new package (#7190)Eric1-0/+34
2018-03-06suite-sparse: add a package-specific 'libs' property (#7269)Veselin Dobrev1-1/+20
2018-03-06trnascan-se: new package (#7351)Yifan Zhu1-0/+34
2018-03-06libSplash 1.7.0: Root Fix (#7368)Axel Huebl2-0/+17
Fix installs as "root" user for the last libSplash release. Missing quoting of string compares resulted in a CMake error when run as root (e.g. in a Docker build).
2018-03-06snpEff: Create new package. (#7382)lingnanyuan2-0/+61
2018-03-06mosh build depends on pkg-config (#7365)Eric Müller1-0/+1
2018-03-06perl-file-slurper: Create new package (#7378)Eric1-0/+34
2018-03-06exasp2: add v1.0 (#7398)Christoph Junghans1-0/+2
2018-03-06braker: added list_url (#7058)Yifan Zhu1-0/+1
2018-03-06Save sources in a mirror and cache it in Travis (#7392)Massimiliano Culpo2-1/+10
2018-03-05r-sf: new package (#6547)Yifan Zhu1-0/+47
* r-sf: new package * r-sf: added version requirements for dependencies
2018-03-05minighost: another Ubuntu fix (#7359)Christoph Junghans1-1/+1
2018-03-05minismac2d: fix build with external Debian MPI (#7318)Christoph Junghans1-1/+1
2018-03-05perl-extutils-depends: Create new package (#7376)Eric1-0/+34
2018-03-05rapidjson: new package (#7391)Federico Ficarelli1-0/+37
2018-03-05Fix pkgconf on Crays (#7171)Mario Melara2-5/+3
This updates Cray.setup_platform_environment to use cray-specific pkgconfig paths so that all providers of 'pkgconfig' have access to them (previously the 'pkg-config' provider had this but the 'pkgconf' provider did not).
2018-03-05Fix version-specific URLs for Python packages (#7394)Adam J. Stewart2-3/+3
2018-03-05openmpi: add package-specific 'headers' property (#7267)Veselin Dobrev1-0/+7
* [OpenMPI] Add the 'headers' property. This removes some redundant headers from sub-directories, returned by the default '.headers' handler. * [OpenMPI] In the .headers property, add a fallback to search all of prefix for the mpi.h header. Recommended by @junghans to support some external configurations, see #7268.
2018-03-05tclap: new package (#7390)Federico Ficarelli1-0/+35
2018-03-05only filter compiler paths for binaries provided by the compiler (#7369)scheibelp1-4/+9
2018-03-05bracken: Create new package (#7375)Eric1-0/+75
2018-03-05add -ldl to silo ldflags when building with static hdf5 in order to fix ↵Mike Pozulp1-0/+5
#7384 (#7385)
2018-03-05update for conduit 0.3.1 release (#7344)Cyrus Harrison1-10/+15
2018-03-05fix ruby build on gcc >= 7 (#7387)Eric Müller3-0/+170
* pkgconfig fixes a "libffi.a requires -fPIC" build error * the patches solve the mentioned problem on GCC 7.x
2018-03-01Rsync package: Fix Src Link (#7367)Axel Huebl1-1/+1
Fix the source link to rsync downloads. The old link only contained the latest release, the new link contains all.
2018-03-01new package: hiop (#7039)junkudo1-0/+75
2018-03-01new package: perl-parallel-forkmanager (#7049)Eric1-0/+34
2018-02-28help gdb pick up python3 (#7104)healther1-8/+8
* Update gdb to autotools package * Help gdb find python libraries for python 3
2018-02-28mpich@develop: needs git submodules (#7357)Omri Mor1-1/+1
2018-02-28new package: py-goatools (#7328)Eric1-0/+45
2018-02-28[spack/spec.py] raise a query failure error if a property query returns None ↵Veselin Dobrev1-23/+41
(#7277) * [SPACK/spec.py] When a query through ForwardQueryToPackage returns 'None', treat that as query failure and raise RuntimeError with suitable message. This overrides the current behavior to raise an AttributeError which is now triggered only when no suitable query property is found and there is no default handler. * [spack/spec.py] Fix style. * [SPACK/spec.py] In case of query failure, i.e. property returning 'None', raise AttributeError instead of RuntimeError in order to pass the unit test. Also, small update in the logic distinguishing query failure and lack of relevant property/attribute handling.