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| author | Gregory Becker <becker33@llnl.gov> | 2016-04-27 19:38:51 -0700 |
|---|---|---|
| committer | Gregory Becker <becker33@llnl.gov> | 2016-04-27 19:38:51 -0700 |
| commit | ae5198e5e765c64fea666753905f5162f2300181 (patch) | |
| tree | 7d58b63d19128edeaa6cc2f6fe915f11a5690471 /var | |
| parent | 8e54babf104985a8db0df3fbb2f3d0f134342571 (diff) | |
| parent | dd84a575807636159d80809f59962cf799b83fd7 (diff) | |
| download | spack-ae5198e5e765c64fea666753905f5162f2300181.tar.gz spack-ae5198e5e765c64fea666753905f5162f2300181.tar.bz2 spack-ae5198e5e765c64fea666753905f5162f2300181.tar.xz spack-ae5198e5e765c64fea666753905f5162f2300181.zip | |
Merged in current develop to cflags 042716
Diffstat (limited to 'var')
480 files changed, 11454 insertions, 1894 deletions
diff --git a/var/spack/mock_configs/site_spackconfig/compilers.yaml b/var/spack/mock_configs/site_spackconfig/compilers.yaml deleted file mode 100644 index 0a2dc893e2..0000000000 --- a/var/spack/mock_configs/site_spackconfig/compilers.yaml +++ /dev/null @@ -1,12 +0,0 @@ -compilers: - all: - clang@3.3: - cc: /path/to/clang - cxx: /path/to/clang++ - f77: None - fc: None - gcc@4.5.0: - cc: /path/to/gcc - cxx: /path/to/g++ - f77: /path/to/gfortran - fc: /path/to/gfortran diff --git a/var/spack/packages/R/package.py b/var/spack/packages/R/package.py deleted file mode 100644 index 2e6f65a742..0000000000 --- a/var/spack/packages/R/package.py +++ /dev/null @@ -1,33 +0,0 @@ -from spack import * - -class R(Package): - """R is 'GNU S', a freely available language and environment for - statistical computing and graphics which provides a wide va - riety of statistical and graphical techniques: linear and - nonlinear modelling, statistical tests, time series analysis, - classification, clustering, etc. Please consult the R project - homepage for further information.""" - homepage = "http://www.example.com" - url = "http://cran.cnr.berkeley.edu/src/base/R-3/R-3.1.2.tar.gz" - - version('3.1.2', '3af29ec06704cbd08d4ba8d69250ae74') - - depends_on("readline") - depends_on("ncurses") - depends_on("icu") - depends_on("glib") - depends_on("zlib") - depends_on("libtiff") - depends_on("jpeg") - depends_on("cairo") - depends_on("pango") - depends_on("freetype") - depends_on("tcl") - depends_on("tk") - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--enable-R-shlib", - "--enable-BLAS-shlib") - make() - make("install") diff --git a/var/spack/packages/atlas/package.py b/var/spack/packages/atlas/package.py deleted file mode 100644 index fc683363a7..0000000000 --- a/var/spack/packages/atlas/package.py +++ /dev/null @@ -1,60 +0,0 @@ -from spack import * -from spack.util.executable import Executable -import os - -class Atlas(Package): - """ - Automatically Tuned Linear Algebra Software, generic shared - ATLAS is an approach for the automatic generation and optimization of - numerical software. Currently ATLAS supplies optimized versions for the - complete set of linear algebra kernels known as the Basic Linear Algebra - Subroutines (BLAS), and a subset of the linear algebra routines in the - LAPACK library. - """ - homepage = "http://math-atlas.sourceforge.net/" - - version('3.11.34', '0b6c5389c095c4c8785fd0f724ec6825', - url='http://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.34/atlas3.11.34.tar.bz2/download') - version('3.10.2', 'a4e21f343dec8f22e7415e339f09f6da', - url='http://downloads.sourceforge.net/project/math-atlas/Stable/3.10.2/atlas3.10.2.tar.bz2') - - # TODO: make this provide BLAS once it works better. Create a way - # TODO: to mark "beta" packages and require explicit invocation. - - # provides('blas') - - - def patch(self): - # Disable thraed check. LLNL's environment does not allow - # disabling of CPU throttling in a way that ATLAS actually - # understands. - filter_file(r'^\s+if \(thrchk\) exit\(1\);', 'if (0) exit(1);', - 'CONFIG/src/config.c') - # TODO: investigate a better way to add the check back in - # TODO: using, say, MSRs. Or move this to a variant. - - @when('@:3.10') - def install(self, spec, prefix): - with working_dir('ATLAS-Build', create=True): - configure = Executable('../configure') - configure('--prefix=%s' % prefix, '-C', 'ic', 'cc', '-C', 'if', 'f77', "--dylibs") - make() - make('check') - make('ptcheck') - make('time') - make("install") - - - def install(self, spec, prefix): - with working_dir('ATLAS-Build', create=True): - configure = Executable('../configure') - configure('--incdir=%s' % prefix.include, - '--libdir=%s' % prefix.lib, - '--cc=cc', - "--shared") - - make() - make('check') - make('ptcheck') - make('time') - make("install") diff --git a/var/spack/packages/boost/package.py b/var/spack/packages/boost/package.py deleted file mode 100644 index 35824d53a2..0000000000 --- a/var/spack/packages/boost/package.py +++ /dev/null @@ -1,66 +0,0 @@ -from spack import * - -class Boost(Package): - """Boost provides free peer-reviewed portable C++ source - libraries, emphasizing libraries that work well with the C++ - Standard Library. - - Boost libraries are intended to be widely useful, and usable - across a broad spectrum of applications. The Boost license - encourages both commercial and non-commercial use. - """ - homepage = "http://www.boost.org" - url = "http://downloads.sourceforge.net/project/boost/boost/1.55.0/boost_1_55_0.tar.bz2" - list_url = "http://sourceforge.net/projects/boost/files/boost/" - list_depth = 2 - - version('1.59.0', '6aa9a5c6a4ca1016edd0ed1178e3cb87') - version('1.58.0', 'b8839650e61e9c1c0a89f371dd475546') - version('1.57.0', '1be49befbdd9a5ce9def2983ba3e7b76') - version('1.56.0', 'a744cf167b05d72335f27c88115f211d') - version('1.55.0', 'd6eef4b4cacb2183f2bf265a5a03a354') - version('1.54.0', '15cb8c0803064faef0c4ddf5bc5ca279') - version('1.53.0', 'a00d22605d5dbcfb4c9936a9b35bc4c2') - version('1.52.0', '3a855e0f919107e0ca4de4d84ad3f750') - version('1.51.0', '4b6bd483b692fd138aef84ed2c8eb679') - version('1.50.0', '52dd00be775e689f55a987baebccc462') - version('1.49.0', '0d202cb811f934282dea64856a175698') - version('1.48.0', 'd1e9a7a7f532bb031a3c175d86688d95') - version('1.47.0', 'a2dc343f7bc7f83f8941e47ed4a18200') - version('1.46.1', '7375679575f4c8db605d426fc721d506') - version('1.46.0', '37b12f1702319b73876b0097982087e0') - version('1.45.0', 'd405c606354789d0426bc07bea617e58') - version('1.44.0', 'f02578f5218f217a9f20e9c30e119c6a') - version('1.43.0', 'dd49767bfb726b0c774f7db0cef91ed1') - version('1.42.0', '7bf3b4eb841b62ffb0ade2b82218ebe6') - version('1.41.0', '8bb65e133907db727a2a825c5400d0a6') - version('1.40.0', 'ec3875caeac8c52c7c129802a8483bd7') - version('1.39.0', 'a17281fd88c48e0d866e1a12deecbcc0') - version('1.38.0', '5eca2116d39d61382b8f8235915cb267') - version('1.37.0', '8d9f990bfb7e83769fa5f1d6f065bc92') - version('1.36.0', '328bfec66c312150e4c2a78dcecb504b') - version('1.35.0', 'dce952a7214e72d6597516bcac84048b') - version('1.34.1', '2d938467e8a448a2c9763e0a9f8ca7e5') - version('1.34.0', 'ed5b9291ffad776f8757a916e1726ad0') - - - def url_for_version(self, version): - """Handle Boost's weird URLs, which write the version two different ways.""" - parts = [str(p) for p in Version(version)] - dots = ".".join(parts) - underscores = "_".join(parts) - return "http://downloads.sourceforge.net/project/boost/boost/%s/boost_%s.tar.bz2" % ( - dots, underscores) - - - def install(self, spec, prefix): - bootstrap = Executable('./bootstrap.sh') - bootstrap() - - # b2 used to be called bjam, before 1.47 (sigh) - b2name = './b2' if spec.satisfies('@1.47:') else './bjam' - - b2 = Executable(b2name) - b2('install', - '-j %s' % make_jobs, - '--prefix=%s' % prefix) diff --git a/var/spack/packages/cmake/package.py b/var/spack/packages/cmake/package.py deleted file mode 100644 index 9efa370c8b..0000000000 --- a/var/spack/packages/cmake/package.py +++ /dev/null @@ -1,45 +0,0 @@ -############################################################################## -# Copyright (c) 2013, Lawrence Livermore National Security, LLC. -# Produced at the Lawrence Livermore National Laboratory. -# -# This file is part of Spack. -# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. -# LLNL-CODE-647188 -# -# For details, see https://scalability-llnl.github.io/spack -# Please also see the LICENSE file for our notice and the LGPL. -# -# This program is free software; you can redistribute it and/or modify -# it under the terms of the GNU General Public License (as published by -# the Free Software Foundation) version 2.1 dated February 1999. -# -# This program is distributed in the hope that it will be useful, but -# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and -# conditions of the GNU General Public License for more details. -# -# You should have received a copy of the GNU Lesser General Public License -# along with this program; if not, write to the Free Software Foundation, -# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA -############################################################################## -from spack import * - -class Cmake(Package): - """A cross-platform, open-source build system. CMake is a family of - tools designed to build, test and package software.""" - homepage = 'https://www.cmake.org' - - version('2.8.10.2', '097278785da7182ec0aea8769d06860c', - url = 'http://www.cmake.org/files/v2.8/cmake-2.8.10.2.tar.gz') - - version('3.0.2', 'db4c687a31444a929d2fdc36c4dfb95f', - url = 'http://www.cmake.org/files/v3.0/cmake-3.0.2.tar.gz') - -# version('3.0.1', 'e2e05d84cb44a42f1371d9995631dcf5') -# version('3.0.0', '21a1c85e1a3b803c4b48e7ff915a863e') - - def install(self, spec, prefix): - configure('--prefix=' + prefix, - '--parallel=' + str(make_jobs)) - make() - make('install') diff --git a/var/spack/packages/cube/package.py b/var/spack/packages/cube/package.py deleted file mode 100644 index d97cd25636..0000000000 --- a/var/spack/packages/cube/package.py +++ /dev/null @@ -1,55 +0,0 @@ -# FIXME: Add copyright statement -# -from spack import * -from contextlib import closing - -class Cube(Package): - """Cube the profile viewer for Score-P and Scalasca profiles. It - displays a multi-dimensional performance space consisting - of the dimensions (i) performance metric, (ii) call path, - and (iii) system resource.""" - - homepage = "http://www.scalasca.org/software/cube-4.x/download.html" - url = "http://apps.fz-juelich.de/scalasca/releases/cube/4.2/dist/cube-4.2.3.tar.gz" - - version('4.2.3', '8f95b9531f5a8f8134f279c2767c9b20') - - version('4.3TP1', 'a2090fbc7b2ba394bd5c09ba971e237f', - url = 'http://apps.fz-juelich.de/scalasca/releases/cube/4.3/dist/cube-4.3-TP1.tar.gz') - - # Using CC as C++ compiler provides quirky workaround for a Score-P build system attempt - # to guess a matching C compiler when configuring scorep-score - backend_user_provided = """\ -CC=cc -CXX=CC -F77=f77 -FC=f90 -#CFLAGS=-fPIC -#CXXFLAGS=-fPIC -""" - frontend_user_provided = """\ -CC_FOR_BUILD=cc -CXX_FOR_BUILD=CC -F77_FOR_BUILD=f70 -FC_FOR_BUILD=f90 -""" - - def install(self, spec, prefix): - # Use a custom compiler configuration, otherwise the score-p - # build system messes with spack's compiler settings. - # Create these three files in the build directory - - with closing(open("vendor/common/build-config/platforms/platform-backend-user-provided", "w")) as backend_file: - backend_file.write(self.backend_user_provided) - with closing(open("vendor/common/build-config/platforms/platform-frontend-user-provided", "w")) as frontend_file: - frontend_file.write(self.frontend_user_provided) - - configure_args = ["--prefix=%s" % prefix, - "--with-custom-compilers", - "--without-paraver", - "--without-gui"] - - configure(*configure_args) - - make(parallel=False) - make("install", parallel=False) diff --git a/var/spack/packages/czmq/package.py b/var/spack/packages/czmq/package.py deleted file mode 100644 index a2f1947554..0000000000 --- a/var/spack/packages/czmq/package.py +++ /dev/null @@ -1,19 +0,0 @@ -from spack import * - -class Czmq(Package): - """ A C interface to the ZMQ library """ - homepage = "http://czmq.zeromq.org" - url = "https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz" - - version('3.0.2', '23e9885f7ee3ce88d99d0425f52e9be1', url='https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz') - - depends_on('zeromq') - - def install(self, spec, prefix): - bash = which("bash") - bash("./autogen.sh") - configure("--prefix=%s" % prefix) - - make() - make("install") - diff --git a/var/spack/packages/git/package.py b/var/spack/packages/git/package.py deleted file mode 100644 index 0f1a3ba05b..0000000000 --- a/var/spack/packages/git/package.py +++ /dev/null @@ -1,27 +0,0 @@ -from spack import * - -class Git(Package): - """Git is a free and open source distributed version control - system designed to handle everything from small to very large - projects with speed and efficiency.""" - homepage = "http://git-scm.com" - url = "https://www.kernel.org/pub/software/scm/git/git-2.2.1.tar.xz" - - version('2.2.1', '43e01f9d96ba8c11611e0eef0d9f9f28') - - # Use system openssl. - # depends_on("openssl") - - # Use system perl for now. - # depends_on("perl") - # depends_on("pcre") - - depends_on("zlib") - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--without-pcre", - "--without-python") - - make() - make("install") diff --git a/var/spack/packages/graphviz/package.py b/var/spack/packages/graphviz/package.py deleted file mode 100644 index 7af7da1881..0000000000 --- a/var/spack/packages/graphviz/package.py +++ /dev/null @@ -1,21 +0,0 @@ -from spack import * - -class Graphviz(Package): - """Graph Visualization Software""" - homepage = "http://www.graphviz.org" - url = "http://www.graphviz.org/pub/graphviz/stable/SOURCES/graphviz-2.38.0.tar.gz" - - version('2.38.0', '5b6a829b2ac94efcd5fa3c223ed6d3ae') - - parallel = False - - depends_on("swig") - depends_on("python") - depends_on("ghostscript") - - def install(self, spec, prefix): - configure("--prefix=%s" %prefix) - - make() - make("install") - diff --git a/var/spack/packages/hdf5/package.py b/var/spack/packages/hdf5/package.py deleted file mode 100644 index 15e0ef9338..0000000000 --- a/var/spack/packages/hdf5/package.py +++ /dev/null @@ -1,42 +0,0 @@ -from spack import * - -class Hdf5(Package): - """HDF5 is a data model, library, and file format for storing and managing - data. It supports an unlimited variety of datatypes, and is designed for - flexible and efficient I/O and for high volume and complex data. - """ - - homepage = "http://www.hdfgroup.org/HDF5/" - url = "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8.13/src/hdf5-1.8.13.tar.gz" - list_url = "http://www.hdfgroup.org/ftp/HDF5/releases" - list_depth = 3 - - version('1.8.15', '03cccb5b33dbe975fdcd8ae9dc021f24') - version('1.8.13', 'c03426e9e77d7766944654280b467289') - - depends_on("mpi") - depends_on("zlib") - - # TODO: currently hard-coded to use OpenMPI - def install(self, spec, prefix): - - configure( - "--prefix=%s" % prefix, - "--with-zlib=%s" % spec['zlib'].prefix, - "--enable-parallel", - "--enable-shared", - "CC=%s" % spec['mpich'].prefix.bin + "/mpicc", - "CXX=%s" % spec['mpich'].prefix.bin + "/mpic++") - - make() - make("install") - - def url_for_version(self, version): - v = str(version) - - if version == Version("1.2.2"): - return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + v + ".tar.gz" - elif version < Version("1.7"): - return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + version.up_to(2) + "/hdf5-" + v + ".tar.gz" - else: - return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + v + "/src/hdf5-" + v + ".tar.gz" diff --git a/var/spack/packages/hypre/package.py b/var/spack/packages/hypre/package.py deleted file mode 100644 index 198b3f00dc..0000000000 --- a/var/spack/packages/hypre/package.py +++ /dev/null @@ -1,32 +0,0 @@ -from spack import * - -class Hypre(Package): - """Hypre is a library of high performance preconditioners that - features parallel multigrid methods for both structured and - unstructured grid problems.""" - - homepage = "https://computation.llnl.gov/project/linear_solvers/software.php" - url = "https://computation.llnl.gov/project/linear_solvers/download/hypre-2.10.0b.tar.gz" - - version('2.10.0b', '768be38793a35bb5d055905b271f5b8e') - - depends_on("mpi") - depends_on("blas") - depends_on("lapack") - - def install(self, spec, prefix): - blas_dir = spec['blas'].prefix - lapack_dir = spec['lapack'].prefix - - # Hypre's source is staged under ./src so we'll have to manually - # cd into it. - with working_dir("src"): - configure( - "--prefix=%s" % prefix, - "--with-blas-libs=blas", - "--with-blas-lib-dirs=%s/lib" % blas_dir, - "--with-lapack-libs=\"lapack blas\"", - "--with-lapack-lib-dirs=%s/lib" % lapack_dir, - "--with-MPI") - make() - make("install") diff --git a/var/spack/packages/libpciaccess/package.py b/var/spack/packages/libpciaccess/package.py deleted file mode 100644 index 6022fc34a3..0000000000 --- a/var/spack/packages/libpciaccess/package.py +++ /dev/null @@ -1,21 +0,0 @@ -from spack import * - -class Libpciaccess(Package): - """Generic PCI access library.""" - - homepage = "http://cgit.freedesktop.org/xorg/lib/libpciaccess/" - url = "http://cgit.freedesktop.org/xorg/lib/libpciaccess/" - - version('0.13.4', git='http://anongit.freedesktop.org/git/xorg/lib/libpciaccess.git', - tag='libpciaccess-0.13.4') - - depends_on('autoconf') - depends_on('libtool') - - def install(self, spec, prefix): - from subprocess import call - call(["./autogen.sh"]) - configure("--prefix=%s" % prefix) - - make() - make("install") diff --git a/var/spack/packages/libxml2/package.py b/var/spack/packages/libxml2/package.py deleted file mode 100644 index df311bfaba..0000000000 --- a/var/spack/packages/libxml2/package.py +++ /dev/null @@ -1,21 +0,0 @@ -from spack import * - -class Libxml2(Package): - """Libxml2 is the XML C parser and toolkit developed for the Gnome - project (but usable outside of the Gnome platform), it is free - software available under the MIT License.""" - homepage = "http://xmlsoft.org" - url = "http://xmlsoft.org/sources/libxml2-2.9.2.tar.gz" - - version('2.9.2', '9e6a9aca9d155737868b3dc5fd82f788') - - extends('python') - depends_on('zlib') - depends_on('xz') - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--with-python=%s" % spec['python'].prefix) - - make() - make("install") diff --git a/var/spack/packages/llvm/package.py b/var/spack/packages/llvm/package.py deleted file mode 100644 index a6759c3033..0000000000 --- a/var/spack/packages/llvm/package.py +++ /dev/null @@ -1,53 +0,0 @@ -############################################################################## -# Copyright (c) 2013, Lawrence Livermore National Security, LLC. -# Produced at the Lawrence Livermore National Laboratory. -# -# This file is part of Spack. -# Written by David Beckingsale, david@llnl.gov, All rights reserved. -# LLNL-CODE-647188 -# -# For details, see https://scalability-llnl.github.io/spack -# Please also see the LICENSE file for our notice and the LGPL. -# -# This program is free software; you can redistribute it and/or modify -# it under the terms of the GNU General Public License (as published by -# the Free Software Foundation) version 2.1 dated February 1999. -# -# This program is distributed in the hope that it will be useful, but -# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF -# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and -# conditions of the GNU General Public License for more details. -# -# You should have received a copy of the GNU Lesser General Public License -# along with this program; if not, write to the Free Software Foundation, -# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA -############################################################################## -from spack import * - - -class Llvm(Package): - """The LLVM Project is a collection of modular and reusable compiler and - toolchain technologies. Despite its name, LLVM has little to do with - traditional virtual machines, though it does provide helpful libraries - that can be used to build them. The name "LLVM" itself is not an acronym; - it is the full name of the project. - """ - homepage = 'http://llvm.org/' - url = 'http://llvm.org/releases/3.7.0/llvm-3.7.0.src.tar.xz' - - version('3.7.0', 'b98b9495e5655a672d6cb83e1a180f8e', url='http://llvm.org/releases/3.7.0/llvm-3.7.0.src.tar.xz') - version('3.6.2', '0c1ee3597d75280dee603bae9cbf5cc2', url='http://llvm.org/releases/3.6.2/llvm-3.6.2.src.tar.xz') - version('3.5.1', '2d3d8004f38852aa679e5945b8ce0b14', url='http://llvm.org/releases/3.5.1/llvm-3.5.1.src.tar.xz') - - depends_on('python@2.7:') - - def install(self, spec, prefix): - env['CXXFLAGS'] = self.compiler.cxx11_flag - - with working_dir('spack-build', create=True): - cmake('..', - '-DLLVM_REQUIRES_RTTI=1', - '-DPYTHON_EXECUTABLE=%s/bin/python' % spec['python'].prefix, - *std_cmake_args) - make() - make("install") diff --git a/var/spack/packages/metis/package.py b/var/spack/packages/metis/package.py deleted file mode 100644 index 7ce5ae1925..0000000000 --- a/var/spack/packages/metis/package.py +++ /dev/null @@ -1,27 +0,0 @@ -from spack import * - -class Metis(Package): - """METIS is a set of serial programs for partitioning graphs, - partitioning finite element meshes, and producing fill reducing - orderings for sparse matrices. The algorithms implemented in - METIS are based on the multilevel recursive-bisection, - multilevel k-way, and multi-constraint partitioning schemes.""" - - homepage = "http://glaros.dtc.umn.edu/gkhome/metis/metis/overview" - url = "http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/metis-5.1.0.tar.gz" - - version('5.1.0', '5465e67079419a69e0116de24fce58fe') - - depends_on('mpi') - - def install(self, spec, prefix): - cmake(".", - '-DGKLIB_PATH=%s/GKlib' % pwd(), - '-DSHARED=1', - '-DCMAKE_C_COMPILER=mpicc', - '-DCMAKE_CXX_COMPILER=mpicxx', - '-DSHARED=1', - *std_cmake_args) - - make() - make("install") diff --git a/var/spack/packages/mrnet/package.py b/var/spack/packages/mrnet/package.py deleted file mode 100644 index 6e9766f275..0000000000 --- a/var/spack/packages/mrnet/package.py +++ /dev/null @@ -1,20 +0,0 @@ -from spack import * - -class Mrnet(Package): - """The MRNet Multi-Cast Reduction Network.""" - homepage = "http://paradyn.org/mrnet" - url = "ftp://ftp.cs.wisc.edu/paradyn/mrnet/mrnet_4.0.0.tar.gz" - - version('4.0.0', 'd00301c078cba57ef68613be32ceea2f') - version('4.1.0', '5a248298b395b329e2371bf25366115c') - - parallel = False - - depends_on("boost") - - def install(self, spec, prefix): - configure("--prefix=%s" %prefix, "--enable-shared") - - make() - make("install") - diff --git a/var/spack/packages/mvapich2/package.py b/var/spack/packages/mvapich2/package.py deleted file mode 100644 index ca0b1287c1..0000000000 --- a/var/spack/packages/mvapich2/package.py +++ /dev/null @@ -1,104 +0,0 @@ -import os -from spack import * - -class Mvapich2(Package): - """mvapich2 is an MPI implmenetation for infiniband networks.""" - homepage = "http://mvapich.cse.ohio-state.edu/" - - version('1.9', '5dc58ed08fd3142c260b70fe297e127c', - url="http://mvapich.cse.ohio-state.edu/download/mvapich2/mv2/mvapich2-1.9.tgz") - patch('ad_lustre_rwcontig_open_source.patch', when='@1.9') - - version('2.0', '9fbb68a4111a8b6338e476dc657388b4', - url='http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.0.tar.gz') - - provides('mpi@:2.2', when='@1.9') # MVAPICH2-1.9 supports MPI 2.2 - provides('mpi@:3.0', when='@2.0') # MVAPICH2-2.0 supports MPI 3.0 - - - def install(self, spec, prefix): - # we'll set different configure flags depending on our environment - configure_args = [] - - # TODO: The MPICH*_FLAGS have a different name for 1.9 - - if '+debug' in spec: - # set configure flags for debug build - configure_args.append("--disable-fast") - configure_args.append("--enable-g=dbg") - configure_args.append("--enable-error-checking=runtime") - configure_args.append("--enable-error-messages=all") - configure_args.append("--enable-nmpi-as-mpi") - - if "%gnu" in spec: - # set variables for GNU compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O0" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0" - os.environ['MPICHLIB_FFLAGS'] = "-g -O0 -fno-second-underscore" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O0 -fno-second-underscore" - elif "%intel" in spec: - # set variables for Inel compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O0" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0" - os.environ['MPICHLIB_FFLAGS'] = "-g -O0" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O0" - elif "%pgi" in spec: - # set variables for PGI compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O0 -fPIC" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O0 -fPIC" - os.environ['MPICHLIB_FFLAGS'] = "-g -O0 -fPIC" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O0 -fPIC" - - else: - # set configure flags for normal optimizations - configure_args.append("--enable-fast=all") - configure_args.append("--enable-g=dbg") - configure_args.append("--enable-nmpi-as-mpi") - - if "%gnu" in spec: - # set variables for what compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O2" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2" - os.environ['MPICHLIB_FFLAGS'] = "-g -O2 -fno-second-underscore" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O2 -fno-second-underscore" - elif "%intel" in spec: - # set variables for Inel compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O2" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2" - os.environ['MPICHLIB_FFLAGS'] = "-g -O2" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O2" - elif "%pgi" in spec: - # set variables for PGI compilers - os.environ['MPICHLIB_CFLAGS'] = "-g -O2 -fPIC" - os.environ['MPICHLIB_CXXFLAGS'] = "-g -O2 -fPIC" - os.environ['MPICHLIB_FFLAGS'] = "-g -O2 -fPIC" - os.environ['MPICHLIB_F90FLAGS'] = "-g -O2 -fPIC" - - # determine network type by variant - if "+psm" in spec: - # throw this flag on QLogic systems to use PSM - configure_args.append("--with-device=ch3:psm") - else: - # throw this flag on IB systems - configure_args.append("--with-device=ch3:mrail", "--with-rdma=gen2") - - # TODO: shared-memory build - - # TODO: CUDA - - # TODO: other file systems like panasis - - configure( - "--prefix=" + prefix, - "--enable-f77", "--enable-fc", "--enable-cxx", - "--enable-shared", "--enable-sharedlibs=gcc", - "--enable-debuginfo", - "--with-pm=no", "--with-pmi=slurm", - "--enable-romio", "--with-file-system=lustre+nfs+ufs", - "--disable-mpe", "--without-mpe", - "--disable-silent-rules", - *configure_args) - - make() - - make("install") diff --git a/var/spack/packages/ncurses/package.py b/var/spack/packages/ncurses/package.py deleted file mode 100644 index cc180bbae1..0000000000 --- a/var/spack/packages/ncurses/package.py +++ /dev/null @@ -1,33 +0,0 @@ -from spack import * - -class Ncurses(Package): - """The ncurses (new curses) library is a free software emulation of curses - in System V Release 4.0, and more. It uses terminfo format, supports pads and - color and multiple highlights and forms characters and function-key mapping, - and has all the other SYSV-curses enhancements over BSD curses. - """ - - homepage = "http://invisible-island.net/ncurses/ncurses.html" - - version('5.9', '8cb9c412e5f2d96bc6f459aa8c6282a1', - url='http://ftp.gnu.org/pub/gnu/ncurses/ncurses-5.9.tar.gz') - version('6.0', 'ee13d052e1ead260d7c28071f46eefb1', - url='http://ftp.gnu.org/pub/gnu/ncurses/ncurses-6.0.tar.gz') - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--with-shared", - "--enable-widec", - "--disable-pc-files", - "--without-ada") - make() - make("install") - - configure("--prefix=%s" % prefix, - "--with-shared", - "--disable-widec", - "--disable-pc-files", - "--without-ada") - make() - make("install") - diff --git a/var/spack/packages/netcdf/netcdf-4.3.3-mpi.patch b/var/spack/packages/netcdf/netcdf-4.3.3-mpi.patch deleted file mode 100644 index 46dda5fc9d..0000000000 --- a/var/spack/packages/netcdf/netcdf-4.3.3-mpi.patch +++ /dev/null @@ -1,25 +0,0 @@ -diff -Nur netcdf-4.3.3/CMakeLists.txt netcdf-4.3.3.mpi/CMakeLists.txt ---- netcdf-4.3.3/CMakeLists.txt 2015-02-12 16:44:35.000000000 -0500 -+++ netcdf-4.3.3.mpi/CMakeLists.txt 2015-10-14 16:44:41.176300658 -0400 -@@ -753,6 +753,7 @@ - SET(USE_PARALLEL OFF CACHE BOOL "") - MESSAGE(STATUS "Cannot find HDF5 library built with parallel support. Disabling parallel build.") - ELSE() -+ FIND_PACKAGE(MPI REQUIRED) - SET(USE_PARALLEL ON CACHE BOOL "") - SET(STATUS_PARALLEL "ON") - ENDIF() -diff -Nur netcdf-4.3.3/liblib/CMakeLists.txt netcdf-4.3.3.mpi/liblib/CMakeLists.txt ---- netcdf-4.3.3/liblib/CMakeLists.txt 2015-02-12 16:44:35.000000000 -0500 -+++ netcdf-4.3.3.mpi/liblib/CMakeLists.txt 2015-10-14 16:44:57.757793634 -0400 -@@ -71,6 +71,10 @@ - SET(TLL_LIBS ${TLL_LIBS} ${CURL_LIBRARY}) - ENDIF() - -+IF(USE_PARALLEL) -+ SET(TLL_LIBS ${TLL_LIBS} ${MPI_C_LIBRARIES}) -+ENDIF() -+ - IF(USE_HDF4) - SET(TLL_LIBS ${TLL_LIBS} ${HDF4_LIBRARIES}) - ENDIF() diff --git a/var/spack/packages/netcdf/package.py b/var/spack/packages/netcdf/package.py deleted file mode 100644 index e1e0d836c6..0000000000 --- a/var/spack/packages/netcdf/package.py +++ /dev/null @@ -1,27 +0,0 @@ -from spack import * - -class Netcdf(Package): - """NetCDF is a set of software libraries and self-describing, machine-independent - data formats that support the creation, access, and sharing of array-oriented - scientific data.""" - - homepage = "http://www.unidata.ucar.edu/software/netcdf/" - url = "ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-4.3.3.tar.gz" - - version('4.3.3', '5fbd0e108a54bd82cb5702a73f56d2ae') - - patch('netcdf-4.3.3-mpi.patch') - - # Dependencies: - # >HDF5 - depends_on("hdf5") - - def install(self, spec, prefix): - with working_dir('spack-build', create=True): - cmake('..', - "-DCMAKE_INSTALL_PREFIX:PATH=%s" % prefix, - "-DENABLE_DAP:BOOL=OFF", # Disable DAP. - "-DBUILD_SHARED_LIBS:BOOL=OFF") # Don't build shared libraries (use static libs). - - make() - make("install") diff --git a/var/spack/packages/netlib-blas/package.py b/var/spack/packages/netlib-blas/package.py deleted file mode 100644 index 85e97323d3..0000000000 --- a/var/spack/packages/netlib-blas/package.py +++ /dev/null @@ -1,46 +0,0 @@ -from spack import * -import os - - -class NetlibBlas(Package): - """Netlib reference BLAS""" - homepage = "http://www.netlib.org/lapack/" - url = "http://www.netlib.org/lapack/lapack-3.5.0.tgz" - - version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf') - - variant('fpic', default=False, description="Build with -fpic compiler option") - - # virtual dependency - provides('blas') - - # Doesn't always build correctly in parallel - parallel = False - - def patch(self): - os.symlink('make.inc.example', 'make.inc') - - mf = FileFilter('make.inc') - mf.filter('^FORTRAN.*', 'FORTRAN = f90') - mf.filter('^LOADER.*', 'LOADER = f90') - mf.filter('^CC =.*', 'CC = cc') - - if '+fpic' in self.spec: - mf.filter('^OPTS.*=.*', 'OPTS = -O2 -frecursive -fpic') - mf.filter('^CFLAGS =.*', 'CFLAGS = -O3 -fpic') - - - def install(self, spec, prefix): - make('blaslib') - - # Tests that blas builds correctly - make('blas_testing') - - # No install provided - mkdirp(prefix.lib) - install('librefblas.a', prefix.lib) - - # Blas virtual package should provide blas.a and libblas.a - with working_dir(prefix.lib): - symlink('librefblas.a', 'blas.a') - symlink('librefblas.a', 'libblas.a') diff --git a/var/spack/packages/netlib-lapack/package.py b/var/spack/packages/netlib-lapack/package.py deleted file mode 100644 index fb6b99e27c..0000000000 --- a/var/spack/packages/netlib-lapack/package.py +++ /dev/null @@ -1,59 +0,0 @@ -from spack import * - -class NetlibLapack(Package): - """ - LAPACK version 3.X is a comprehensive FORTRAN library that does - linear algebra operations including matrix inversions, least - squared solutions to linear sets of equations, eigenvector - analysis, singular value decomposition, etc. It is a very - comprehensive and reputable package that has found extensive - use in the scientific community. - """ - homepage = "http://www.netlib.org/lapack/" - url = "http://www.netlib.org/lapack/lapack-3.5.0.tgz" - - version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf') - version('3.4.2', '61bf1a8a4469d4bdb7604f5897179478') - version('3.4.1', '44c3869c38c8335c2b9c2a8bb276eb55') - version('3.4.0', '02d5706ec03ba885fc246e5fa10d8c70') - version('3.3.1', 'd0d533ec9a5b74933c2a1e84eedc58b4') - - variant('shared', default=False, description="Build shared library version") - - # virtual dependency - provides('lapack') - - # blas is a virtual dependency. - depends_on('blas') - - depends_on('cmake') - - # Doesn't always build correctly in parallel - parallel = False - - @when('^netlib-blas') - def get_blas_libs(self): - blas = self.spec['netlib-blas'] - return [join_path(blas.prefix.lib, 'blas.a')] - - - @when('^atlas') - def get_blas_libs(self): - blas = self.spec['atlas'] - return [join_path(blas.prefix.lib, l) - for l in ('libf77blas.a', 'libatlas.a')] - - - def install(self, spec, prefix): - blas_libs = ";".join(self.get_blas_libs()) - cmake_args = [".", '-DBLAS_LIBRARIES=' + blas_libs] - - if '+shared' in spec: - cmake_args.append('-DBUILD_SHARED_LIBS=ON') - - cmake_args += std_cmake_args - - cmake(*cmake_args) - make() - make("install") - diff --git a/var/spack/packages/opari2/package.py b/var/spack/packages/opari2/package.py deleted file mode 100644 index daaee61e3a..0000000000 --- a/var/spack/packages/opari2/package.py +++ /dev/null @@ -1,65 +0,0 @@ -# FIXME: Add copyright statement here - -from spack import * -from contextlib import closing - -class Opari2(Package): - """OPARI2 is a source-to-source instrumentation tool for OpenMP and - hybrid codes. It surrounds OpenMP directives and runtime library - calls with calls to the POMP2 measurement interface. - OPARI2 will provide you with a new initialization method that allows - for multi-directory and parallel builds as well as the usage of - pre-instrumented libraries. Furthermore, an efficient way of - tracking parent-child relationships was added. Additionally, we - extended OPARI2 to support instrumentation of OpenMP 3.0 - tied tasks. """ - - homepage = "http://www.vi-hps.org/projects/score-p" - url = "http://www.vi-hps.org/upload/packages/opari2/opari2-1.1.2.tar.gz" - - version('1.1.2', '9a262c7ca05ff0ab5f7775ae96f3539e') - - backend_user_provided = """\ -CC=cc -CXX=c++ -F77=f77 -FC=f90 -CFLAGS=-fPIC -CXXFLAGS=-fPIC -""" - frontend_user_provided = """\ -CC_FOR_BUILD=cc -CXX_FOR_BUILD=c++ -F77_FOR_BUILD=f70 -FC_FOR_BUILD=f90 -CFLAGS_FOR_BUILD=-fPIC -CXXFLAGS_FOR_BUILD=-fPIC -""" - mpi_user_provided = """\ -MPICC=mpicc -MPICXX=mpicxx -MPIF77=mpif77 -MPIFC=mpif90 -MPI_CFLAGS=-fPIC -MPI_CXXFLAGS=-fPIC -""" - - def install(self, spec, prefix): - # Use a custom compiler configuration, otherwise the score-p - # build system messes with spack's compiler settings. - # Create these three files in the build directory - with closing(open("platform-backend-user-provided", "w")) as backend_file: - backend_file.write(self.backend_user_provided) - with closing(open("platform-frontend-user-provided", "w")) as frontend_file: - frontend_file.write(self.frontend_user_provided) - with closing(open("platform-mpi-user-provided", "w")) as mpi_file: - mpi_file.write(self.mpi_user_provided) - - # FIXME: Modify the configure line to suit your build system here. - configure("--prefix=%s" % prefix, - "--with-custom-compilers", - "--enable-shared") - - # FIXME: Add logic to build and install here - make() - make("install") diff --git a/var/spack/packages/openssl/package.py b/var/spack/packages/openssl/package.py deleted file mode 100644 index c5a8aeb9dc..0000000000 --- a/var/spack/packages/openssl/package.py +++ /dev/null @@ -1,26 +0,0 @@ -from spack import * - -class Openssl(Package): - """The OpenSSL Project is a collaborative effort to develop a - robust, commercial-grade, full-featured, and Open Source - toolkit implementing the Secure Sockets Layer (SSL v2/v3) and - Transport Layer Security (TLS v1) protocols as well as a - full-strength general purpose cryptography library.""" - homepage = "http://www.openssl.org" - url = "http://www.openssl.org/source/openssl-1.0.1h.tar.gz" - - version('1.0.1h', '8d6d684a9430d5cc98a62a5d8fbda8cf') - - depends_on("zlib") - parallel = False - - def install(self, spec, prefix): - config = Executable("./config") - config("--prefix=%s" % prefix, - "--openssldir=%s/etc/openssl" % prefix, - "zlib", - "no-krb5", - "shared") - - make() - make("install") diff --git a/var/spack/packages/otf2/package.py b/var/spack/packages/otf2/package.py deleted file mode 100644 index fa0a5898b6..0000000000 --- a/var/spack/packages/otf2/package.py +++ /dev/null @@ -1,74 +0,0 @@ -# FIXME: Add copyright - -from spack import * -from contextlib import closing -import os - -class Otf2(Package): - """The Open Trace Format 2 is a highly scalable, memory efficient event - trace data format plus support library.""" - - homepage = "http://www.vi-hps.org/score-p" - url = "http://www.vi-hps.org/upload/packages/otf2/otf2-1.4.tar.gz" - - version('1.4', 'a23c42e936eb9209c4e08b61c3cf5092', - url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.4.tar.gz") - version('1.3.1', 'd0ffc4e858455ace4f596f910e68c9f2', - url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.3.1.tar.gz") - version('1.2.1', '8fb3e11fb7489896596ae2c7c83d7fc8', - url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.2.1.tar.gz") - - backend_user_provided = """\ -CC=cc -CXX=c++ -F77=f77 -FC=f90 -CFLAGS=-fPIC -CXXFLAGS=-fPIC -""" - frontend_user_provided = """\ -CC_FOR_BUILD=cc -CXX_FOR_BUILD=c++ -F77_FOR_BUILD=f70 -FC_FOR_BUILD=f90 -CFLAGS_FOR_BUILD=-fPIC -CXXFLAGS_FOR_BUILD=-fPIC -""" - mpi_user_provided = """\ -MPICC=cc -MPICXX=c++ -MPIF77=f77 -MPIFC=f90 -MPI_CFLAGS=-fPIC -MPI_CXXFLAGS=-fPIC -""" - - @when('@:1.2.1') - def version_specific_args(self): - return ["--with-platform=disabled", "CC=cc", "CXX=c++", "F77=f77", "F90=f90", "CFLAGS=-fPIC", "CXXFLAGS=-fPIC"] - - @when('@1.3:') - def version_specific_args(self): - # TODO: figure out what scorep's build does as of otf2 1.3 - return ["--with-custom-compilers"] - - def install(self, spec, prefix): - # Use a custom compiler configuration, otherwise the score-p - # build system messes with spack's compiler settings. - # Create these three files in the build directory - with closing(open("platform-backend-user-provided", "w")) as backend_file: - backend_file.write(self.backend_user_provided) - with closing(open("platform-frontend-user-provided", "w")) as frontend_file: - frontend_file.write(self.frontend_user_provided) - with closing(open("platform-mpi-user-provided", "w")) as mpi_file: - mpi_file.write(self.mpi_user_provided) - - configure_args=["--prefix=%s" % prefix, - "--enable-shared"] - - configure_args.extend(self.version_specific_args()) - - configure(*configure_args) - - make() - make("install") diff --git a/var/spack/packages/papi/package.py b/var/spack/packages/papi/package.py deleted file mode 100644 index 596f7114d6..0000000000 --- a/var/spack/packages/papi/package.py +++ /dev/null @@ -1,35 +0,0 @@ -from spack import * -import os - -class Papi(Package): - """PAPI provides the tool designer and application engineer with a - consistent interface and methodology for use of the performance - counter hardware found in most major microprocessors. PAPI - enables software engineers to see, in near real time, the - relation between software performance and processor events. In - addition Component PAPI provides access to a collection of - components that expose performance measurement opportunites - across the hardware and software stack.""" - homepage = "http://icl.cs.utk.edu/papi/index.html" - url = "http://icl.cs.utk.edu/projects/papi/downloads/papi-5.3.0.tar.gz" - - version('5.3.0', '367961dd0ab426e5ae367c2713924ffb') - - def install(self, spec, prefix): - os.chdir("src/") - - configure_args=["--prefix=%s" % prefix] - - # need to force consistency in the use of compilers - if spec.satisfies('%gcc'): - configure_args.append('CC=gcc') - configure_args.append('MPICH_CC=gcc') - if spec.satisfies('%intel'): - configure_args.append('CC=icc') - configure_args.append('MPICH_CC=icc') - - configure(*configure_args) - - make() - make("install") - diff --git a/var/spack/packages/parmetis/package.py b/var/spack/packages/parmetis/package.py deleted file mode 100644 index d8cd337304..0000000000 --- a/var/spack/packages/parmetis/package.py +++ /dev/null @@ -1,26 +0,0 @@ -from spack import * - -class Parmetis(Package): - """ParMETIS is an MPI-based parallel library that implements a - variety of algorithms for partitioning unstructured graphs, - meshes, and for computing fill-reducing orderings of sparse - matrices.""" - homepage = "http://glaros.dtc.umn.edu/gkhome/metis/parmetis/overview" - url = "http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis/parmetis-4.0.3.tar.gz" - - version('4.0.3', 'f69c479586bf6bb7aff6a9bc0c739628') - - depends_on('mpi') - - def install(self, spec, prefix): - cmake(".", - '-DGKLIB_PATH=%s/metis/GKlib' % pwd(), - '-DMETIS_PATH=%s/metis' % pwd(), - '-DSHARED=1', - '-DCMAKE_C_COMPILER=mpicc', - '-DCMAKE_CXX_COMPILER=mpicxx', - '-DSHARED=1', - *std_cmake_args) - - make() - make("install") diff --git a/var/spack/packages/petsc/package.py b/var/spack/packages/petsc/package.py deleted file mode 100644 index 4864e39bf1..0000000000 --- a/var/spack/packages/petsc/package.py +++ /dev/null @@ -1,40 +0,0 @@ -from spack import * - -class Petsc(Package): - """PETSc is a suite of data structures and routines for the - scalable (parallel) solution of scientific applications modeled by - partial differential equations.""" - - homepage = "http://www.mcs.anl.gov/petsc/index.html" - url = "http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/petsc-3.5.3.tar.gz" - - version('3.5.3', 'd4fd2734661e89f18ac6014b5dd1ef2f') - version('3.5.2', 'ad170802b3b058b5deb9cd1f968e7e13') - version('3.5.1', 'a557e029711ebf425544e117ffa44d8f') - - depends_on("boost") - depends_on("blas") - depends_on("lapack") - depends_on("hypre") - depends_on("parmetis") - depends_on("metis") - depends_on("hdf5") - depends_on("mpi") - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "CC=cc", - "CXX=c++", - "FC=f90", - "--with-blas-lib=%s/libblas.a" % spec['blas'].prefix.lib, - "--with-lapack-lib=%s/liblapack.a" % spec['lapack'].prefix.lib, - "--with-boost-dir=%s" % spec['boost'].prefix, - "--with-hypre-dir=%s" % spec['hypre'].prefix, - "--with-parmetis-dir=%s" % spec['parmetis'].prefix, - "--with-metis-dir=%s" % spec['metis'].prefix, - "--with-hdf5-dir=%s" % spec['hdf5'].prefix, - "--with-shared-libraries=0") - - # PETSc has its own way of doing parallel make. - make('MAKE_NP=%s' % make_jobs, parallel=False) - make("install") diff --git a/var/spack/packages/py-libxml2/package.py b/var/spack/packages/py-libxml2/package.py deleted file mode 100644 index 59005428e4..0000000000 --- a/var/spack/packages/py-libxml2/package.py +++ /dev/null @@ -1,15 +0,0 @@ -from spack import * - -class PyLibxml2(Package): - """A Python wrapper around libxml2.""" - homepage = "https://xmlsoft.org/python.html" - url = "ftp://xmlsoft.org/libxml2/python/libxml2-python-2.6.21.tar.gz" - - version('2.6.21', '229dd2b3d110a77defeeaa73af83f7f3') - - extends('python') - depends_on('libxml2') - depends_on('libxslt') - - def install(self, spec, prefix): - python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-numpy/package.py b/var/spack/packages/py-numpy/package.py deleted file mode 100644 index efa109a3e9..0000000000 --- a/var/spack/packages/py-numpy/package.py +++ /dev/null @@ -1,28 +0,0 @@ -from spack import * - -class PyNumpy(Package): - """array processing for numbers, strings, records, and objects.""" - homepage = "https://pypi.python.org/pypi/numpy" - url = "https://pypi.python.org/packages/source/n/numpy/numpy-1.9.1.tar.gz" - - version('1.9.1', '78842b73560ec378142665e712ae4ad9') - version('1.9.2', 'a1ed53432dbcd256398898d35bc8e645') - - extends('python') - depends_on('py-nose') - depends_on('netlib-blas+fpic') - depends_on('netlib-lapack+shared') - - def patch(self): - filter_file( - "possible_executables = \['(gfortran|g77|ifort|efl)", - "possible_executables = ['fc", - "numpy/distutils/fcompiler/gnu.py", - "numpy/distutils/fcompiler/intel.py") - - def install(self, spec, prefix): - with open('site.cfg', 'w') as f: - f.write('[DEFAULT]\n') - f.write('libraries=lapack,blas\n') - f.write('library_dirs=%s/lib:%s/lib\n' % (spec['blas'].prefix, spec['lapack'].prefix)) - python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-scipy/package.py b/var/spack/packages/py-scipy/package.py deleted file mode 100644 index 3a1124cc15..0000000000 --- a/var/spack/packages/py-scipy/package.py +++ /dev/null @@ -1,18 +0,0 @@ -from spack import * - -class PyScipy(Package): - """Scientific Library for Python.""" - homepage = "https://pypi.python.org/pypi/scipy" - url = "https://pypi.python.org/packages/source/s/scipy/scipy-0.15.0.tar.gz" - - version('0.15.0', '639112f077f0aeb6d80718dc5019dc7a') - version('0.15.1', 'be56cd8e60591d6332aac792a5880110') - - extends('python') - depends_on('py-nose') - depends_on('py-numpy') - depends_on('blas') - depends_on('lapack') - - def install(self, spec, prefix): - python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/qt/package.py b/var/spack/packages/qt/package.py deleted file mode 100644 index 0e4abe3b1d..0000000000 --- a/var/spack/packages/qt/package.py +++ /dev/null @@ -1,109 +0,0 @@ -import os -from spack import * -import os - -class Qt(Package): - """Qt is a comprehensive cross-platform C++ application framework.""" - homepage = "http://qt.io" - list_url = 'http://download.qt-project.org/official_releases/qt/' - list_depth = 2 - - version('5.4.0', 'e8654e4b37dd98039ba20da7a53877e6', - url='http://download.qt-project.org/official_releases/qt/5.4/5.4.0/single/qt-everywhere-opensource-src-5.4.0.tar.gz') - version('5.3.2', 'febb001129927a70174467ecb508a682', - url='http://download.qt.io/archive/qt/5.3/5.3.2/single/qt-everywhere-opensource-src-5.3.2.tar.gz') - - version('5.2.1', 'a78408c887c04c34ce615da690e0b4c8', - url='http://download.qt.io/archive/qt/5.2/5.2.1/single/qt-everywhere-opensource-src-5.2.1.tar.gz') - version('4.8.6', '2edbe4d6c2eff33ef91732602f3518eb', - url="http://download.qt-project.org/official_releases/qt/4.8/4.8.6/qt-everywhere-opensource-src-4.8.6.tar.gz") - - # Use system openssl for security. - #depends_on("openssl") - - depends_on("glib") - depends_on("gtkplus") - depends_on("libxml2") - depends_on("zlib") - depends_on("dbus") - depends_on("libtiff") - depends_on("libpng") - depends_on("libmng") - depends_on("jpeg") - - # Webkit - # depends_on("gperf") - # depends_on("flex") - # depends_on("bison") - # depends_on("ruby") - # depends_on("icu4c") - - # OpenGL hardware acceleration - depends_on("mesa") - depends_on("libxcb") - - - def setup_dependent_environment(self, module, spec, dep_spec): - """Dependencies of Qt find it using the QTDIR environment variable.""" - os.environ['QTDIR'] = self.prefix - - - def patch(self): - if self.spec.satisfies('@4'): - qmake_conf = 'mkspecs/common/g++-base.conf' - qmake_unix_conf = 'mkspecs/common/g++-unix.conf' - elif self.spec.satisfies('@5'): - qmake_conf = 'qtbase/mkspecs/common/g++-base.conf' - qmake_unix_conf = 'qtbase/mkspecs/common/g++-unix.conf' - else: - return - - # Fix qmake compilers in the default mkspec - filter_file(r'^QMAKE_COMPILER *=.*$', 'QMAKE_COMPILER = cc', qmake_conf) - filter_file(r'^QMAKE_CC *=.*$', 'QMAKE_CC = cc', qmake_conf) - filter_file(r'^QMAKE_CXX *=.*$', 'QMAKE_CXX = c++', qmake_conf) - filter_file(r'^QMAKE_LFLAGS_NOUNDEF *\+?=.*$', 'QMAKE_LFLAGS_NOUNDEF =', qmake_unix_conf) - - - @property - def common_config_args(self): - return [ - '-prefix', self.prefix, - '-v', - '-opensource', - '-opengl', - "-release", - '-shared', - '-confirm-license', - '-openssl-linked', - '-dbus-linked', - '-optimized-qmake', - '-no-openvg', - '-no-pch', - # NIS is deprecated in more recent glibc - "-no-nis"] - # Don't disable all the database drivers, but should - # really get them into spack at some point. - - - @when('@4') - def configure(self): - configure('-fast', - '-no-webkit', - *self.common_config_args) - - - @when('@5') - def configure(self): - configure('-no-eglfs', - '-no-directfb', - '-qt-xcb', - # If someone wants to get a webkit build working, be my guest! - '-skip', 'qtwebkit', - *self.common_config_args) - - - def install(self, spec, prefix): - self.configure() - make() - make("install") diff --git a/var/spack/packages/scalasca/package.py b/var/spack/packages/scalasca/package.py deleted file mode 100644 index cf7a40c1f5..0000000000 --- a/var/spack/packages/scalasca/package.py +++ /dev/null @@ -1,65 +0,0 @@ -# FIXME: Add copyright - -from spack import * - -class Scalasca(Package): - """Scalasca is a software tool that supports the performance optimization - of parallel programs by measuring and analyzing their runtime behavior. - The analysis identifies potential performance bottlenecks - in - particular those concerning communication and synchronization - and - offers guidance in exploring their causes.""" - - # FIXME: add a proper url for your package's homepage here. - homepage = "http://www.scalasca.org" - url = "http://apps.fz-juelich.de/scalasca/releases/scalasca/2.1/dist/scalasca-2.1.tar.gz" - - version('2.1', 'bab9c2b021e51e2ba187feec442b96e6', - url = 'http://apps.fz-juelich.de/scalasca/releases/scalasca/2.1/dist/scalasca-2.1.tar.gz' ) - - depends_on("mpi") - depends_on("otf2@1.4") - depends_on("cube@4.2.3") - - backend_user_provided = """\ -CC=cc -CXX=c++ -F77=f77 -FC=f90 -CFLAGS=-fPIC -CXXFLAGS=-fPIC -""" - frontend_user_provided = """\ -CC_FOR_BUILD=cc -CXX_FOR_BUILD=c++ -F77_FOR_BUILD=f70 -FC_FOR_BUILD=f90 -CFLAGS_FOR_BUILD=-fPIC -CXXFLAGS_FOR_BUILD=-fPIC -""" - mpi_user_provided = """\ -MPICC=mpicc -MPICXX=mpicxx -MPIF77=mpif77 -MPIFC=mpif90 -MPI_CFLAGS=-fPIC -MPI_CXXFLAGS=-fPIC -""" - - def install(self, spec, prefix): - configure_args = ["--prefix=%s" % prefix, - "--with-custom-compilers", - "--with-otf2=%s" % spec['otf2'].prefix.bin, - "--with-cube=%s" % spec['cube'].prefix.bin, - "--enable-shared"] - - configure(*configure_args) - - make() - make("install") - - # FIXME: Modify the configure line to suit your build system here. - configure("--prefix=%s" % prefix) - - # FIXME: Add logic to build and install here - make() - make("install") diff --git a/var/spack/packages/scorep/package.py b/var/spack/packages/scorep/package.py deleted file mode 100644 index f013bd1cbb..0000000000 --- a/var/spack/packages/scorep/package.py +++ /dev/null @@ -1,74 +0,0 @@ -# FIXME: Add copyright statement - -from spack import * - -class Scorep(Package): - """The Score-P measurement infrastructure is a highly scalable and - easy-to-use tool suite for profiling, event tracing, and online - analysis of HPC applications.""" - - # FIXME: add a proper url for your package's homepage here. - homepage = "http://www.vi-hps.org/projects/score-p" - url = "http://www.vi-hps.org/upload/packages/scorep/scorep-1.2.3.tar.gz" - - version('1.3', '9db6f957b7f51fa01377a9537867a55c', - url = 'http://www.vi-hps.org/upload/packages/scorep/scorep-1.3.tar.gz') - - version('1.2.3', '4978084e7cbd05b94517aa8beaea0817') - - depends_on("mpi") - depends_on("papi") - # depends_on("otf2@1.2:1.2.1") # only Score-P 1.2.x - depends_on("otf2") - depends_on("opari2") - depends_on("cube@4.2:4.2.3") - - backend_user_provided = """\ -CC=cc -CXX=c++ -F77=f77 -FC=f90 -CFLAGS=-fPIC -CXXFLAGS=-fPIC -""" - frontend_user_provided = """\ -CC_FOR_BUILD=cc -CXX_FOR_BUILD=c++ -F77_FOR_BUILD=f70 -FC_FOR_BUILD=f90 -CFLAGS_FOR_BUILD=-fPIC -CXXFLAGS_FOR_BUILD=-fPIC -""" - mpi_user_provided = """\ -MPICC=mpicc -MPICXX=mpicxx -MPIF77=mpif77 -MPIFC=mpif90 -MPI_CFLAGS=-fPIC -MPI_CXXFLAGS=-fPIC -""" - - def install(self, spec, prefix): - # Use a custom compiler configuration, otherwise the score-p - # build system messes with spack's compiler settings. - # Create these three files in the build directory - with open("platform-backend-user-provided", "w") as backend_file: - backend_file.write(self.backend_user_provided) - with open("platform-frontend-user-provided", "w") as frontend_file: - frontend_file.write(self.frontend_user_provided) - with open("platform-mpi-user-provided", "w") as mpi_file: - mpi_file.write(self.mpi_user_provided) - - configure_args = ["--prefix=%s" % prefix, - "--with-custom-compilers", - "--with-otf2=%s" % spec['otf2'].prefix.bin, - "--with-opari2=%s" % spec['opari2'].prefix.bin, - "--with-cube=%s" % spec['cube'].prefix.bin, - "--with-papi-header=%s" % spec['papi'].prefix.include, - "--with-papi-lib=%s" % spec['papi'].prefix.lib, - "--enable-shared"] - - configure(*configure_args) - - make() - make("install") diff --git a/var/spack/packages/scotch/package.py b/var/spack/packages/scotch/package.py deleted file mode 100644 index 79289ff2ad..0000000000 --- a/var/spack/packages/scotch/package.py +++ /dev/null @@ -1,40 +0,0 @@ -from spack import * -import glob -import os - -class Scotch(Package): - """Scotch is a software package for graph and mesh/hypergraph - partitioning, graph clustering, and sparse matrix ordering.""" - homepage = "http://www.labri.fr/perso/pelegrin/scotch/" - url = "http://gforge.inria.fr/frs/download.php/file/34099/scotch_6.0.3.tar.gz" - list_url = "http://gforge.inria.fr/frs/?group_id=248" - - version('6.0.3', '10b0cc0f184de2de99859eafaca83cfc') - - depends_on('mpi') - - - def patch(self): - with working_dir('src/Make.inc'): - makefiles = glob.glob('Makefile.inc.x86-64_pc_linux2*') - filter_file(r'^CCS\s*=.*$', 'CCS = cc', *makefiles) - filter_file(r'^CCD\s*=.*$', 'CCD = cc', *makefiles) - - - def install(self, spec, prefix): - # Currently support gcc and icc on x86_64 (maybe others with - # vanilla makefile) - makefile = 'Make.inc/Makefile.inc.x86-64_pc_linux2' - if spec.satisfies('%icc'): - makefile += '.icc' - - with working_dir('src'): - force_symlink(makefile, 'Makefile.inc') - for app in ('scotch', 'ptscotch'): - make(app) - - install_tree('bin', prefix.bin) - install_tree('lib', prefix.lib) - install_tree('include', prefix.include) - install_tree('man/man1', prefix.share_man1) - diff --git a/var/spack/packages/silo/package.py b/var/spack/packages/silo/package.py deleted file mode 100644 index 9eda11df15..0000000000 --- a/var/spack/packages/silo/package.py +++ /dev/null @@ -1,19 +0,0 @@ -from spack import * - -class Silo(Package): - """Silo is a library for reading and writing a wide variety of scientific data to binary, disk files.""" - - homepage = "http://wci.llnl.gov/simulation/computer-codes/silo" - url = "https://wci.llnl.gov/content/assets/docs/simulation/computer-codes/silo/silo-4.8/silo-4.8.tar.gz" - - #version('4.9', 'a83eda4f06761a86726e918fc55e782a') - version('4.8', 'b1cbc0e7ec435eb656dc4b53a23663c9') - - depends_on("hdf5@:1.8.12") - - def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--with-hdf5=%s" %spec['hdf5'].prefix) - - make() - make("install") diff --git a/var/spack/packages/tau/package.py b/var/spack/packages/tau/package.py deleted file mode 100644 index 048fac80aa..0000000000 --- a/var/spack/packages/tau/package.py +++ /dev/null @@ -1,36 +0,0 @@ -from spack import * - -import os -from llnl.util.filesystem import join_path - -class Tau(Package): - """A portable profiling and tracing toolkit for performance - analysis of parallel programs written in Fortran, C, C++, UPC, - Java, Python.""" - homepage = "http://www.cs.uoregon.edu/research/tau" - url = "http://www.cs.uoregon.edu/research/paracomp/tau/tauprofile/dist/tau-2.23.1.tar.gz" - - version('2.23.1', '6593b47ae1e7a838e632652f0426fe72') - - def install(self, spec, prefix): - # TAU isn't happy with directories that have '@' in the path. Sigh. - change_sed_delimiter('@', ';', 'configure') - change_sed_delimiter('@', ';', 'utils/FixMakefile') - change_sed_delimiter('@', ';', 'utils/FixMakefile.sed.default') - - # After that, it's relatively standard. - configure("-prefix=%s" % prefix) - make("install") - - # Link arch-specific directories into prefix since there is - # only one arch per prefix the way spack installs. - self.link_tau_arch_dirs() - - - def link_tau_arch_dirs(self): - for subdir in os.listdir(self.prefix): - for d in ('bin', 'lib'): - src = join_path(self.prefix, subdir, d) - dest = join_path(self.prefix, d) - if os.path.isdir(src) and not os.path.exists(dest): - os.symlink(join_path(subdir, d), dest) diff --git a/var/spack/packages/thrift/package.py b/var/spack/packages/thrift/package.py deleted file mode 100644 index 0e15052f64..0000000000 --- a/var/spack/packages/thrift/package.py +++ /dev/null @@ -1,44 +0,0 @@ -from spack import * - -class Thrift(Package): - """The Apache Thrift software framework, for scalable cross-language services - development, combines a software stack with a code generation engine to build - services that work efficiently and seamlessly between C++, Java, Python, PHP, - Ruby, Erlang, Perl, Haskell, C#, Cocoa, JavaScript, Node.js, Smalltalk, OCaml - and Delphi and other languages.""" - - homepage = "http://thrift.apache.org" - url = "http://apache.mirrors.ionfish.org/thrift/0.9.2/thrift-0.9.2.tar.gz" - - version('0.9.2', '89f63cc4d0100912f4a1f8a9dee63678') - - extends("python") - - depends_on("autoconf") - depends_on("automake") - depends_on("bison") - depends_on("boost") - depends_on("flex") - depends_on("jdk") - depends_on("libtool") - depends_on("openssl") - depends_on("python") - - # Compilation fails for most languages, fortunately cpp installs fine - # All other languages (yes, including C) are omitted until someone needs them - def install(self, spec, prefix): - env["PY_PREFIX"] = prefix - env["JAVA_PREFIX"] = prefix - - configure("--prefix=%s" % prefix, - "--with-boost=%s" % spec['boost'].prefix, - "--with-c=no", - "--with-go=no", - "--with-python=yes", - "--with-lua=no", - "--with-php=no", - "--with-qt4=no", - "--enable-tests=no") - - make() - make("install") diff --git a/var/spack/packages/trilinos/package.py b/var/spack/packages/trilinos/package.py deleted file mode 100644 index 7c43f796a4..0000000000 --- a/var/spack/packages/trilinos/package.py +++ /dev/null @@ -1,50 +0,0 @@ -from spack import * - - -class Trilinos(Package): - """ - The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented - software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. - A unique design feature of Trilinos is its focus on packages. - """ - homepage = "https://trilinos.org/" - url = "http://trilinos.csbsju.edu/download/files/trilinos-12.2.1-Source.tar.gz" - - version('12.2.1', '6161926ea247863c690e927687f83be9') - version('12.0.1', 'bd99741d047471e127b8296b2ec08017') - version('11.14.3', '2f4f83f8333e4233c57d0f01c4b57426') - version('11.14.2', 'a43590cf896c677890d75bfe75bc6254') - version('11.14.1', '40febc57f76668be8b6a77b7607bb67f') - - variant('mpi', default=True, description='Add a dependency on MPI and enables MPI dependent packages') - - # Everything should be compiled with -fpic - depends_on('blas') - depends_on('lapack') - depends_on('boost') - depends_on('netcdf') - depends_on('matio') - depends_on('glm') - depends_on('swig') - depends_on('mpi', when='+mpi') - - def install(self, spec, prefix): - - options = [ - '-DTrilinos_ENABLE_ALL_PACKAGES:BOOL=ON', - '-DTrilinos_ENABLE_TESTS:BOOL=OFF', - '-DTrilinos_ENABLE_EXAMPLES:BOOL=OFF', - '-DBUILD_SHARED_LIBS:BOOL=ON', - '-DBLAS_LIBRARY_DIRS:PATH=%s' % spec['blas'].prefix, - '-DLAPACK_LIBRARY_DIRS:PATH=%s' % spec['lapack'].prefix - ] - if '+mpi' in spec: - mpi_options = ['-DTPL_ENABLE_MPI:BOOL=ON'] - options.extend(mpi_options) - - # -DCMAKE_INSTALL_PREFIX and all the likes... - options.extend(std_cmake_args) - with working_dir('spack-build', create=True): - cmake('..', *options) - make() - make('install') diff --git a/var/spack/mock_packages/a/package.py b/var/spack/repos/builtin.mock/packages/a/package.py index fa63c08df0..fa63c08df0 100644 --- a/var/spack/mock_packages/a/package.py +++ b/var/spack/repos/builtin.mock/packages/a/package.py diff --git a/var/spack/mock_packages/b/package.py b/var/spack/repos/builtin.mock/packages/b/package.py index cb88aa2157..cb88aa2157 100644 --- a/var/spack/mock_packages/b/package.py +++ b/var/spack/repos/builtin.mock/packages/b/package.py diff --git a/var/spack/mock_packages/c/package.py b/var/spack/repos/builtin.mock/packages/c/package.py index f51b913fa9..f51b913fa9 100644 --- a/var/spack/mock_packages/c/package.py +++ b/var/spack/repos/builtin.mock/packages/c/package.py diff --git a/var/spack/mock_packages/callpath/package.py b/var/spack/repos/builtin.mock/packages/callpath/package.py index 5b6b70ba2a..abc576f78f 100644 --- a/var/spack/mock_packages/callpath/package.py +++ b/var/spack/repos/builtin.mock/packages/callpath/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin.mock/packages/cmake-client/package.py b/var/spack/repos/builtin.mock/packages/cmake-client/package.py new file mode 100644 index 0000000000..a5d3ef156a --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/cmake-client/package.py @@ -0,0 +1,89 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * +import os + +def check(condition, msg): + """Raise an install error if condition is False.""" + if not condition: + raise InstallError(msg) + + +class CmakeClient(Package): + """A dumy package that uses cmake.""" + homepage = 'https://www.example.com' + url = 'https://www.example.com/cmake-client-1.0.tar.gz' + + version('1.0', '4cb3ff35b2472aae70f542116d616e63') + + depends_on('cmake') + + + def setup_environment(self, spack_env, run_env): + spack_cc # Ensure spack module-scope variable is avaiabl + check(from_cmake == "from_cmake", + "setup_environment couldn't read global set by cmake.") + + check(self.spec['cmake'].link_arg == "test link arg", + "link arg on dependency spec not readable from setup_environment.") + + + def setup_dependent_environment(self, spack_env, run_env, dspec): + spack_cc # Ensure spack module-scope variable is avaiable + check(from_cmake == "from_cmake", + "setup_dependent_environment couldn't read global set by cmake.") + + check(self.spec['cmake'].link_arg == "test link arg", + "link arg on dependency spec not readable from setup_dependent_environment.") + + + def setup_dependent_package(self, module, dspec): + spack_cc # Ensure spack module-scope variable is avaiable + check(from_cmake == "from_cmake", + "setup_dependent_package couldn't read global set by cmake.") + + check(self.spec['cmake'].link_arg == "test link arg", + "link arg on dependency spec not readable from setup_dependent_package.") + + + + def install(self, spec, prefix): + # check that cmake is in the global scope. + global cmake + check(cmake is not None, "No cmake was in environment!") + + # check that which('cmake') returns the right one. + cmake = which('cmake') + check(cmake.exe[0].startswith(spec['cmake'].prefix.bin), + "Wrong cmake was in environment: %s" % cmake) + + check(from_cmake == "from_cmake", + "Couldn't read global set by cmake.") + + check(os.environ['from_cmake'] == 'from_cmake', + "Couldn't read env var set in envieonmnt by dependency") + + mkdirp(prefix.bin) + touch(join_path(prefix.bin, 'dummy')) diff --git a/var/spack/repos/builtin.mock/packages/cmake/package.py b/var/spack/repos/builtin.mock/packages/cmake/package.py new file mode 100644 index 0000000000..deb44c2bf7 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/cmake/package.py @@ -0,0 +1,69 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * +import os + +def check(condition, msg): + """Raise an install error if condition is False.""" + if not condition: + raise InstallError(msg) + + +class Cmake(Package): + """A dumy package for the cmake build system.""" + homepage = 'https://www.cmake.org' + url = 'https://cmake.org/files/v3.4/cmake-3.4.3.tar.gz' + + version('3.4.3', '4cb3ff35b2472aae70f542116d616e63', + url='https://cmake.org/files/v3.4/cmake-3.4.3.tar.gz') + + + def setup_environment(self, spack_env, run_env): + spack_cc # Ensure spack module-scope variable is avaiable + spack_env.set('for_install', 'for_install') + + def setup_dependent_environment(self, spack_env, run_env, dspec): + spack_cc # Ensure spack module-scope variable is avaiable + spack_env.set('from_cmake', 'from_cmake') + + + def setup_dependent_package(self, module, dspec): + spack_cc # Ensure spack module-scope variable is avaiable + + self.spec.from_cmake = "from_cmake" + module.from_cmake = "from_cmake" + + self.spec.link_arg = "test link arg" + + + def install(self, spec, prefix): + mkdirp(prefix.bin) + + check(os.environ['for_install'] == 'for_install', + "Couldn't read env var set in compile envieonmnt") + + cmake_exe = join_path(prefix.bin, 'cmake') + touch(cmake_exe) + set_executable(cmake_exe) diff --git a/var/spack/mock_packages/direct_mpich/package.py b/var/spack/repos/builtin.mock/packages/direct_mpich/package.py index 2ced82521b..efe7fc2afc 100644 --- a/var/spack/mock_packages/direct_mpich/package.py +++ b/var/spack/repos/builtin.mock/packages/direct_mpich/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/dyninst/package.py b/var/spack/repos/builtin.mock/packages/dyninst/package.py index 7998578da1..ea57950865 100644 --- a/var/spack/mock_packages/dyninst/package.py +++ b/var/spack/repos/builtin.mock/packages/dyninst/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/e/package.py b/var/spack/repos/builtin.mock/packages/e/package.py index 76c6b64c7f..76c6b64c7f 100644 --- a/var/spack/mock_packages/e/package.py +++ b/var/spack/repos/builtin.mock/packages/e/package.py diff --git a/var/spack/repos/builtin.mock/packages/externalprereq/package.py b/var/spack/repos/builtin.mock/packages/externalprereq/package.py new file mode 100644 index 0000000000..7d63925693 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/externalprereq/package.py @@ -0,0 +1,34 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://scalability-llnl.github.io/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Externalprereq(Package): + homepage = "http://somewhere.com" + url = "http://somewhere.com/prereq-1.0.tar.gz" + + version('1.4', 'f1234567890abcdef1234567890abcde') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/externaltest/package.py b/var/spack/repos/builtin.mock/packages/externaltest/package.py new file mode 100644 index 0000000000..c546922f87 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/externaltest/package.py @@ -0,0 +1,37 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://scalability-llnl.github.io/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Externaltest(Package): + homepage = "http://somewhere.com" + url = "http://somewhere.com/test-1.0.tar.gz" + + version('1.0', '1234567890abcdef1234567890abcdef') + + depends_on('stuff') + depends_on('externaltool') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/externaltool/package.py b/var/spack/repos/builtin.mock/packages/externaltool/package.py new file mode 100644 index 0000000000..af902bd70e --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/externaltool/package.py @@ -0,0 +1,36 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://scalability-llnl.github.io/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Externaltool(Package): + homepage = "http://somewhere.com" + url = "http://somewhere.com/tool-1.0.tar.gz" + + version('1.0', '1234567890abcdef1234567890abcdef') + + depends_on('externalprereq') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/externalvirtual/package.py b/var/spack/repos/builtin.mock/packages/externalvirtual/package.py new file mode 100644 index 0000000000..722c1e1c53 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/externalvirtual/package.py @@ -0,0 +1,37 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://scalability-llnl.github.io/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Externalvirtual(Package): + homepage = "http://somewhere.com" + url = "http://somewhere.com/stuff-1.0.tar.gz" + + version('1.0', '1234567890abcdef1234567890abcdef') + version('2.0', '234567890abcdef1234567890abcdef1') + + provides('stuff') + + def install(self, spec, prefix): + pass diff --git a/var/spack/mock_packages/fake/package.py b/var/spack/repos/builtin.mock/packages/fake/package.py index fb3c2bdd2e..5f81ef20fc 100644 --- a/var/spack/mock_packages/fake/package.py +++ b/var/spack/repos/builtin.mock/packages/fake/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/git-test/package.py b/var/spack/repos/builtin.mock/packages/git-test/package.py index 689185463c..689185463c 100644 --- a/var/spack/mock_packages/git-test/package.py +++ b/var/spack/repos/builtin.mock/packages/git-test/package.py diff --git a/var/spack/mock_packages/hg-test/package.py b/var/spack/repos/builtin.mock/packages/hg-test/package.py index 462f1e4c3a..462f1e4c3a 100644 --- a/var/spack/mock_packages/hg-test/package.py +++ b/var/spack/repos/builtin.mock/packages/hg-test/package.py diff --git a/var/spack/repos/builtin.mock/packages/hypre/package.py b/var/spack/repos/builtin.mock/packages/hypre/package.py new file mode 100644 index 0000000000..f69f16d2cc --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/hypre/package.py @@ -0,0 +1,39 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Hypre(Package): + """Hypre is included here as an example of a package that depends on + both LAPACK and BLAS.""" + homepage = "http://www.openblas.net" + url = "http://github.com/xianyi/OpenBLAS/archive/v0.2.15.tar.gz" + + version('0.2.15', 'b1190f3d3471685f17cfd1ec1d252ac9') + + depends_on('lapack') + depends_on('blas') + + def install(self, spec, prefix): + pass diff --git a/var/spack/mock_packages/indirect_mpich/package.py b/var/spack/repos/builtin.mock/packages/indirect_mpich/package.py index daf8b4b166..0b1773a27b 100644 --- a/var/spack/mock_packages/indirect_mpich/package.py +++ b/var/spack/repos/builtin.mock/packages/indirect_mpich/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/libdwarf/package.py b/var/spack/repos/builtin.mock/packages/libdwarf/package.py index 0b8df04cfb..e486a5de03 100644 --- a/var/spack/mock_packages/libdwarf/package.py +++ b/var/spack/repos/builtin.mock/packages/libdwarf/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/libelf/package.py b/var/spack/repos/builtin.mock/packages/libelf/package.py index 94c8f942cd..5e5b0b7143 100644 --- a/var/spack/mock_packages/libelf/package.py +++ b/var/spack/repos/builtin.mock/packages/libelf/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/mpich/package.py b/var/spack/repos/builtin.mock/packages/mpich/package.py index f77d3efc5d..836d9c4a9f 100644 --- a/var/spack/mock_packages/mpich/package.py +++ b/var/spack/repos/builtin.mock/packages/mpich/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -38,6 +38,7 @@ class Mpich(Package): version('3.0.2', 'foobarbaz') version('3.0.1', 'foobarbaz') version('3.0', 'foobarbaz') + version('1.0', 'foobarbas') provides('mpi@:3', when='@3:') provides('mpi@:1', when='@:1') diff --git a/var/spack/mock_packages/mpich2/package.py b/var/spack/repos/builtin.mock/packages/mpich2/package.py index 827b94c8a4..90f969b898 100644 --- a/var/spack/mock_packages/mpich2/package.py +++ b/var/spack/repos/builtin.mock/packages/mpich2/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/mpileaks/package.py b/var/spack/repos/builtin.mock/packages/mpileaks/package.py index 3989f1b452..9a18c5e1f2 100644 --- a/var/spack/mock_packages/mpileaks/package.py +++ b/var/spack/repos/builtin.mock/packages/mpileaks/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/multimethod/package.py b/var/spack/repos/builtin.mock/packages/multimethod/package.py index bc3e3d78a4..19eb790d75 100644 --- a/var/spack/mock_packages/multimethod/package.py +++ b/var/spack/repos/builtin.mock/packages/multimethod/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin.mock/packages/netlib-blas/package.py b/var/spack/repos/builtin.mock/packages/netlib-blas/package.py new file mode 100644 index 0000000000..39f2c92ae5 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/netlib-blas/package.py @@ -0,0 +1,36 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class NetlibBlas(Package): + homepage = "http://www.netlib.org/lapack/" + url = "http://www.netlib.org/lapack/lapack-3.5.0.tgz" + + version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf') + + provides('blas') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/netlib-lapack/package.py b/var/spack/repos/builtin.mock/packages/netlib-lapack/package.py new file mode 100644 index 0000000000..331844e544 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/netlib-lapack/package.py @@ -0,0 +1,37 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class NetlibLapack(Package): + homepage = "http://www.netlib.org/lapack/" + url = "http://www.netlib.org/lapack/lapack-3.5.0.tgz" + + version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf') + + provides('lapack') + depends_on('blas') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/openblas-with-lapack/package.py b/var/spack/repos/builtin.mock/packages/openblas-with-lapack/package.py new file mode 100644 index 0000000000..509bfb71e5 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/openblas-with-lapack/package.py @@ -0,0 +1,38 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class OpenblasWithLapack(Package): + """Dummy version of OpenBLAS that also provides LAPACK, for testing.""" + homepage = "http://www.openblas.net" + url = "http://github.com/xianyi/OpenBLAS/archive/v0.2.15.tar.gz" + + version('0.2.15', 'b1190f3d3471685f17cfd1ec1d252ac9') + + provides('lapack') + provides('blas') + + def install(self, spec, prefix): + pass diff --git a/var/spack/repos/builtin.mock/packages/openblas/package.py b/var/spack/repos/builtin.mock/packages/openblas/package.py new file mode 100644 index 0000000000..c7771b92a3 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/openblas/package.py @@ -0,0 +1,37 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Openblas(Package): + """OpenBLAS: An optimized BLAS library""" + homepage = "http://www.openblas.net" + url = "http://github.com/xianyi/OpenBLAS/archive/v0.2.15.tar.gz" + + version('0.2.15', 'b1190f3d3471685f17cfd1ec1d252ac9') + + provides('blas') + + def install(self, spec, prefix): + pass diff --git a/var/spack/mock_packages/optional-dep-test-2/package.py b/var/spack/repos/builtin.mock/packages/optional-dep-test-2/package.py index ef0587588e..ef0587588e 100644 --- a/var/spack/mock_packages/optional-dep-test-2/package.py +++ b/var/spack/repos/builtin.mock/packages/optional-dep-test-2/package.py diff --git a/var/spack/mock_packages/optional-dep-test-3/package.py b/var/spack/repos/builtin.mock/packages/optional-dep-test-3/package.py index e6cb3bd6e7..e6cb3bd6e7 100644 --- a/var/spack/mock_packages/optional-dep-test-3/package.py +++ b/var/spack/repos/builtin.mock/packages/optional-dep-test-3/package.py diff --git a/var/spack/mock_packages/optional-dep-test/package.py b/var/spack/repos/builtin.mock/packages/optional-dep-test/package.py index bb57576ca9..bb57576ca9 100644 --- a/var/spack/mock_packages/optional-dep-test/package.py +++ b/var/spack/repos/builtin.mock/packages/optional-dep-test/package.py diff --git a/var/spack/repos/builtin.mock/packages/python/package.py b/var/spack/repos/builtin.mock/packages/python/package.py new file mode 100644 index 0000000000..c5fed52f53 --- /dev/null +++ b/var/spack/repos/builtin.mock/packages/python/package.py @@ -0,0 +1,43 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Python(Package): + """Dummy Python package to demonstrate preferred versions.""" + homepage = "http://www.python.org" + url = "http://www.python.org/ftp/python/2.7.8/Python-2.7.8.tgz" + + extendable = True + + version('3.5.1', 'be78e48cdfc1a7ad90efff146dce6cfe') + version('3.5.0', 'a56c0c0b45d75a0ec9c6dee933c41c36') + version('2.7.11', '6b6076ec9e93f05dd63e47eb9c15728b', preferred=True) + version('2.7.10', 'd7547558fd673bd9d38e2108c6b42521') + version('2.7.9', '5eebcaa0030dc4061156d3429657fb83') + version('2.7.8', 'd4bca0159acb0b44a781292b5231936f') + + def install(self, spec, prefix): + pass + diff --git a/var/spack/mock_packages/svn-test/package.py b/var/spack/repos/builtin.mock/packages/svn-test/package.py index ba4d5522b4..ba4d5522b4 100644 --- a/var/spack/mock_packages/svn-test/package.py +++ b/var/spack/repos/builtin.mock/packages/svn-test/package.py diff --git a/var/spack/mock_packages/trivial_install_test_package/package.py b/var/spack/repos/builtin.mock/packages/trivial_install_test_package/package.py index c4db9f5f07..fec5849e67 100644 --- a/var/spack/mock_packages/trivial_install_test_package/package.py +++ b/var/spack/repos/builtin.mock/packages/trivial_install_test_package/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/mock_packages/zmpi/package.py b/var/spack/repos/builtin.mock/packages/zmpi/package.py index 8c6ceda6d3..201fac2fbf 100644 --- a/var/spack/mock_packages/zmpi/package.py +++ b/var/spack/repos/builtin.mock/packages/zmpi/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin.mock/repo.yaml b/var/spack/repos/builtin.mock/repo.yaml new file mode 100644 index 0000000000..30b068da13 --- /dev/null +++ b/var/spack/repos/builtin.mock/repo.yaml @@ -0,0 +1,2 @@ +repo: + namespace: builtin.mock diff --git a/var/spack/packages/ImageMagick/package.py b/var/spack/repos/builtin/packages/ImageMagick/package.py index 753ea80ca6..753ea80ca6 100644 --- a/var/spack/packages/ImageMagick/package.py +++ b/var/spack/repos/builtin/packages/ImageMagick/package.py diff --git a/var/spack/packages/Mitos/package.py b/var/spack/repos/builtin/packages/Mitos/package.py index e312da3ffc..ea131872dd 100644 --- a/var/spack/packages/Mitos/package.py +++ b/var/spack/repos/builtin/packages/Mitos/package.py @@ -4,13 +4,20 @@ class Mitos(Package): """Mitos is a library and a tool for collecting sampled memory performance data to view with MemAxes""" - homepage = "https://github.com/scalability-llnl/Mitos" - url = "https://github.com/scalability-llnl/Mitos" + homepage = "https://github.com/llnl/Mitos" + url = "https://github.com/llnl/Mitos" - version('0.9.1', 'c6cb57f3cae54f5157affd97ef7ef79e', git='https://github.com/scalability-llnl/Mitos.git', tag='v0.9.1') + version('0.9.2', + git='https://github.com/llnl/Mitos.git', + commit='8cb143a2e8c00353ff531a781a9ca0992b0aaa3d') + + version('0.9.1', + git='https://github.com/llnl/Mitos.git', + tag='v0.9.1') depends_on('dyninst@8.2.1:') depends_on('hwloc') + depends_on('mpi') def install(self, spec, prefix): with working_dir('spack-build', create=True): diff --git a/var/spack/repos/builtin/packages/R/package.py b/var/spack/repos/builtin/packages/R/package.py new file mode 100644 index 0000000000..2471dff09b --- /dev/null +++ b/var/spack/repos/builtin/packages/R/package.py @@ -0,0 +1,49 @@ +from spack import * + + +class R(Package): + """ + R is 'GNU S', a freely available language and environment for statistical computing and graphics which provides a + wide variety of statistical and graphical techniques: linear and nonlinear modelling, statistical tests, time series + analysis, classification, clustering, etc. Please consult the R project homepage for further information. + """ + homepage = "https://www.r-project.org" + url = "http://cran.cnr.berkeley.edu/src/base/R-3/R-3.1.2.tar.gz" + + version('3.2.3', '1ba3dac113efab69e706902810cc2970') + version('3.2.2', '57cef5c2e210a5454da1979562a10e5b') + version('3.2.1', 'c2aac8b40f84e08e7f8c9068de9239a3') + version('3.2.0', '66fa17ad457d7e618191aa0f52fc402e') + version('3.1.3', '53a85b884925aa6b5811dfc361d73fc4') + version('3.1.2', '3af29ec06704cbd08d4ba8d69250ae74') + + variant('external-lapack', default=False, description='Links to externally installed BLAS/LAPACK') + + # Virtual dependencies + depends_on('blas', when='+external-lapack') + depends_on('lapack', when='+external-lapack') + + # Concrete dependencies + depends_on('readline') + depends_on('ncurses') + depends_on('icu') + depends_on('glib') + depends_on('zlib') + depends_on('libtiff') + depends_on('jpeg') + depends_on('cairo') + depends_on('pango') + depends_on('freetype') + depends_on('tcl') + depends_on('tk') + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix, + '--enable-R-shlib', + '--enable-BLAS-shlib'] + if '+external-lapack' in spec: + options.extend(['--with-blas', '--with-lapack']) + + configure(*options) + make() + make('install') diff --git a/var/spack/packages/SAMRAI/no-tool-build.patch b/var/spack/repos/builtin/packages/SAMRAI/no-tool-build.patch index 1adf0cf721..1adf0cf721 100644 --- a/var/spack/packages/SAMRAI/no-tool-build.patch +++ b/var/spack/repos/builtin/packages/SAMRAI/no-tool-build.patch diff --git a/var/spack/packages/SAMRAI/package.py b/var/spack/repos/builtin/packages/SAMRAI/package.py index eef041f0d5..2c3b9180af 100644 --- a/var/spack/packages/SAMRAI/package.py +++ b/var/spack/repos/builtin/packages/SAMRAI/package.py @@ -12,6 +12,7 @@ class Samrai(Package): list_url = homepage version('3.9.1', '232d04d0c995f5abf20d94350befd0b2') + version('3.8.0', 'c18fcffa706346bfa5828b36787ce5fe') version('3.7.3', '12d574eacadf8c9a70f1bb4cd1a69df6') version('3.7.2', 'f6a716f171c9fdbf3cb12f71fa6e2737') version('3.6.3-beta', 'ef0510bf2893042daedaca434e5ec6ce') @@ -24,7 +25,7 @@ class Samrai(Package): depends_on("mpi") depends_on("zlib") - depends_on("hdf5") + depends_on("hdf5+mpi") depends_on("boost") # don't build tools with gcc @@ -32,13 +33,10 @@ class Samrai(Package): # TODO: currently hard-coded to use openmpi - be careful! def install(self, spec, prefix): - mpi = next(m for m in ('openmpi', 'mpich', 'mvapich') - if m in spec) - configure( "--prefix=%s" % prefix, - "--with-CXX=%s" % spec[mpi].prefix.bin + "/mpic++", - "--with-CC=%s" % spec[mpi].prefix.bin + "/mpicc", + "--with-CXX=%s" % spec['mpi'].prefix.bin + "/mpic++", + "--with-CC=%s" % spec['mpi'].prefix.bin + "/mpicc", "--with-hdf5=%s" % spec['hdf5'].prefix, "--with-boost=%s" % spec['boost'].prefix, "--with-zlib=%s" % spec['zlib'].prefix, diff --git a/var/spack/packages/activeharmony/package.py b/var/spack/repos/builtin/packages/activeharmony/package.py index 45dcc7c0e8..45dcc7c0e8 100644 --- a/var/spack/packages/activeharmony/package.py +++ b/var/spack/repos/builtin/packages/activeharmony/package.py diff --git a/var/spack/packages/adept-utils/package.py b/var/spack/repos/builtin/packages/adept-utils/package.py index e4a2e1523f..fb59576c21 100644 --- a/var/spack/packages/adept-utils/package.py +++ b/var/spack/repos/builtin/packages/adept-utils/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -27,8 +27,8 @@ from spack import * class AdeptUtils(Package): """Utility libraries for LLNL performance tools.""" - homepage = "https://github.com/scalability-llnl/adept-utils" - url = "https://github.com/scalability-llnl/adept-utils/archive/v1.0.tar.gz" + homepage = "https://github.com/llnl/adept-utils" + url = "https://github.com/llnl/adept-utils/archive/v1.0.tar.gz" version('1.0.1', '731a310717adcb004d9d195130efee7d') version('1.0', '5c6cd9badce56c945ac8551e34804397') diff --git a/var/spack/packages/apex/package.py b/var/spack/repos/builtin/packages/apex/package.py index 6404d5208a..8769d97056 100644 --- a/var/spack/packages/apex/package.py +++ b/var/spack/repos/builtin/packages/apex/package.py @@ -3,12 +3,9 @@ from spack.util.environment import * class Apex(Package): homepage = "http://github.com/khuck/xpress-apex" - #url = "http://github.com/khuck/xpress-apex/archive/v0.1-release-candidate.tar.gz" - url = "http://github.com/khuck/xpress-apex" + url = "http://github.com/khuck/xpress-apex/archive/v0.1.tar.gz" - #version('0.1', '6e039c224387348296739f6bf360d081') - #version('master', branch='master', git='https://github.com/khuck/xpress-apex.git') - version('2015-10-21', git='https://github.com/khuck/xpress-apex.git', commit='d2e66ddde689120472fc57fc546d8cd80aab745c') + version('0.1', '8b95f0c0313da1575960d3ad69f18e75') depends_on("binutils+libiberty") depends_on("boost@1.54:") diff --git a/var/spack/repos/builtin/packages/apr-util/package.py b/var/spack/repos/builtin/packages/apr-util/package.py new file mode 100644 index 0000000000..8f19c84d22 --- /dev/null +++ b/var/spack/repos/builtin/packages/apr-util/package.py @@ -0,0 +1,44 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class AprUtil(Package): + """Apache Portable Runtime Utility""" + homepage = 'https://apr.apache.org/' + url = 'http://archive.apache.org/dist/apr/apr-util-1.5.4.tar.gz' + + version('1.5.4', '866825c04da827c6e5f53daff5569f42') + + depends_on('apr') + + def install(self, spec, prefix): + + # configure, build, install: + options = ['--prefix=%s' % prefix] + options.append('--with-apr=%s' % spec['apr'].prefix) + + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/apr/package.py b/var/spack/repos/builtin/packages/apr/package.py new file mode 100644 index 0000000000..8a440766ec --- /dev/null +++ b/var/spack/repos/builtin/packages/apr/package.py @@ -0,0 +1,38 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Apr(Package): + """Apache portable runtime.""" + homepage = 'https://apr.apache.org/' + url = 'http://archive.apache.org/dist/apr/apr-1.5.2.tar.gz' + + version('1.5.2', '98492e965963f852ab29f9e61b2ad700') + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix] + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/arpack-ng/package.py b/var/spack/repos/builtin/packages/arpack-ng/package.py new file mode 100644 index 0000000000..6b152f7863 --- /dev/null +++ b/var/spack/repos/builtin/packages/arpack-ng/package.py @@ -0,0 +1,71 @@ +from spack import * + + +class ArpackNg(Package): + """ + ARPACK-NG is a collection of Fortran77 subroutines designed to solve large scale eigenvalue problems. + + Important Features: + + * Reverse Communication Interface. + * Single and Double Precision Real Arithmetic Versions for Symmetric, + Non-symmetric, Standard or Generalized Problems. + * Single and Double Precision Complex Arithmetic Versions for Standard or + Generalized Problems. + * Routines for Banded Matrices - Standard or Generalized Problems. + * Routines for The Singular Value Decomposition. + * Example driver routines that may be used as templates to implement numerous + Shift-Invert strategies for all problem types, data types and precision. + + This project is a joint project between Debian, Octave and Scilab in order to + provide a common and maintained version of arpack. + + Indeed, no single release has been published by Rice university for the last + few years and since many software (Octave, Scilab, R, Matlab...) forked it and + implemented their own modifications, arpack-ng aims to tackle this by providing + a common repository and maintained versions. + + arpack-ng is replacing arpack almost everywhere. + """ + homepage = 'https://github.com/opencollab/arpack-ng' + url = 'https://github.com/opencollab/arpack-ng/archive/3.3.0.tar.gz' + + version('3.3.0', 'ed3648a23f0a868a43ef44c97a21bad5') + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('mpi', default=False, description='Activates MPI support') + + # The function pdlamch10 does not set the return variable. This is fixed upstream + # see https://github.com/opencollab/arpack-ng/issues/34 + patch('pdlamch10.patch', when='@3.3:') + + depends_on('blas') + depends_on('lapack') + depends_on('automake') + depends_on('autoconf') + depends_on('libtool@2.4.2:') + + depends_on('mpi', when='+mpi') + + def install(self, spec, prefix): + # Apparently autotools are not bootstrapped + # TODO: switch to use the CMake build in the next version + # rather than bootstrapping. + which('libtoolize')() + bootstrap = Executable('./bootstrap') + + options = ['--prefix=%s' % prefix] + + if '+mpi' in spec: + options.extend([ + '--enable-mpi', + 'F77=mpif77' #FIXME: avoid hardcoding MPI wrapper names + ]) + + if '~shared' in spec: + options.append('--enable-shared=no') + + bootstrap() + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/arpack-ng/pdlamch10.patch b/var/spack/repos/builtin/packages/arpack-ng/pdlamch10.patch new file mode 100644 index 0000000000..922828909f --- /dev/null +++ b/var/spack/repos/builtin/packages/arpack-ng/pdlamch10.patch @@ -0,0 +1,15 @@ +diff --git a/PARPACK/SRC/MPI/pdlamch10.f b/PARPACK/SRC/MPI/pdlamch10.f +index 6571da9..2882c2e 100644 +--- a/PARPACK/SRC/MPI/pdlamch10.f ++++ b/PARPACK/SRC/MPI/pdlamch10.f +@@ -86,8 +86,8 @@ + TEMP = TEMP1 + END IF + * +- PDLAMCH = TEMP ++ PDLAMCH10 = TEMP + * +-* End of PDLAMCH ++* End of PDLAMCH10 + * + END diff --git a/var/spack/packages/arpack/package.py b/var/spack/repos/builtin/packages/arpack/package.py index 8c67c536f3..8c67c536f3 100644 --- a/var/spack/packages/arpack/package.py +++ b/var/spack/repos/builtin/packages/arpack/package.py diff --git a/var/spack/packages/asciidoc/package.py b/var/spack/repos/builtin/packages/asciidoc/package.py index 828f3b3f4f..828f3b3f4f 100644 --- a/var/spack/packages/asciidoc/package.py +++ b/var/spack/repos/builtin/packages/asciidoc/package.py diff --git a/var/spack/repos/builtin/packages/astyle/package.py b/var/spack/repos/builtin/packages/astyle/package.py new file mode 100644 index 0000000000..7260fd74a1 --- /dev/null +++ b/var/spack/repos/builtin/packages/astyle/package.py @@ -0,0 +1,17 @@ +from spack import * +import os + +class Astyle(Package): + """A Free, Fast, and Small Automatic Formatter for C, C++, C++/CLI, Objective-C, C#, and Java Source Code.""" + homepage = "http://astyle.sourceforge.net/" + url = "http://downloads.sourceforge.net/project/astyle/astyle/astyle%202.04/astyle_2.04_linux.tar.gz" + + version('2.04', '30b1193a758b0909d06e7ee8dd9627f6') + + def install(self, spec, prefix): + + with working_dir('src'): + make('-f', + join_path(self.stage.source_path,'build','clang','Makefile'), + parallel=False) + install(join_path(self.stage.source_path, 'src','bin','astyle'), self.prefix.bin) diff --git a/var/spack/packages/atk/package.py b/var/spack/repos/builtin/packages/atk/package.py index 769805b227..769805b227 100644 --- a/var/spack/packages/atk/package.py +++ b/var/spack/repos/builtin/packages/atk/package.py diff --git a/var/spack/repos/builtin/packages/atlas/package.py b/var/spack/repos/builtin/packages/atlas/package.py new file mode 100644 index 0000000000..b5504122b7 --- /dev/null +++ b/var/spack/repos/builtin/packages/atlas/package.py @@ -0,0 +1,60 @@ +from spack import * +from spack.util.executable import Executable +import os.path + +class Atlas(Package): + """ + Automatically Tuned Linear Algebra Software, generic shared ATLAS is an approach for the automatic generation and + optimization of numerical software. Currently ATLAS supplies optimized versions for the complete set of linear + algebra kernels known as the Basic Linear Algebra Subroutines (BLAS), and a subset of the linear algebra routines + in the LAPACK library. + """ + homepage = "http://math-atlas.sourceforge.net/" + + version('3.10.2', 'a4e21f343dec8f22e7415e339f09f6da', + url='http://downloads.sourceforge.net/project/math-atlas/Stable/3.10.2/atlas3.10.2.tar.bz2', preferred=True) + resource(name='lapack', + url='http://www.netlib.org/lapack/lapack-3.5.0.tgz', + md5='b1d3e3e425b2e44a06760ff173104bdf', + destination='spack-resource-lapack', + when='@3:') + + version('3.11.34', '0b6c5389c095c4c8785fd0f724ec6825', + url='http://sourceforge.net/projects/math-atlas/files/Developer%20%28unstable%29/3.11.34/atlas3.11.34.tar.bz2/download') + + variant('shared', default=True, description='Builds shared library') + + provides('blas') + provides('lapack') + + parallel = False + + def patch(self): + # Disable thread check. LLNL's environment does not allow + # disabling of CPU throttling in a way that ATLAS actually + # understands. + filter_file(r'^\s+if \(thrchk\) exit\(1\);', 'if (0) exit(1);', + 'CONFIG/src/config.c') + # TODO: investigate a better way to add the check back in + # TODO: using, say, MSRs. Or move this to a variant. + + def install(self, spec, prefix): + + options = [] + if '+shared' in spec: + options.append('--shared') + + # Lapack resource + lapack_stage = self.stage[1] + lapack_tarfile = os.path.basename(lapack_stage.fetcher.url) + lapack_tarfile_path = join_path(lapack_stage.path, lapack_tarfile) + options.append('--with-netlib-lapack-tarfile=%s' % lapack_tarfile_path) + + with working_dir('spack-build', create=True): + configure = Executable('../configure') + configure('--prefix=%s' % prefix, *options) + make() + make('check') + make('ptcheck') + make('time') + make("install") diff --git a/var/spack/repos/builtin/packages/atop/package.py b/var/spack/repos/builtin/packages/atop/package.py new file mode 100644 index 0000000000..346ab0763c --- /dev/null +++ b/var/spack/repos/builtin/packages/atop/package.py @@ -0,0 +1,16 @@ +from spack import * + +class Atop(Package): + """Atop is an ASCII full-screen performance monitor for Linux""" + homepage = "http://www.atoptool.nl/index.php" + url = "http://www.atoptool.nl/download/atop-2.2-3.tar.gz" + + version('2.2-3', '034dc1544f2ec4e4d2c739d320dc326d') + + def install(self, spec, prefix): + make() + mkdirp(prefix.bin) + install("atop", join_path(prefix.bin, "atop")) + mkdirp(join_path(prefix.man, "man1")) + install(join_path("man", "atop.1"), + join_path(prefix.man, "man1", "atop.1")) diff --git a/var/spack/packages/autoconf/package.py b/var/spack/repos/builtin/packages/autoconf/package.py index 5189faf054..6412e810a6 100644 --- a/var/spack/packages/autoconf/package.py +++ b/var/spack/repos/builtin/packages/autoconf/package.py @@ -6,6 +6,7 @@ class Autoconf(Package): url = "http://ftp.gnu.org/gnu/autoconf/autoconf-2.69.tar.gz" version('2.69', '82d05e03b93e45f5a39b828dc9c6c29b') + version('2.62', '6c1f3b3734999035d77da5024aab4fbd') def install(self, spec, prefix): configure("--prefix=%s" % prefix) diff --git a/var/spack/packages/automaded/package.py b/var/spack/repos/builtin/packages/automaded/package.py index 9fbd93e3b3..e0bc7efb8b 100644 --- a/var/spack/packages/automaded/package.py +++ b/var/spack/repos/builtin/packages/automaded/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -36,8 +36,8 @@ class Automaded(Package): finding the process (or group of processes) that caused the hang. """ - homepage = "https://github.com/scalability-llnl/AutomaDeD" - url = "https://github.com/scalability-llnl/AutomaDeD/archive/v1.0.tar.gz" + homepage = "https://github.com/llnl/AutomaDeD" + url = "https://github.com/llnl/AutomaDeD/archive/v1.0.tar.gz" version('1.0', '16a3d4def2c4c77d0bc4b21de8b3ab03') diff --git a/var/spack/packages/automake/package.py b/var/spack/repos/builtin/packages/automake/package.py index 9115822730..2172a42030 100644 --- a/var/spack/packages/automake/package.py +++ b/var/spack/repos/builtin/packages/automake/package.py @@ -5,7 +5,9 @@ class Automake(Package): homepage = "http://www.gnu.org/software/automake/" url = "http://ftp.gnu.org/gnu/automake/automake-1.14.tar.gz" + version('1.15', '716946a105ca228ab545fc37a70df3a3') version('1.14.1', 'd052a3e884631b9c7892f2efce542d75') + version('1.11.6', '0286dc30295b62985ca51919202ecfcc') depends_on('autoconf') diff --git a/var/spack/repos/builtin/packages/bash/package.py b/var/spack/repos/builtin/packages/bash/package.py new file mode 100644 index 0000000000..9c9fbeedcf --- /dev/null +++ b/var/spack/repos/builtin/packages/bash/package.py @@ -0,0 +1,20 @@ +from spack import * + +class Bash(Package): + """The GNU Project's Bourne Again SHell.""" + + homepage = "https://www.gnu.org/software/bash/" + url = "ftp://ftp.gnu.org/gnu/bash/bash-4.3.tar.gz" + + version('4.3', '81348932d5da294953e15d4814c74dd1') + + depends_on('readline') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix, + '--with-curses', + '--with-installed-readline=%s' % spec['readline'].prefix) + + make() + make("tests") + make("install") diff --git a/var/spack/packages/bear/package.py b/var/spack/repos/builtin/packages/bear/package.py index 0d4436fccc..0d4436fccc 100644 --- a/var/spack/packages/bear/package.py +++ b/var/spack/repos/builtin/packages/bear/package.py diff --git a/var/spack/packages/bib2xhtml/package.py b/var/spack/repos/builtin/packages/bib2xhtml/package.py index 7f8e0cfe5a..7f8e0cfe5a 100644 --- a/var/spack/packages/bib2xhtml/package.py +++ b/var/spack/repos/builtin/packages/bib2xhtml/package.py diff --git a/var/spack/repos/builtin/packages/binutils/binutilskrell-2.24.patch b/var/spack/repos/builtin/packages/binutils/binutilskrell-2.24.patch new file mode 100644 index 0000000000..f48291a6c9 --- /dev/null +++ b/var/spack/repos/builtin/packages/binutils/binutilskrell-2.24.patch @@ -0,0 +1,52 @@ +--- binutils-2.24/libiberty/Makefile.in 2013-11-04 10:33:40.000000000 -0500 ++++ binutils-2.24-fixes/libiberty/Makefile.in 2014-10-17 16:22:31.413655000 -0400 +@@ -66,6 +66,7 @@ + MAKEOVERRIDES = + + TARGETLIB = ./libiberty.a ++TARGETLIBPIC = ./libiberty_pic.a + TESTLIB = ./testlib.a + + LIBOBJS = @LIBOBJS@ +@@ -355,27 +356,27 @@ + # since it will be passed the multilib flags. + MULTIOSDIR = `$(CC) $(CFLAGS) -print-multi-os-directory` + install_to_libdir: all +- if test -n "${target_header_dir}"; then \ +- ${mkinstalldirs} $(DESTDIR)$(libdir)/$(MULTIOSDIR); \ +- $(INSTALL_DATA) $(TARGETLIB) $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB)n; \ +- ( cd $(DESTDIR)$(libdir)/$(MULTIOSDIR) ; chmod 644 $(TARGETLIB)n ;$(RANLIB) $(TARGETLIB)n ); \ +- mv -f $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB)n $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB); \ +- case "${target_header_dir}" in \ +- /*) thd=${target_header_dir};; \ +- *) thd=${includedir}/${target_header_dir};; \ +- esac; \ +- ${mkinstalldirs} $(DESTDIR)$${thd}; \ +- for h in ${INSTALLED_HEADERS}; do \ +- ${INSTALL_DATA} $$h $(DESTDIR)$${thd}; \ +- done; \ +- fi ++ ${mkinstalldirs} $(DESTDIR)$(libdir)/$(MULTIOSDIR); \ ++ $(INSTALL_DATA) $(TARGETLIB) $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB)n; \ ++ $(INSTALL_DATA) pic/$(TARGETLIB) $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIBPIC)n; \ ++ ( cd $(DESTDIR)$(libdir)/$(MULTIOSDIR) ; chmod 644 $(TARGETLIB)n ;$(RANLIB) $(TARGETLIB)n ); \ ++ ( cd $(DESTDIR)$(libdir)/$(MULTIOSDIR) ; chmod 644 $(TARGETLIBPIC)n ;$(RANLIB) $(TARGETLIBPIC)n ); \ ++ mv -f $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB)n $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIB); \ ++ mv -f $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIBPIC)n $(DESTDIR)$(libdir)/$(MULTIOSDIR)/$(TARGETLIBPIC); \ ++ ${mkinstalldirs} $(DESTDIR)$${includedir}; \ ++ for h in ${INSTALLED_HEADERS}; do \ ++ ${INSTALL_DATA} $$h $(DESTDIR)$${includedir}; \ ++ done; + @$(MULTIDO) $(FLAGS_TO_PASS) multi-do DO=install + + install_to_tooldir: all + ${mkinstalldirs} $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR) + $(INSTALL_DATA) $(TARGETLIB) $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIB)n ++ $(INSTALL_DATA) pic/$(TARGETLIB) $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIBPIC)n + ( cd $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR) ; chmod 644 $(TARGETLIB)n; $(RANLIB) $(TARGETLIB)n ) ++ ( cd $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR) ; chmod 644 $(TARGETLIBPIC)n; $(RANLIB) $(TARGETLIBPIC)n ) + mv -f $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIB)n $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIB) ++ mv -f $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIBPIC)n $(DESTDIR)$(tooldir)/lib/$(MULTIOSDIR)/$(TARGETLIBPIC) + @$(MULTIDO) $(FLAGS_TO_PASS) multi-do DO=install + + # required-list was used when building a shared bfd/opcodes/libiberty diff --git a/var/spack/repos/builtin/packages/binutils/cr16.patch b/var/spack/repos/builtin/packages/binutils/cr16.patch new file mode 100644 index 0000000000..2727c70b23 --- /dev/null +++ b/var/spack/repos/builtin/packages/binutils/cr16.patch @@ -0,0 +1,26 @@ +--- old/opcodes/cr16-dis.c 2014-10-14 03:32:04.000000000 -0400 ++++ new/opcodes/cr16-dis.c 2016-01-14 21:54:26.000000000 -0500 +@@ -78,7 +78,7 @@ + REG_ARG_TYPE; + + /* Current opcode table entry we're disassembling. */ +-const inst *instruction; ++extern const inst *instruction; + /* Current instruction we're disassembling. */ + ins cr16_currInsn; + /* The current instruction is read into 3 consecutive words. */ +@@ -86,12 +86,12 @@ + /* Contains all words in appropriate order. */ + ULONGLONG cr16_allWords; + /* Holds the current processed argument number. */ +-int processing_argument_number; ++extern int processing_argument_number; + /* Nonzero means a IMM4 instruction. */ + int imm4flag; + /* Nonzero means the instruction's original size is + incremented (escape sequence is used). */ +-int size_changed; ++extern int size_changed; + + + /* Print the constant expression length. */ diff --git a/var/spack/packages/binutils/package.py b/var/spack/repos/builtin/packages/binutils/package.py index cac0a0407f..b8064093d2 100644 --- a/var/spack/packages/binutils/package.py +++ b/var/spack/repos/builtin/packages/binutils/package.py @@ -3,13 +3,26 @@ from spack import * class Binutils(Package): """GNU binutils, which contain the linker, assembler, objdump and others""" homepage = "http://www.gnu.org/software/binutils/" - url = "ftp://ftp.gnu.org/gnu/binutils/binutils-2.25.tar.bz2" + url="https://ftp.gnu.org/gnu/binutils/binutils-2.25.tar.bz2" + + version('2.26', '64146a0faa3b411ba774f47d41de239f') version('2.25', 'd9f3303f802a5b6b0bb73a335ab89d66') version('2.24', 'e0f71a7b2ddab0f8612336ac81d9636b') version('2.23.2', '4f8fa651e35ef262edc01d60fb45702e') version('2.20.1', '2b9dc8f2b7dbd5ec5992c6e29de0b764') + depends_on('m4') + depends_on('flex') + depends_on('bison') + + # Add a patch that creates binutils libiberty_pic.a which is preferred by OpenSpeedShop and cbtf-krell + variant('krellpatch', default=False, description="build with openspeedshop based patch.") + variant('gold', default=True, description="build the gold linker") + patch('binutilskrell-2.24.patch', when='@2.24+krellpatch') + + patch('cr16.patch') + variant('libiberty', default=False, description='Also install libiberty.') def install(self, spec, prefix): @@ -20,7 +33,11 @@ class Binutils(Package): '--enable-multilib', '--enable-shared', '--enable-64-bit-bfd', - '--enable-targets=all'] + '--enable-targets=all', + '--with-sysroot=/'] + + if '+gold' in spec: + configure_args.append('--enable-gold') if '+libiberty' in spec: configure_args.append('--enable-install-libiberty') diff --git a/var/spack/packages/bison/package.py b/var/spack/repos/builtin/packages/bison/package.py index 7c526fb958..7c526fb958 100644 --- a/var/spack/packages/bison/package.py +++ b/var/spack/repos/builtin/packages/bison/package.py diff --git a/var/spack/repos/builtin/packages/blitz/package.py b/var/spack/repos/builtin/packages/blitz/package.py new file mode 100644 index 0000000000..9413b276fe --- /dev/null +++ b/var/spack/repos/builtin/packages/blitz/package.py @@ -0,0 +1,15 @@ +from spack import * + +class Blitz(Package): + """N-dimensional arrays for C++""" + homepage = "http://github.com/blitzpp/blitz" + url = "https://github.com/blitzpp/blitz/tarball/1.0.0" + + version('1.0.0', '9f040b9827fe22228a892603671a77af') + + # No dependencies + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/boost/boost_11856.patch b/var/spack/repos/builtin/packages/boost/boost_11856.patch new file mode 100644 index 0000000000..3b4052ca18 --- /dev/null +++ b/var/spack/repos/builtin/packages/boost/boost_11856.patch @@ -0,0 +1,34 @@ +--- a/libs/container/src/pool_resource.cpp 2015-11-06 12:49:55.000000000 -0800 ++++ b/libs/container/src/pool_resource.cpp 2015-12-22 07:54:36.202131121 -0800 +@@ -32,11 +32,11 @@ + class pool_data_t + : public block_slist_base<> + { +- typedef block_slist_base<> block_slist_base; ++ typedef block_slist_base<> block_slist_base_t; + + public: + explicit pool_data_t(std::size_t initial_blocks_per_chunk) +- : block_slist_base(), next_blocks_per_chunk(initial_blocks_per_chunk) ++ : block_slist_base_t(), next_blocks_per_chunk(initial_blocks_per_chunk) + { slist_algo::init_header(&free_slist); } + + void *allocate_block() BOOST_NOEXCEPT +@@ -59,7 +59,7 @@ + void release(memory_resource &upstream) + { + slist_algo::init_header(&free_slist); +- this->block_slist_base::release(upstream); ++ this->block_slist_base_t::release(upstream); + next_blocks_per_chunk = pool_options_minimum_max_blocks_per_chunk; + } + +@@ -72,7 +72,7 @@ + + //Minimum block size is at least max_align, so all pools allocate sizes that are multiple of max_align, + //meaning that all blocks are max_align-aligned. +- char *p = static_cast<char *>(block_slist_base::allocate(blocks_per_chunk*pool_block, mr)); ++ char *p = static_cast<char *>(block_slist_base_t::allocate(blocks_per_chunk*pool_block, mr)); + + //Create header types. This is no-throw + for(std::size_t i = 0, max = blocks_per_chunk; i != max; ++i){ diff --git a/var/spack/repos/builtin/packages/boost/package.py b/var/spack/repos/builtin/packages/boost/package.py new file mode 100644 index 0000000000..12bc9508c3 --- /dev/null +++ b/var/spack/repos/builtin/packages/boost/package.py @@ -0,0 +1,239 @@ +from spack import * +import spack +import sys + +import os +import sys + +class Boost(Package): + """Boost provides free peer-reviewed portable C++ source + libraries, emphasizing libraries that work well with the C++ + Standard Library. + + Boost libraries are intended to be widely useful, and usable + across a broad spectrum of applications. The Boost license + encourages both commercial and non-commercial use. + """ + homepage = "http://www.boost.org" + url = "http://downloads.sourceforge.net/project/boost/boost/1.55.0/boost_1_55_0.tar.bz2" + list_url = "http://sourceforge.net/projects/boost/files/boost/" + list_depth = 2 + + version('1.60.0', '65a840e1a0b13a558ff19eeb2c4f0cbe') + version('1.59.0', '6aa9a5c6a4ca1016edd0ed1178e3cb87') + version('1.58.0', 'b8839650e61e9c1c0a89f371dd475546') + version('1.57.0', '1be49befbdd9a5ce9def2983ba3e7b76') + version('1.56.0', 'a744cf167b05d72335f27c88115f211d') + version('1.55.0', 'd6eef4b4cacb2183f2bf265a5a03a354') + version('1.54.0', '15cb8c0803064faef0c4ddf5bc5ca279') + version('1.53.0', 'a00d22605d5dbcfb4c9936a9b35bc4c2') + version('1.52.0', '3a855e0f919107e0ca4de4d84ad3f750') + version('1.51.0', '4b6bd483b692fd138aef84ed2c8eb679') + version('1.50.0', '52dd00be775e689f55a987baebccc462') + version('1.49.0', '0d202cb811f934282dea64856a175698') + version('1.48.0', 'd1e9a7a7f532bb031a3c175d86688d95') + version('1.47.0', 'a2dc343f7bc7f83f8941e47ed4a18200') + version('1.46.1', '7375679575f4c8db605d426fc721d506') + version('1.46.0', '37b12f1702319b73876b0097982087e0') + version('1.45.0', 'd405c606354789d0426bc07bea617e58') + version('1.44.0', 'f02578f5218f217a9f20e9c30e119c6a') + version('1.43.0', 'dd49767bfb726b0c774f7db0cef91ed1') + version('1.42.0', '7bf3b4eb841b62ffb0ade2b82218ebe6') + version('1.41.0', '8bb65e133907db727a2a825c5400d0a6') + version('1.40.0', 'ec3875caeac8c52c7c129802a8483bd7') + version('1.39.0', 'a17281fd88c48e0d866e1a12deecbcc0') + version('1.38.0', '5eca2116d39d61382b8f8235915cb267') + version('1.37.0', '8d9f990bfb7e83769fa5f1d6f065bc92') + version('1.36.0', '328bfec66c312150e4c2a78dcecb504b') + version('1.35.0', 'dce952a7214e72d6597516bcac84048b') + version('1.34.1', '2d938467e8a448a2c9763e0a9f8ca7e5') + version('1.34.0', 'ed5b9291ffad776f8757a916e1726ad0') + + default_install_libs = set(['atomic', + 'chrono', + 'date_time', + 'filesystem', + 'graph', + 'iostreams', + 'locale', + 'log', + 'math', + 'program_options', + 'random', + 'regex', + 'serialization', + 'signals', + 'system', + 'test', + 'thread', + 'wave']) + + # mpi/python are not installed by default because they pull in many + # dependencies and/or because there is a great deal of customization + # possible (and it would be difficult to choose sensible defaults) + default_noinstall_libs = set(['mpi', 'python']) + + all_libs = default_install_libs | default_noinstall_libs + + for lib in all_libs: + variant(lib, default=(lib not in default_noinstall_libs), + description="Compile with {0} library".format(lib)) + + variant('debug', default=False, description='Switch to the debug version of Boost') + variant('shared', default=True, description="Additionally build shared libraries") + variant('multithreaded', default=True, description="Build multi-threaded versions of libraries") + variant('singlethreaded', default=True, description="Build single-threaded versions of libraries") + variant('icu_support', default=False, description="Include ICU support (for regex/locale libraries)") + + depends_on('icu', when='+icu_support') + depends_on('python', when='+python') + depends_on('mpi', when='+mpi') + depends_on('bzip2', when='+iostreams') + depends_on('zlib', when='+iostreams') + + # Patch fix from https://svn.boost.org/trac/boost/ticket/11856 + patch('boost_11856.patch', when='@1.60.0%gcc@4.4.7') + + def url_for_version(self, version): + """Handle Boost's weird URLs, which write the version two different ways.""" + parts = [str(p) for p in Version(version)] + dots = ".".join(parts) + underscores = "_".join(parts) + return "http://downloads.sourceforge.net/project/boost/boost/%s/boost_%s.tar.bz2" % ( + dots, underscores) + + def determine_toolset(self, spec): + if spec.satisfies("=darwin-x86_64"): + return 'darwin' + + toolsets = {'g++': 'gcc', + 'icpc': 'intel', + 'clang++': 'clang'} + + for cc, toolset in toolsets.iteritems(): + if cc in self.compiler.cxx_names: + return toolset + + # fallback to gcc if no toolset found + return 'gcc' + + def determine_bootstrap_options(self, spec, withLibs, options): + boostToolsetId = self.determine_toolset(spec) + options.append('--with-toolset=%s' % boostToolsetId) + options.append("--with-libraries=%s" % ','.join(withLibs)) + + if '+python' in spec: + options.append('--with-python=%s' % + join_path(spec['python'].prefix.bin, 'python')) + + with open('user-config.jam', 'w') as f: + compiler_wrapper = join_path(spack.build_env_path, 'c++') + f.write("using {0} : : {1} ;\n".format(boostToolsetId, + compiler_wrapper)) + + if '+mpi' in spec: + f.write('using mpi : %s ;\n' % + join_path(spec['mpi'].prefix.bin, 'mpicxx')) + if '+python' in spec: + f.write('using python : %s : %s ;\n' % + (spec['python'].version, + join_path(spec['python'].prefix.bin, 'python'))) + + def determine_b2_options(self, spec, options): + if '+debug' in spec: + options.append('variant=debug') + else: + options.append('variant=release') + + if '+icu_support' in spec: + options.extend(['-s', 'ICU_PATH=%s' % spec['icu'].prefix]) + + if '+iostreams' in spec: + options.extend([ + '-s', 'BZIP2_INCLUDE=%s' % spec['bzip2'].prefix.include, + '-s', 'BZIP2_LIBPATH=%s' % spec['bzip2'].prefix.lib, + '-s', 'ZLIB_INCLUDE=%s' % spec['zlib'].prefix.include, + '-s', 'ZLIB_LIBPATH=%s' % spec['zlib'].prefix.lib, + ]) + + linkTypes = ['static'] + if '+shared' in spec: + linkTypes.append('shared') + + threadingOpts = [] + if '+multithreaded' in spec: + threadingOpts.append('multi') + if '+singlethreaded' in spec: + threadingOpts.append('single') + if not threadingOpts: + raise RuntimeError("At least one of {singlethreaded, multithreaded} must be enabled") + + options.extend([ + 'toolset=%s' % self.determine_toolset(spec), + 'link=%s' % ','.join(linkTypes), + '--layout=tagged']) + + return threadingOpts + + def install(self, spec, prefix): + # On Darwin, Boost expects the Darwin libtool. However, one of the + # dependencies may have pulled in Spack's GNU libtool, and these two are + # not compatible. We thus create a symlink to Darwin's libtool and add + # it at the beginning of PATH. + if sys.platform == 'darwin': + newdir = os.path.abspath('darwin-libtool') + mkdirp(newdir) + force_symlink('/usr/bin/libtool', join_path(newdir, 'libtool')) + env['PATH'] = newdir + ':' + env['PATH'] + + withLibs = list() + for lib in Boost.all_libs: + if "+{0}".format(lib) in spec: + withLibs.append(lib) + if not withLibs: + # if no libraries are specified for compilation, then you dont have + # to configure/build anything, just copy over to the prefix directory. + src = join_path(self.stage.source_path, 'boost') + mkdirp(join_path(prefix, 'include')) + dst = join_path(prefix, 'include', 'boost') + install_tree(src, dst) + return + + # Remove libraries that the release version does not support + if not spec.satisfies('@1.54.0:'): + withLibs.remove('log') + if not spec.satisfies('@1.53.0:'): + withLibs.remove('atomic') + if not spec.satisfies('@1.48.0:'): + withLibs.remove('locale') + if not spec.satisfies('@1.47.0:'): + withLibs.remove('chrono') + if not spec.satisfies('@1.43.0:'): + withLibs.remove('random') + + # to make Boost find the user-config.jam + env['BOOST_BUILD_PATH'] = './' + + bootstrap = Executable('./bootstrap.sh') + + bootstrap_options = ['--prefix=%s' % prefix] + self.determine_bootstrap_options(spec, withLibs, bootstrap_options) + + bootstrap(*bootstrap_options) + + # b2 used to be called bjam, before 1.47 (sigh) + b2name = './b2' if spec.satisfies('@1.47:') else './bjam' + + b2 = Executable(b2name) + b2_options = ['-j', '%s' % make_jobs] + + threadingOpts = self.determine_b2_options(spec, b2_options) + + # In theory it could be done on one call but it fails on + # Boost.MPI if the threading options are not separated. + for threadingOpt in threadingOpts: + b2('install', 'threading=%s' % threadingOpt, *b2_options) + + # The shared libraries are not installed correctly on Darwin; correct this + if (sys.platform == 'darwin') and ('+shared' in spec): + fix_darwin_install_name(prefix.lib) diff --git a/var/spack/packages/bowtie2/bowtie2-2.5.patch b/var/spack/repos/builtin/packages/bowtie2/bowtie2-2.5.patch index 290be39c73..290be39c73 100644 --- a/var/spack/packages/bowtie2/bowtie2-2.5.patch +++ b/var/spack/repos/builtin/packages/bowtie2/bowtie2-2.5.patch diff --git a/var/spack/packages/bowtie2/package.py b/var/spack/repos/builtin/packages/bowtie2/package.py index 339aab6598..339aab6598 100644 --- a/var/spack/packages/bowtie2/package.py +++ b/var/spack/repos/builtin/packages/bowtie2/package.py diff --git a/var/spack/packages/boxlib/package.py b/var/spack/repos/builtin/packages/boxlib/package.py index 4f1b71132f..4f1b71132f 100644 --- a/var/spack/packages/boxlib/package.py +++ b/var/spack/repos/builtin/packages/boxlib/package.py diff --git a/var/spack/packages/bzip2/package.py b/var/spack/repos/builtin/packages/bzip2/package.py index 638ba1fa4d..638ba1fa4d 100644 --- a/var/spack/packages/bzip2/package.py +++ b/var/spack/repos/builtin/packages/bzip2/package.py diff --git a/var/spack/packages/cairo/package.py b/var/spack/repos/builtin/packages/cairo/package.py index e1ac8aaa7d..8255e869be 100644 --- a/var/spack/packages/cairo/package.py +++ b/var/spack/repos/builtin/packages/cairo/package.py @@ -14,6 +14,7 @@ class Cairo(Package): def install(self, spec, prefix): configure("--prefix=%s" % prefix, + "--disable-trace", # can cause problems with libiberty "--enable-tee") make() make("install") diff --git a/var/spack/repos/builtin/packages/caliper/package.py b/var/spack/repos/builtin/packages/caliper/package.py new file mode 100644 index 0000000000..d51b4a4dd5 --- /dev/null +++ b/var/spack/repos/builtin/packages/caliper/package.py @@ -0,0 +1,25 @@ +from spack import * + +class Caliper(Package): + """ + Caliper is a generic context annotation system. It gives programmers the + ability to provide arbitrary program context information to (performance) + tools at runtime. + """ + + homepage = "https://github.com/LLNL/Caliper" + url = "" + + version('master', git='ssh://git@github.com:LLNL/Caliper.git') + + variant('mpi', default=False, description='Enable MPI function wrappers.') + + depends_on('libunwind') + depends_on('papi') + depends_on('mpi', when='+mpi') + + def install(self, spec, prefix): + with working_dir('build', create=True): + cmake('..', *std_cmake_args) + make() + make("install") diff --git a/var/spack/packages/callpath/package.py b/var/spack/repos/builtin/packages/callpath/package.py index f8a1eab9f7..3d2d96249e 100644 --- a/var/spack/packages/callpath/package.py +++ b/var/spack/repos/builtin/packages/callpath/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -28,8 +28,8 @@ class Callpath(Package): """Library for representing callpaths consistently in distributed-memory performance tools.""" - homepage = "https://github.com/scalability-llnl/callpath" - url = "https://github.com/scalability-llnl/callpath/archive/v1.0.1.tar.gz" + homepage = "https://github.com/llnl/callpath" + url = "https://github.com/llnl/callpath/archive/v1.0.1.tar.gz" version('1.0.2', 'b1994d5ee7c7db9d27586fc2dcf8f373') version('1.0.1', '0047983d2a52c5c335f8ba7f5bab2325') diff --git a/var/spack/packages/cblas/package.py b/var/spack/repos/builtin/packages/cblas/package.py index 3cfe5ee588..3cfe5ee588 100644 --- a/var/spack/packages/cblas/package.py +++ b/var/spack/repos/builtin/packages/cblas/package.py diff --git a/var/spack/repos/builtin/packages/cbtf-argonavis/package.py b/var/spack/repos/builtin/packages/cbtf-argonavis/package.py new file mode 100644 index 0000000000..7b07933911 --- /dev/null +++ b/var/spack/repos/builtin/packages/cbtf-argonavis/package.py @@ -0,0 +1,66 @@ +################################################################################ +# Copyright (c) 2015 Krell Institute. All Rights Reserved. +# +# This program is free software; you can redistribute it and/or modify it under +# the terms of the GNU General Public License as published by the Free Software +# Foundation; either version 2 of the License, or (at your option) any later +# version. +# +# This program is distributed in the hope that it will be useful, but WITHOUT +# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +# details. +# +# You should have received a copy of the GNU General Public License along with +# this program; if not, write to the Free Software Foundation, Inc., 59 Temple +# Place, Suite 330, Boston, MA 02111-1307 USA +################################################################################ + +from spack import * + +class CbtfArgonavis(Package): + """CBTF Argo Navis project contains the CUDA collector and supporting + libraries that was done as a result of a DOE SBIR grant.""" + homepage = "http://sourceforge.net/p/cbtf/wiki/Home/" + + # Mirror access template example + #url = "file:/g/g24/jeg/cbtf-argonavis-1.5.tar.gz" + #version('1.5', '1f7f6512f55409ed2135cfceabe26b82') + + version('1.6', branch='master', git='http://git.code.sf.net/p/cbtf-argonavis/cbtf-argonavis') + + depends_on("cmake@3.0.2:") + depends_on("papi") + depends_on("cbtf") + depends_on("cbtf-krell") + depends_on("cuda") + + parallel = False + + def install(self, spec, prefix): + + # Look for package installation information in the cbtf and cbtf-krell prefixes + cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix) + + # FIXME, hard coded for testing purposes, we will alter when the external package feature is available + cuda_prefix_path = "/usr/local/cudatoolkit-6.0" + cupti_prefix_path = "/usr/local/cudatoolkit-6.0/extras/CUPTI" + + + with working_dir('CUDA'): + with working_dir('build', create=True): + cmake('..', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + '-DCUDA_INSTALL_PATH=%s' % cuda_prefix_path, + '-DCUDA_ROOT=%s' % cuda_prefix_path, + '-DCUPTI_ROOT=%s' % cupti_prefix_path, + '-DCUDA_DIR=%s' % cuda_prefix_path, + '-DPAPI_ROOT=%s' % spec['papi'].prefix, + '-DCBTF_PREFIX=%s' % spec['cbtf'].prefix, + *std_cmake_args) + make("clean") + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/cbtf-krell/package.py b/var/spack/repos/builtin/packages/cbtf-krell/package.py new file mode 100644 index 0000000000..9458ac113c --- /dev/null +++ b/var/spack/repos/builtin/packages/cbtf-krell/package.py @@ -0,0 +1,116 @@ +################################################################################ +# Copyright (c) 2015 Krell Institute. All Rights Reserved. +# +# This program is free software; you can redistribute it and/or modify it under +# the terms of the GNU General Public License as published by the Free Software +# Foundation; either version 2 of the License, or (at your option) any later +# version. +# +# This program is distributed in the hope that it will be useful, but WITHOUT +# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +# details. +# +# You should have received a copy of the GNU General Public License along with +# this program; if not, write to the Free Software Foundation, Inc., 59 Temple +# Place, Suite 330, Boston, MA 02111-1307 USA +################################################################################ + +from spack import * + +class CbtfKrell(Package): + """CBTF Krell project contains the Krell Institute contributions to the CBTF project. + These contributions include many performance data collectors and support + libraries as well as some example tools that drive the data collection at + HPC levels of scale.""" + homepage = "http://sourceforge.net/p/cbtf/wiki/Home/" + + # optional mirror access template + #url = "file:/g/g24/jeg/cbtf-krell-1.5.tar.gz" + #version('1.5', 'b13f6df6a93c44149d977773dd776d2f') + + version('1.6', branch='master', git='http://git.code.sf.net/p/cbtf-krell/cbtf-krell') + + + # Dependencies for cbtf-krell + + # For binutils service + depends_on("binutils@2.24+krellpatch") + + # collectionTool + depends_on("boost@1.50.0") + depends_on("dyninst@8.2.1") + depends_on("mrnet@4.1.0:+lwthreads") + depends_on("xerces-c@3.1.1:") + depends_on("cbtf") + + # for services and collectors + depends_on("libmonitor+krellpatch") + depends_on("libunwind") + depends_on("papi") + + # MPI Installations + # These have not worked either for build or execution, commenting out for now + #depends_on("openmpi") + #depends_on("mvapich2@2.0") + #depends_on("mpich") + + parallel = False + + def install(self, spec, prefix): + + # Add in paths for finding package config files that tell us where to find these packages + cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['dyninst'].prefix) + + # FIXME - hard code path until external package support is available + # Need to change this path and/or add additional paths for MPI experiment support on different platforms + #openmpi_prefix_path = "/opt/openmpi-1.8.2" + #mvapich_prefix_path = "/usr/local/tools/mvapich-gnu" + + # Other possibilities, they will need a -DMVAPICH_DIR=, etc clause in the cmake command to be recognized + # mvapich_prefix_path = "<mvapich install path>" + # mvapich2_prefix_path = "<mvapich2 install path>" + # mpich2_prefix_path = "<mpich2 install path>" + # mpich_prefix_path = "<mpich install path>" + # mpt_prefix_path = "<mpt install path>" + + # Add in paths for cuda if requested via the cuda variant + # FIXME - hard code path until external package support is available + #if '+cuda' in spec: + # cuda_prefix_path = "/usr/local/cuda-6.0" + # cupti_prefix_path = "/usr/local/cuda-6.0/extras/CUPTI" + #else: + # cuda_prefix_path = "" + # cupti_prefix_path = "" + + #'-DMVAPICH2_DIR=%s' % spec['mvapich2'].prefix, + #'-DOPENMPI_DIR=%s' % spec['openmpi'].prefix, + #'-DMPICH_DIR=%s' % spec['mpich'].prefix, + #'-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + #'-DOPENMPI_DIR=%s' % openmpi_prefix_path, + #'-DMVAPICH_DIR=%s' % mvapich_prefix_path, + #'-DLIB_SUFFIX=64', + #'-DCUDA_DIR=%s' % cuda_prefix_path, + #'-DCUPTI_DIR=%s' % cupti_prefix_path, + + # Build cbtf-krell with cmake + with working_dir('build_cbtf_krell', create=True): + cmake('..', + '-DCMAKE_BUILD_TYPE=Debug', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCBTF_DIR=%s' % spec['cbtf'].prefix, + '-DBINUTILS_DIR=%s' % spec['binutils'].prefix, + '-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix, + '-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix, + '-DPAPI_DIR=%s' % spec['papi'].prefix, + '-DBOOST_DIR=%s' % spec['boost'].prefix, + '-DMRNET_DIR=%s' % spec['mrnet'].prefix, + '-DDYNINST_DIR=%s' % spec['dyninst'].prefix, + '-DXERCESC_DIR=%s' % spec['xerces-c'].prefix, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + *std_cmake_args) + + make("clean") + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/cbtf-lanl/package.py b/var/spack/repos/builtin/packages/cbtf-lanl/package.py new file mode 100644 index 0000000000..2da9e8a1f7 --- /dev/null +++ b/var/spack/repos/builtin/packages/cbtf-lanl/package.py @@ -0,0 +1,60 @@ +################################################################################ +# Copyright (c) 2015 Krell Institute. All Rights Reserved. +# +# This program is free software; you can redistribute it and/or modify it under +# the terms of the GNU General Public License as published by the Free Software +# Foundation; either version 2 of the License, or (at your option) any later +# version. +# +# This program is distributed in the hope that it will be useful, but WITHOUT +# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +# details. +# +# You should have received a copy of the GNU General Public License along with +# this program; if not, write to the Free Software Foundation, Inc., 59 Temple +# Place, Suite 330, Boston, MA 02111-1307 USA +################################################################################ + +from spack import * + +class CbtfLanl(Package): + """CBTF LANL project contains a memory tool and data center type system command monitoring tool.""" + homepage = "http://sourceforge.net/p/cbtf/wiki/Home/" + + + # Mirror access template example + #url = "file:/g/g24/jeg/cbtf-lanl-1.5.tar.gz" + #version('1.5', 'c3f78f967b0a42c6734ce4be0e602426') + + version('1.6', branch='master', git='http://git.code.sf.net/p/cbtf-lanl/cbtf-lanl') + + + # Dependencies for cbtf-krell + depends_on("boost@1.50") + depends_on("mrnet@4.1.0:+lwthreads") + depends_on("xerces-c@3.1.1:") + depends_on("cbtf") + depends_on("cbtf-krell") + + parallel = False + + def install(self, spec, prefix): + + # Add in paths for finding package config files that tell us where to find these packages + cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix) + + with working_dir('build', create=True): + cmake('..', + '-DCBTF_DIR=%s' % spec['cbtf'].prefix, + '-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix, + '-DMRNET_DIR=%s' % spec['mrnet'].prefix, + '-DXERCESC_DIR=%s' % spec['xerces-c'].prefix, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + '-DCMAKE_MODULE_PATH=%s' % join_path(prefix.share,'KrellInstitute','cmake'), + *std_cmake_args) + + make("clean") + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/cbtf/package.py b/var/spack/repos/builtin/packages/cbtf/package.py new file mode 100644 index 0000000000..52e6a07020 --- /dev/null +++ b/var/spack/repos/builtin/packages/cbtf/package.py @@ -0,0 +1,62 @@ +################################################################################ +# Copyright (c) 2015 Krell Institute. All Rights Reserved. +# +# This program is free software; you can redistribute it and/or modify it under +# the terms of the GNU General Public License as published by the Free Software +# Foundation; either version 2 of the License, or (at your option) any later +# version. +# +# This program is distributed in the hope that it will be useful, but WITHOUT +# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +# details. +# +# You should have received a copy of the GNU General Public License along with +# this program; if not, write to the Free Software Foundation, Inc., 59 Temple +# Place, Suite 330, Boston, MA 02111-1307 USA +################################################################################ + +from spack import * + +class Cbtf(Package): + """CBTF project contains the base code for CBTF that supports creating components, + component networks and the support to connect these components and component + networks into sequential and distributed network tools.""" + homepage = "http://sourceforge.net/p/cbtf/wiki/Home" + + # Mirror access template example + #url = "file:/g/g24/jeg/cbtf-1.5.tar.gz" + #version('1.6', '1ca88a8834759c4c74452cb97fe7b70a') + + # Use when the git repository is available + version('1.6', branch='master', git='http://git.code.sf.net/p/cbtf/cbtf') + + depends_on("cmake") + #depends_on("boost@1.42.0:") + depends_on("boost@1.50.0") + depends_on("mrnet@4.1.0+lwthreads") + depends_on("xerces-c@3.1.1:") + depends_on("libxml2") + + parallel = False + + def install(self, spec, prefix): + with working_dir('build', create=True): + + # Boost_NO_SYSTEM_PATHS Set to TRUE to suppress searching + # in system paths (or other locations outside of BOOST_ROOT + # or BOOST_INCLUDEDIR). Useful when specifying BOOST_ROOT. + # Defaults to OFF. + + cmake('..', + '--debug-output', + '-DBoost_NO_SYSTEM_PATHS=TRUE', + '-DXERCESC_DIR=%s' % spec['xerces-c'].prefix, + '-DBOOST_ROOT=%s' % spec['boost'].prefix, + '-DMRNET_DIR=%s' % spec['mrnet'].prefix, + '-DCMAKE_MODULE_PATH=%s' % join_path(prefix.share,'KrellInstitute','cmake'), + *std_cmake_args) + + make("clean") + make() + make("install") diff --git a/var/spack/repos/builtin/packages/cereal/Werror.patch b/var/spack/repos/builtin/packages/cereal/Werror.patch new file mode 100644 index 0000000000..d39eaaffdb --- /dev/null +++ b/var/spack/repos/builtin/packages/cereal/Werror.patch @@ -0,0 +1,33 @@ +--- old/sandbox/CMakeLists.txt ++++ new/sandbox/CMakeLists.txt +@@ -4,9 +4,11 @@ + add_executable(sandbox_json sandbox_json.cpp) + add_executable(sandbox_rtti sandbox_rtti.cpp) + ++if(Boost_FOUND) + add_executable(sandbox_vs sandbox_vs.cpp) + target_link_libraries(sandbox_vs sandbox_vs_dll) + include_directories(sandbox_shared_lib) ++endif(Boost_FOUND) + + if(Boost_FOUND) + add_executable(performance performance.cpp) +--- old/include/cereal/types/common.hpp ++++ new/include/cereal/types/common.hpp +@@ -106,14 +106,16 @@ + t = reinterpret_cast<typename common_detail::is_enum<T>::type const &>( value ); + } + ++#ifndef CEREAL_ENABLE_RAW_POINTER_SERIALIZATION + //! Serialization for raw pointers + /*! This exists only to throw a static_assert to let users know we don't support raw pointers. */ + template <class Archive, class T> inline + void CEREAL_SERIALIZE_FUNCTION_NAME( Archive &, T * & ) + { + static_assert(cereal::traits::detail::delay_static_assert<T>::value, + "Cereal does not support serializing raw pointers - please use a smart pointer"); + } ++#endif + + //! Serialization for C style arrays + template <class Archive, class T> inline diff --git a/var/spack/repos/builtin/packages/cereal/package.py b/var/spack/repos/builtin/packages/cereal/package.py new file mode 100644 index 0000000000..6acbf666c8 --- /dev/null +++ b/var/spack/repos/builtin/packages/cereal/package.py @@ -0,0 +1,38 @@ +from spack import * +import os +import shutil + +class Cereal(Package): + """cereal is a header-only C++11 serialization library. cereal takes arbitrary data types and reversibly turns them into different representations, such as compact binary encodings, XML, or JSON. cereal was designed to be fast, light-weight, and easy to extend - it has no external dependencies and can be easily bundled with other code or used standalone.""" + homepage = "http://uscilab.github.io/cereal/" + url = "https://github.com/USCiLab/cereal/archive/v1.1.2.tar.gz" + + version('1.1.2', '34d4ad174acbff005c36d4d10e48cbb9') + version('1.1.1', '0ceff308c38f37d5b5f6df3927451c27') + version('1.1.0', '9f2d5f72e935c54f4c6d23e954ce699f') + version('1.0.0', 'd1bacca70a95cec0ddbff68b0871296b') + version('0.9.1', '8872d4444ff274ce6cd1ed364d0fc0ad') + + patch("Werror.patch") + + depends_on("cmake @2.6.2:") + + def install(self, spec, prefix): + # Don't use -Werror + filter_file(r'-Werror', '', 'CMakeLists.txt') + + # configure + # Boost is only used for self-tests, which we are not running (yet?) + cmake('.', '-DCMAKE_DISABLE_FIND_PACKAGE_Boost=TRUE', *std_cmake_args) + + # Build + make() + + # Install + shutil.rmtree(join_path(prefix, 'doc'), ignore_errors=True) + shutil.rmtree(join_path(prefix, 'include'), ignore_errors=True) + shutil.rmtree(join_path(prefix, 'lib'), ignore_errors=True) + shutil.copytree('doc', join_path(prefix, 'doc'), symlinks=True) + shutil.copytree('include', join_path(prefix, 'include'), symlinks=True) + # Create empty directory to avoid linker warnings later + os.mkdir(join_path(prefix, 'lib')) diff --git a/var/spack/repos/builtin/packages/cfitsio/package.py b/var/spack/repos/builtin/packages/cfitsio/package.py new file mode 100644 index 0000000000..ff450cb5f3 --- /dev/null +++ b/var/spack/repos/builtin/packages/cfitsio/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Cfitsio(Package): + """ + CFITSIO is a library of C and Fortran subroutines for reading and writing + data files in FITS (Flexible Image Transport System) data format. + """ + homepage = 'http://heasarc.gsfc.nasa.gov/fitsio/' + version('3.370', 'abebd2d02ba5b0503c633581e3bfa116') + + def url_for_version(self, v): + url = 'ftp://heasarc.gsfc.nasa.gov/software/fitsio/c/cfitsio{0}.tar.gz' + return url.format(str(v).replace('.', '')) + + def install(self, spec, prefix): + configure('--prefix=' + prefix) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/cgal/package.py b/var/spack/repos/builtin/packages/cgal/package.py new file mode 100644 index 0000000000..ef4a2736db --- /dev/null +++ b/var/spack/repos/builtin/packages/cgal/package.py @@ -0,0 +1,74 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Cgal(Package): + """ + CGAL is a software project that provides easy access to efficient and reliable geometric algorithms in the form of + a C++ library. CGAL is used in various areas needing geometric computation, such as geographic information systems, + computer aided design, molecular biology, medical imaging, computer graphics, and robotics. + """ + homepage = 'http://www.cgal.org/' + url = 'https://github.com/CGAL/cgal/archive/releases/CGAL-4.7.tar.gz' + + version('4.7', '4826714810f3b4c65cac96b90fb03b67') + version('4.6.3', 'e8ee2ecc8d2b09b94a121c09257b576d') + + # Installation instructions : http://doc.cgal.org/latest/Manual/installation.html + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds a debug version of the libraries') + + depends_on('boost') + depends_on('mpfr') + depends_on('gmp') + depends_on('zlib') + depends_on('cmake') + + # FIXME : Qt5 dependency missing (needs Qt5 and OpenGL) + # FIXME : Optional third party libraries missing + + def install(self, spec, prefix): + + options = [] + options.extend(std_cmake_args) + # CGAL supports only Release and Debug build type. Any other build type will raise an error at configure time + if '+debug' in spec: + options.append('-DCMAKE_BUILD_TYPE:STRING=Debug') + else: + options.append('-DCMAKE_BUILD_TYPE:STRING=Release') + + if '+shared' in spec: + options.append('-DBUILD_SHARED_LIBS:BOOL=ON') + else: + options.append('-DBUILD_SHARED_LIBS:BOOL=OFF') + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make("install") diff --git a/var/spack/packages/cgm/package.py b/var/spack/repos/builtin/packages/cgm/package.py index 05d6395c5a..05d6395c5a 100644 --- a/var/spack/packages/cgm/package.py +++ b/var/spack/repos/builtin/packages/cgm/package.py diff --git a/var/spack/repos/builtin/packages/cityhash/package.py b/var/spack/repos/builtin/packages/cityhash/package.py new file mode 100644 index 0000000000..1643cc3b42 --- /dev/null +++ b/var/spack/repos/builtin/packages/cityhash/package.py @@ -0,0 +1,16 @@ +from spack import * +from spack.util.environment import * + +class Cityhash(Package): + homepage = "https://github.com/google/cityhash" + url = "https://github.com/google/cityhash" + + version('2013-07-31', git='https://github.com/google/cityhash.git', commit='8af9b8c2b889d80c22d6bc26ba0df1afb79a30db') + version('master', branch='master', git='https://github.com/google/cityhash.git') + + def install(self, spec, prefix): + configure('--enable-sse4.2', '--prefix=%s' % prefix) + + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/cleverleaf/package.py b/var/spack/repos/builtin/packages/cleverleaf/package.py new file mode 100644 index 0000000000..fb400b25c3 --- /dev/null +++ b/var/spack/repos/builtin/packages/cleverleaf/package.py @@ -0,0 +1,23 @@ +from spack import * + +class Cleverleaf(Package): + """ + CleverLeaf is a hydrodynamics mini-app that extends CloverLeaf with Adaptive + Mesh Refinement using the SAMRAI toolkit from Lawrence Livermore National + Laboratory. The primary goal of CleverLeaf is to evaluate the application of + AMR to the Lagrangian-Eulerian hydrodynamics scheme used by CloverLeaf. + """ + + homepage = "http://uk-mac.github.io/CleverLeaf/" + url = "https://github.com/UK-MAC/CleverLeaf/tarball/master" + + version('develop', git='https://github.com/UK-MAC/CleverLeaf_ref.git', branch='develop') + + depends_on("SAMRAI@3.8.0:") + depends_on("hdf5+mpi") + depends_on("boost") + + def install(self, spec, prefix): + cmake(*std_cmake_args) + make() + make("install") diff --git a/var/spack/packages/cloog/package.py b/var/spack/repos/builtin/packages/cloog/package.py index 814a33c76c..814a33c76c 100644 --- a/var/spack/packages/cloog/package.py +++ b/var/spack/repos/builtin/packages/cloog/package.py diff --git a/var/spack/repos/builtin/packages/cmake/package.py b/var/spack/repos/builtin/packages/cmake/package.py new file mode 100644 index 0000000000..2493cf0a13 --- /dev/null +++ b/var/spack/repos/builtin/packages/cmake/package.py @@ -0,0 +1,90 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + +class Cmake(Package): + """A cross-platform, open-source build system. CMake is a family of + tools designed to build, test and package software.""" + homepage = 'https://www.cmake.org' + url = 'https://cmake.org/files/v3.4/cmake-3.4.3.tar.gz' + + version('3.5.2', '701386a1b5ec95f8d1075ecf96383e02') + version('3.5.1', 'ca051f4a66375c89d1a524e726da0296') + version('3.5.0', '33c5d09d4c33d4ffcc63578a6ba8777e') + version('3.4.3', '4cb3ff35b2472aae70f542116d616e63') + version('3.4.0', 'cd3034e0a44256a0917e254167217fc8') + version('3.3.1', '52638576f4e1e621fed6c3410d3a1b12') + version('3.0.2', 'db4c687a31444a929d2fdc36c4dfb95f') + version('2.8.10.2', '097278785da7182ec0aea8769d06860c') + + variant('ncurses', default=True, description='Enables the build of the ncurses gui') + variant('openssl', default=True, description="Enables CMake's OpenSSL features") + variant('qt', default=False, description='Enables the build of cmake-gui') + variant('doc', default=False, description='Enables the generation of html and man page documentation') + + depends_on('ncurses', when='+ncurses') + depends_on('openssl', when='+openssl') + depends_on('qt', when='+qt') + depends_on('python@2.7.11:', when='+doc') + depends_on('py-sphinx', when='+doc') + + def url_for_version(self, version): + """Handle CMake's version-based custom URLs.""" + return 'https://cmake.org/files/v%s/cmake-%s.tar.gz' % (version.up_to(2), version) + + def validate(self, spec): + """ + Checks if incompatible versions of qt were specified + + :param spec: spec of the package + :raises RuntimeError: in case of inconsistencies + """ + + if '+qt' in spec and spec.satisfies('^qt@5.4.0'): + msg = 'qt-5.4.0 has broken CMake modules.' + raise RuntimeError(msg) + + def install(self, spec, prefix): + # Consistency check + self.validate(spec) + + # configure, build, install: + options = ['--prefix=%s' % prefix] + options.append('--parallel=%s' % str(make_jobs)) + + if '+qt' in spec: + options.append('--qt-gui') + + if '+doc' in spec: + options.append('--sphinx-html') + options.append('--sphinx-man') + + if '+openssl' in spec: + options.append('--') + options.append('-DCMAKE_USE_OPENSSL=ON') + + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/cmocka/package.py b/var/spack/repos/builtin/packages/cmocka/package.py new file mode 100644 index 0000000000..7377016a6b --- /dev/null +++ b/var/spack/repos/builtin/packages/cmocka/package.py @@ -0,0 +1,16 @@ +from spack import * + +class Cmocka(Package): + """Unit-testing framework in pure C""" + homepage = "https://cmocka.org/" + url = "https://cmocka.org/files/1.0/cmocka-1.0.1.tar.xz" + + version('1.0.1', 'ed861e501a21a92b2af63e466df2015e') + parallel = False + + def install(self, spec, prefix): + with working_dir('spack-build', create=True): + cmake('..', *std_cmake_args) + + make() + make("install") diff --git a/var/spack/packages/coreutils/package.py b/var/spack/repos/builtin/packages/coreutils/package.py index 78c608d8eb..78c608d8eb 100644 --- a/var/spack/packages/coreutils/package.py +++ b/var/spack/repos/builtin/packages/coreutils/package.py diff --git a/var/spack/packages/cppcheck/package.py b/var/spack/repos/builtin/packages/cppcheck/package.py index 8e98f457ee..8e98f457ee 100644 --- a/var/spack/packages/cppcheck/package.py +++ b/var/spack/repos/builtin/packages/cppcheck/package.py diff --git a/var/spack/packages/cram/package.py b/var/spack/repos/builtin/packages/cram/package.py index 4b8ec56f25..b19422b8a8 100644 --- a/var/spack/packages/cram/package.py +++ b/var/spack/repos/builtin/packages/cram/package.py @@ -2,11 +2,12 @@ from spack import * class Cram(Package): """Cram runs many small MPI jobs inside one large MPI job.""" - homepage = "https://github.com/scalability-llnl/cram" - url = "http://github.com/scalability-llnl/cram/archive/v1.0.1.tar.gz" + homepage = "https://github.com/llnl/cram" + url = "http://github.com/llnl/cram/archive/v1.0.1.tar.gz" version('1.0.1', 'c73711e945cf5dc603e44395f6647f5e') + extends('python') depends_on("mpi") def install(self, spec, prefix): diff --git a/var/spack/repos/builtin/packages/cryptopp/package.py b/var/spack/repos/builtin/packages/cryptopp/package.py new file mode 100644 index 0000000000..bc83cb2b65 --- /dev/null +++ b/var/spack/repos/builtin/packages/cryptopp/package.py @@ -0,0 +1,29 @@ +import glob +from spack import * + +class Cryptopp(Package): + """Crypto++ is an open-source C++ library of cryptographic schemes. The + library supports a number of different cryptography algorithms, including + authenticated encryption schemes (GCM, CCM), hash functions (SHA-1, SHA2), + public-key encryption (RSA, DSA), and a few obsolete/historical encryption + algorithms (MD5, Panama).""" + + homepage = "http://www.cryptopp.com" + base_url = "http://www.cryptopp.com" + + version('5.6.3', '3c5b70e2ec98b7a24988734446242d07') + version('5.6.2', '7ed022585698df48e65ce9218f6c6a67') + + def install(self, spec, prefix): + make() + + mkdirp(prefix.include) + for hfile in glob.glob('*.h*'): + install(hfile, prefix.include) + + mkdirp(prefix.lib) + install('libcryptopp.a', prefix.lib) + + def url_for_version(self, version): + version_string = str(version).replace('.', '') + return '%s/cryptopp%s.zip' % (Cryptopp.base_url, version_string) diff --git a/var/spack/packages/cscope/package.py b/var/spack/repos/builtin/packages/cscope/package.py index 9aac0f7304..9aac0f7304 100644 --- a/var/spack/packages/cscope/package.py +++ b/var/spack/repos/builtin/packages/cscope/package.py diff --git a/var/spack/repos/builtin/packages/cube/package.py b/var/spack/repos/builtin/packages/cube/package.py new file mode 100644 index 0000000000..17d388c33d --- /dev/null +++ b/var/spack/repos/builtin/packages/cube/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Cube(Package): + """ + Cube the profile viewer for Score-P and Scalasca profiles. It displays a multi-dimensional performance space + consisting of the dimensions: + - performance metric + - call path + - system resource + """ + + homepage = "http://www.scalasca.org/software/cube-4.x/download.html" + url = "http://apps.fz-juelich.de/scalasca/releases/cube/4.2/dist/cube-4.2.3.tar.gz" + + version('4.3.3', '07e109248ed8ffc7bdcce614264a2909', + url='http://apps.fz-juelich.de/scalasca/releases/cube/4.3/dist/cube-4.3.3.tar.gz') + + version('4.2.3', '8f95b9531f5a8f8134f279c2767c9b20', + url="http://apps.fz-juelich.de/scalasca/releases/cube/4.2/dist/cube-4.2.3.tar.gz") + + # TODO : add variant that builds GUI on top of Qt + + def install(self, spec, prefix): + configure_args = ["--prefix=%s" % prefix, + "--without-paraver", + "--without-gui"] + configure(*configure_args) + make(parallel=False) + make("install", parallel=False) diff --git a/var/spack/repos/builtin/packages/cuda/package.py b/var/spack/repos/builtin/packages/cuda/package.py new file mode 100644 index 0000000000..ea083d8651 --- /dev/null +++ b/var/spack/repos/builtin/packages/cuda/package.py @@ -0,0 +1,47 @@ +from spack import * +from glob import glob +import os + +class Cuda(Package): + """CUDA is a parallel computing platform and programming model invented by + NVIDIA. It enables dramatic increases in computing performance by harnessing + the power of the graphics processing unit (GPU). + + Note: NVIDIA does not provide a download URL for CUDA so you will need to + download it yourself. Go to https://developer.nvidia.com/cuda-downloads + and select your Operating System, Architecture, Distribution, and Version. + For the Installer Type, select runfile and click Download. Spack will search + your current directory for this file. Alternatively, add this file to a + mirror so that Spack can find it. For instructions on how to set up a mirror, + see http://software.llnl.gov/spack/mirrors.html + + Note: This package does not currently install the drivers necessary to run + CUDA. These will need to be installed manually. See: + http://docs.nvidia.com/cuda/cuda-getting-started-guide-for-linux for details.""" + + homepage = "http://www.nvidia.com/object/cuda_home_new.html" + + version('7.5.18', '4b3bcecf0dfc35928a0898793cf3e4c6', expand=False, + url="file://%s/cuda_7.5.18_linux.run" % os.getcwd()) + version('6.5.14', '90b1b8f77313600cc294d9271741f4da', expand=False, + url="file://%s/cuda_6.5.14_linux_64.run" % os.getcwd()) + + + def install(self, spec, prefix): + runfile = glob(os.path.join(self.stage.path, 'cuda*.run'))[0] + chmod = which('chmod') + chmod('+x', runfile) + runfile = which(runfile) + + # Note: NVIDIA does not officially support many newer versions of compilers. + # For example, on CentOS 6, you must use GCC 4.4.7 or older. See: + # http://docs.nvidia.com/cuda/cuda-installation-guide-linux/#system-requirements + # for details. + + runfile( + '--silent', # disable interactive prompts + '--verbose', # create verbose log file + '--toolkit', # install CUDA Toolkit + '--toolkitpath=%s' % prefix + ) + diff --git a/var/spack/repos/builtin/packages/curl/package.py b/var/spack/repos/builtin/packages/curl/package.py new file mode 100644 index 0000000000..ab6305fc08 --- /dev/null +++ b/var/spack/repos/builtin/packages/curl/package.py @@ -0,0 +1,26 @@ +from spack import * + +class Curl(Package): + """cURL is an open source command line tool and library for + transferring data with URL syntax""" + + homepage = "http://curl.haxx.se" + url = "http://curl.haxx.se/download/curl-7.46.0.tar.bz2" + + version('7.47.1', '9ea3123449439bbd960cd25cf98796fb') + version('7.46.0', '9979f989a2a9930d10f1b3deeabc2148') + version('7.45.0', '62c1a352b28558f25ba6209214beadc8') + version('7.44.0', '6b952ca00e5473b16a11f05f06aa8dae') + version('7.43.0', '11bddbb452a8b766b932f859aaeeed39') + version('7.42.1', '296945012ce647b94083ed427c1877a8') + + depends_on("openssl") + depends_on("zlib") + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix, + '--with-zlib=%s' % spec['zlib'].prefix, + '--with-ssl=%s' % spec['openssl'].prefix) + + make() + make("install") diff --git a/var/spack/repos/builtin/packages/czmq/package.py b/var/spack/repos/builtin/packages/czmq/package.py new file mode 100644 index 0000000000..0665332179 --- /dev/null +++ b/var/spack/repos/builtin/packages/czmq/package.py @@ -0,0 +1,33 @@ +from spack import * +import os + +class Czmq(Package): + """ A C interface to the ZMQ library """ + homepage = "http://czmq.zeromq.org" + url = "https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz" + + version('3.0.2', '23e9885f7ee3ce88d99d0425f52e9be1', url='https://github.com/zeromq/czmq/archive/v3.0.2.tar.gz') + + depends_on('libtool') + depends_on('automake') + depends_on('autoconf') + depends_on('pkg-config') + depends_on('zeromq') + + def install(self, spec, prefix): + bash = which("bash") + # Work around autogen.sh oddities + # bash("./autogen.sh") + mkdirp("config") + autoreconf = which("autoreconf") + autoreconf("--install", "--verbose", "--force", + "-I", "config", + "-I", os.path.join(spec['pkg-config'].prefix, "share", "aclocal"), + "-I", os.path.join(spec['automake'].prefix, "share", "aclocal"), + "-I", os.path.join(spec['libtool'].prefix, "share", "aclocal"), + ) + configure("--prefix=%s" % prefix) + + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/dakota/package.py b/var/spack/repos/builtin/packages/dakota/package.py new file mode 100644 index 0000000000..5ec82ef83d --- /dev/null +++ b/var/spack/repos/builtin/packages/dakota/package.py @@ -0,0 +1,55 @@ +from spack import * + + +class Dakota(Package): + """ + The Dakota toolkit provides a flexible, extensible interface between analysis codes and iterative systems + analysis methods. Dakota contains algorithms for: + + - optimization with gradient and non gradient-based methods; + - uncertainty quantification with sampling, reliability, stochastic expansion, and epistemic methods; + - parameter estimation with nonlinear least squares methods; + - sensitivity/variance analysis with design of experiments and parameter study methods. + + These capabilities may be used on their own or as components within advanced strategies such as hybrid optimization, + surrogate-based optimization, mixed integer nonlinear programming, or optimization under uncertainty. + """ + + homepage = 'https://dakota.sandia.gov/' + url = 'https://dakota.sandia.gov/sites/default/files/distributions/public/dakota-6.3-public.src.tar.gz' + _url_str = 'https://dakota.sandia.gov/sites/default/files/distributions/public/dakota-{version}-public.src.tar.gz' + + version('6.3', '05a58d209fae604af234c894c3f73f6d') + + variant('debug', default=False, description='Builds a debug version of the libraries') + variant('shared', default=True, description='Enables the build of shared libraries') + variant('mpi', default=True, description='Activates MPI support') + + depends_on('blas') + depends_on('lapack') + depends_on('mpi', when='+mpi') + + depends_on('python') + depends_on('boost') + + def url_for_version(self, version): + return Dakota._url_str.format(version=version) + + def install(self, spec, prefix): + options = [] + options.extend(std_cmake_args) + + options.extend(['-DCMAKE_BUILD_TYPE:STRING=%s' % ('Debug' if '+debug' in spec else 'Release'), + '-DBUILD_SHARED_LIBS:BOOL=%s' % ('ON' if '+shared' in spec else 'OFF')]) + + if '+mpi' in spec: + options.extend(['-DDAKOTA_HAVE_MPI:BOOL=ON', + '-DMPI_CXX_COMPILER:STRING=%s' % join_path(spec['mpi'].prefix.bin, 'mpicxx')]) + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/damselfly/package.py b/var/spack/repos/builtin/packages/damselfly/package.py new file mode 100644 index 0000000000..96666d1abe --- /dev/null +++ b/var/spack/repos/builtin/packages/damselfly/package.py @@ -0,0 +1,14 @@ +from spack import * + +class Damselfly(Package): + """Damselfly is a model-based parallel network simulator.""" + homepage = "https://github.com/llnl/damselfly" + url = "https://github.com/llnl/damselfly" + + version('1.0', '05cf7e2d8ece4408c0f2abb7ab63fd74c0d62895', git='https://github.com/llnl/damselfly.git', tag='v1.0') + + def install(self, spec, prefix): + with working_dir('spack-build', create=True): + cmake('-DCMAKE_BUILD_TYPE=release', '..', *std_cmake_args) + make() + make('install') diff --git a/var/spack/packages/dbus/package.py b/var/spack/repos/builtin/packages/dbus/package.py index f7c302d611..74ce8ef502 100644 --- a/var/spack/packages/dbus/package.py +++ b/var/spack/repos/builtin/packages/dbus/package.py @@ -13,16 +13,20 @@ class Dbus(Package): homepage = "http://dbus.freedesktop.org/" url = "http://dbus.freedesktop.org/releases/dbus/dbus-1.8.8.tar.gz" + version('1.11.2', '957a07f066f3730d2bb3ea0932f0081b') version('1.9.0', 'ec6895a4d5c0637b01f0d0e7689e2b36') version('1.8.8', 'b9f4a18ee3faa1e07c04aa1d83239c43') version('1.8.6', '6a08ba555d340e9dfe2d623b83c0eea8') version('1.8.4', '4717cb8ab5b80978fcadf2b4f2f72e1b') version('1.8.2', 'd6f709bbec0a022a1847c7caec9d6068') + depends_on('expat') + def install(self, spec, prefix): configure( "--prefix=%s" % prefix, - "--disable-systemd") + "--disable-systemd", + "--disable-launchd") make() make("install") diff --git a/var/spack/repos/builtin/packages/dealii/package.py b/var/spack/repos/builtin/packages/dealii/package.py new file mode 100644 index 0000000000..b251d50ca1 --- /dev/null +++ b/var/spack/repos/builtin/packages/dealii/package.py @@ -0,0 +1,253 @@ +from spack import * +import sys + +class Dealii(Package): + """C++ software library providing well-documented tools to build finite element codes for a broad variety of PDEs.""" + homepage = "https://www.dealii.org" + url = "https://github.com/dealii/dealii/releases/download/v8.4.0/dealii-8.4.0.tar.gz" + + version('8.4.0', 'ac5dbf676096ff61e092ce98c80c2b00') + version('dev', git='https://github.com/dealii/dealii.git') + + variant('mpi', default=True, description='Compile with MPI') + variant('arpack', default=True, description='Compile with Arpack and PArpack (only with MPI)') + variant('doc', default=False, description='Compile with documentation') + variant('hdf5', default=True, description='Compile with HDF5 (only with MPI)') + variant('metis', default=True, description='Compile with Metis') + variant('netcdf', default=True, description='Compile with Netcdf (only with MPI)') + variant('oce', default=True, description='Compile with OCE') + variant('p4est', default=True, description='Compile with P4est (only with MPI)') + variant('petsc', default=True, description='Compile with Petsc (only with MPI)') + variant('slepc', default=True, description='Compile with Slepc (only with Petsc and MPI)') + variant('trilinos', default=True, description='Compile with Trilinos (only with MPI)') + + # required dependencies, light version + depends_on ("blas") + # Boost 1.58 is blacklisted, see https://github.com/dealii/dealii/issues/1591 + # require at least 1.59 + depends_on ("boost@1.59.0:", when='~mpi') + depends_on ("boost@1.59.0:+mpi", when='+mpi') + depends_on ("bzip2") + depends_on ("cmake") + depends_on ("lapack") + depends_on ("muparser") + depends_on ("suite-sparse") + depends_on ("tbb") + depends_on ("zlib") + + # optional dependencies + depends_on ("mpi", when="+mpi") + depends_on ("arpack-ng+mpi", when='+arpack+mpi') + depends_on ("doxygen", when='+doc') + depends_on ("hdf5+mpi~cxx", when='+hdf5+mpi') #FIXME NetCDF declares dependency with ~cxx, why? + depends_on ("metis@5:", when='+metis') + depends_on ("netcdf+mpi", when="+netcdf+mpi") + depends_on ("netcdf-cxx", when='+netcdf+mpi') + depends_on ("oce", when='+oce') + depends_on ("p4est", when='+p4est+mpi') + depends_on ("petsc+mpi", when='+petsc+mpi') + depends_on ("slepc", when='+slepc+petsc+mpi') + depends_on ("trilinos", when='+trilinos+mpi') + + # developer dependnecies + #depends_on ("numdiff") #FIXME + #depends_on ("astyle") #FIXME + + def install(self, spec, prefix): + options = [] + options.extend(std_cmake_args) + + # CMAKE_BUILD_TYPE should be DebugRelease | Debug | Release + for word in options[:]: + if word.startswith('-DCMAKE_BUILD_TYPE'): + options.remove(word) + + dsuf = 'dylib' if sys.platform == 'darwin' else 'so' + options.extend([ + '-DCMAKE_BUILD_TYPE=DebugRelease', + '-DDEAL_II_COMPONENT_EXAMPLES=ON', + '-DDEAL_II_WITH_THREADS:BOOL=ON', + '-DBOOST_DIR=%s' % spec['boost'].prefix, + '-DBZIP2_DIR=%s' % spec['bzip2'].prefix, + # CMake's FindBlas/Lapack may pickup system's blas/lapack instead of Spack's. + # Be more specific to avoid this. + # Note that both lapack and blas are provided in -DLAPACK_XYZ variables + '-DLAPACK_FOUND=true', + '-DLAPACK_INCLUDE_DIRS=%s;%s' % + (spec['lapack'].prefix.include, + spec['blas'].prefix.include), + '-DLAPACK_LIBRARIES=%s;%s' % + (join_path(spec['lapack'].prefix.lib,'liblapack.%s' % dsuf), # FIXME don't hardcode names + join_path(spec['blas'].prefix.lib,'libblas.%s' % dsuf)), # FIXME don't hardcode names + '-DMUPARSER_DIR=%s ' % spec['muparser'].prefix, + '-DP4EST_DIR=%s' % spec['p4est'].prefix, + '-DUMFPACK_DIR=%s' % spec['suite-sparse'].prefix, + '-DTBB_DIR=%s' % spec['tbb'].prefix, + '-DZLIB_DIR=%s' % spec['zlib'].prefix + ]) + + # MPI + if '+mpi' in spec: + options.extend([ + '-DDEAL_II_WITH_MPI:BOOL=ON', + '-DCMAKE_C_COMPILER=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpicc'), # FIXME: avoid hardcoding mpi wrappers names + '-DCMAKE_CXX_COMPILER=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpic++'), + '-DCMAKE_Fortran_COMPILER=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpif90'), + ]) + else: + options.extend([ + '-DDEAL_II_WITH_MPI:BOOL=OFF', + ]) + + # Optional dependencies for which librariy names are the same as CMake variables + for library in ('hdf5', 'p4est','petsc', 'slepc','trilinos','metis'): + if library in spec: + options.extend([ + '-D{library}_DIR={value}'.format(library=library.upper(), value=spec[library].prefix), + '-DDEAL_II_WITH_{library}:BOOL=ON'.format(library=library.upper()) + ]) + else: + options.extend([ + '-DDEAL_II_WITH_{library}:BOOL=OFF'.format(library=library.upper()) + ]) + + # doxygen + options.extend([ + '-DDEAL_II_COMPONENT_DOCUMENTATION=%s' % ('ON' if '+doc' in spec else 'OFF'), + ]) + + + # arpack + if '+arpack' in spec: + options.extend([ + '-DARPACK_DIR=%s' % spec['arpack-ng'].prefix, + '-DDEAL_II_WITH_ARPACK=ON', + '-DDEAL_II_ARPACK_WITH_PARPACK=ON' + ]) + else: + options.extend([ + '-DDEAL_II_WITH_ARPACK=OFF' + ]) + + # since Netcdf is spread among two, need to do it by hand: + if '+netcdf' in spec: + options.extend([ + '-DNETCDF_FOUND=true', + '-DNETCDF_LIBRARIES=%s;%s' % + (join_path(spec['netcdf-cxx'].prefix.lib,'libnetcdf_c++.%s' % dsuf), + join_path(spec['netcdf'].prefix.lib,'libnetcdf.%s' % dsuf)), + '-DNETCDF_INCLUDE_DIRS=%s;%s' % + (spec['netcdf-cxx'].prefix.include, + spec['netcdf'].prefix.include), + ]) + else: + options.extend([ + '-DDEAL_II_WITH_NETCDF=OFF' + ]) + + # Open Cascade + if '+oce' in spec: + options.extend([ + '-DOPENCASCADE_DIR=%s' % spec['oce'].prefix, + '-DDEAL_II_WITH_OPENCASCADE=ON' + ]) + else: + options.extend([ + '-DDEAL_II_WITH_OPENCASCADE=OFF' + ]) + + cmake('.', *options) + + make() + make("test") + make("install") + + # run some MPI examples with different solvers from PETSc and Trilinos + env['DEAL_II_DIR'] = prefix + print('=====================================') + print('============ EXAMPLES ===============') + print('=====================================') + # take bare-bones step-3 + print('=====================================') + print('============ Step-3 =================') + print('=====================================') + with working_dir('examples/step-3'): + cmake('.') + make('release') + make('run',parallel=False) + + # An example which uses Metis + PETSc + # FIXME: switch step-18 to MPI + with working_dir('examples/step-18'): + print('=====================================') + print('============= Step-18 ===============') + print('=====================================') + # list the number of cycles to speed up + filter_file(r'(end_time = 10;)', ('end_time = 3;'), 'step-18.cc') + if '^petsc' in spec and '^metis' in spec: + cmake('.') + make('release') + make('run',parallel=False) + + # take step-40 which can use both PETSc and Trilinos + # FIXME: switch step-40 to MPI run + with working_dir('examples/step-40'): + print('=====================================') + print('========== Step-40 PETSc ============') + print('=====================================') + # list the number of cycles to speed up + filter_file(r'(const unsigned int n_cycles = 8;)', ('const unsigned int n_cycles = 2;'), 'step-40.cc') + cmake('.') + if '^petsc' in spec: + make('release') + make('run',parallel=False) + + print('=====================================') + print('========= Step-40 Trilinos ==========') + print('=====================================') + # change Linear Algebra to Trilinos + filter_file(r'(\/\/ #define FORCE_USE_OF_TRILINOS.*)', ('#define FORCE_USE_OF_TRILINOS'), 'step-40.cc') + if '^trilinos+hypre' in spec: + make('release') + make('run',parallel=False) + + print('=====================================') + print('=== Step-40 Trilinos SuperluDist ====') + print('=====================================') + # change to direct solvers + filter_file(r'(LA::SolverCG solver\(solver_control\);)', ('TrilinosWrappers::SolverDirect::AdditionalData data(false,"Amesos_Superludist"); TrilinosWrappers::SolverDirect solver(solver_control,data);'), 'step-40.cc') + filter_file(r'(LA::MPI::PreconditionAMG preconditioner;)', (''), 'step-40.cc') + filter_file(r'(LA::MPI::PreconditionAMG::AdditionalData data;)', (''), 'step-40.cc') + filter_file(r'(preconditioner.initialize\(system_matrix, data\);)', (''), 'step-40.cc') + filter_file(r'(solver\.solve \(system_matrix, completely_distributed_solution, system_rhs,)', ('solver.solve (system_matrix, completely_distributed_solution, system_rhs);'), 'step-40.cc') + filter_file(r'(preconditioner\);)', (''), 'step-40.cc') + if '^trilinos+superlu-dist' in spec: + make('release') + make('run',paralle=False) + + print('=====================================') + print('====== Step-40 Trilinos MUMPS =======') + print('=====================================') + # switch to Mumps + filter_file(r'(Amesos_Superludist)', ('Amesos_Mumps'), 'step-40.cc') + if '^trilinos+mumps' in spec: + make('release') + make('run',parallel=False) + + print('=====================================') + print('============ Step-36 ================') + print('=====================================') + with working_dir('examples/step-36'): + if 'slepc' in spec: + cmake('.') + make('release') + make('run',parallel=False) + + print('=====================================') + print('============ Step-54 ================') + print('=====================================') + with working_dir('examples/step-54'): + if 'oce' in spec: + cmake('.') + make('release') + make('run',parallel=False) diff --git a/var/spack/repos/builtin/packages/dia/package.py b/var/spack/repos/builtin/packages/dia/package.py new file mode 100644 index 0000000000..25d5f08205 --- /dev/null +++ b/var/spack/repos/builtin/packages/dia/package.py @@ -0,0 +1,35 @@ +from spack import * + +class Dia(Package): + """Dia is a program for drawing structured diagrams.""" + homepage = 'https://wiki.gnome.org/Apps/Dia' + url = 'https://ftp.gnome.org/pub/gnome/sources/dia/0.97/dia-0.97.3.tar.xz' + + version('0.97.3', '0e744a0f6a6c4cb6a089e4d955392c3c') + + depends_on('intltool') + depends_on('gtkplus@2.6.0:') + depends_on('cairo') + #depends_on('libart') # optional dependency, not yet supported by spack. + depends_on('libpng') + depends_on('libxslt') + depends_on('python') + depends_on('swig') + # depends_on('py-gtk') # optional dependency, not yet supported by spack. + + def url_for_version(self, version): + """Handle Dia's version-based custom URLs.""" + return 'https://ftp.gnome.org/pub/gnome/source/dia/%s/dia-%s.tar.xz' % (version.up_to(2), version) + + def install(self, spec, prefix): + + # configure, build, install: + options = ['--prefix=%s' % prefix, + '--with-cairo', + '--with-xslt-prefix=%s' % spec['libxslt'].prefix, + '--with-python', + '--with-swig'] + + configure(*options) + make() + make('install') diff --git a/var/spack/packages/docbook-xml/package.py b/var/spack/repos/builtin/packages/docbook-xml/package.py index fce1de7deb..fce1de7deb 100644 --- a/var/spack/packages/docbook-xml/package.py +++ b/var/spack/repos/builtin/packages/docbook-xml/package.py diff --git a/var/spack/packages/doxygen/package.py b/var/spack/repos/builtin/packages/doxygen/package.py index 3d4a4e47a7..3a1deba9e1 100644 --- a/var/spack/packages/doxygen/package.py +++ b/var/spack/repos/builtin/packages/doxygen/package.py @@ -4,6 +4,7 @@ #------------------------------------------------------------------------------ from spack import * +import sys class Doxygen(Package): """Doxygen is the de facto standard tool for generating documentation @@ -17,6 +18,10 @@ class Doxygen(Package): version('1.8.10', '79767ccd986f12a0f949015efb5f058f') depends_on("cmake@2.8.12:") + # flex does not build on OSX, but it's provided there anyway + depends_on("flex", sys.platform != 'darwin') + depends_on("bison", sys.platform != 'darwin') + def install(self, spec, prefix): cmake('.', *std_cmake_args) diff --git a/var/spack/packages/dri2proto/package.py b/var/spack/repos/builtin/packages/dri2proto/package.py index 11dfa568e2..11dfa568e2 100644 --- a/var/spack/packages/dri2proto/package.py +++ b/var/spack/repos/builtin/packages/dri2proto/package.py diff --git a/var/spack/packages/dtcmp/package.py b/var/spack/repos/builtin/packages/dtcmp/package.py index 9d940583c1..9d940583c1 100644 --- a/var/spack/packages/dtcmp/package.py +++ b/var/spack/repos/builtin/packages/dtcmp/package.py diff --git a/var/spack/packages/dyninst/package.py b/var/spack/repos/builtin/packages/dyninst/package.py index 41ec57dd2f..b28e897a0f 100644 --- a/var/spack/packages/dyninst/package.py +++ b/var/spack/repos/builtin/packages/dyninst/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -31,6 +31,8 @@ class Dyninst(Package): url = "http://www.dyninst.org/sites/default/files/downloads/dyninst/8.1.2/DyninstAPI-8.1.2.tgz" list_url = "http://www.dyninst.org/downloads/dyninst-8.x" + version('9.1.0', '5c64b77521457199db44bec82e4988ac', + url="http://www.paradyn.org/release9.1.0/DyninstAPI-9.1.0.tgz") version('8.2.1', 'abf60b7faabe7a2e4b54395757be39c7', url="http://www.paradyn.org/release8.2/DyninstAPI-8.2.1.tgz") version('8.1.2', 'bf03b33375afa66fe0efa46ce3f4b17a', @@ -49,14 +51,15 @@ class Dyninst(Package): with working_dir('spack-build', create=True): cmake('..', - '-DBoost_INCLUDE_DIR=%s' % spec['boost'].prefix.include, - '-DBoost_LIBRARY_DIR=%s' % spec['boost'].prefix.lib, + '-DBoost_INCLUDE_DIR=%s' % spec['boost'].prefix.include, + '-DBoost_LIBRARY_DIR=%s' % spec['boost'].prefix.lib, '-DBoost_NO_SYSTEM_PATHS=TRUE', '-DLIBELF_INCLUDE_DIR=%s' % join_path(libelf.include, 'libelf'), '-DLIBELF_LIBRARIES=%s' % join_path(libelf.lib, 'libelf.so'), '-DLIBDWARF_INCLUDE_DIR=%s' % libdwarf.include, '-DLIBDWARF_LIBRARIES=%s' % join_path(libdwarf.lib, 'libdwarf.so'), *std_cmake_args) + make() make("install") diff --git a/var/spack/repos/builtin/packages/eigen/package.py b/var/spack/repos/builtin/packages/eigen/package.py new file mode 100644 index 0000000000..1501989812 --- /dev/null +++ b/var/spack/repos/builtin/packages/eigen/package.py @@ -0,0 +1,69 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by David Beckingsale, david@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Eigen(Package): + """ + Eigen is a C++ template library for linear algebra: matrices, vectors, numerical solvers, and related algorithms + """ + + homepage = 'http://eigen.tuxfamily.org/' + url = 'http://bitbucket.org/eigen/eigen/get/3.2.7.tar.bz2' + + version('3.2.7', 'cc1bacbad97558b97da6b77c9644f184', url='http://bitbucket.org/eigen/eigen/get/3.2.7.tar.bz2') + + variant('debug', default=False, description='Builds the library in debug mode') + + variant('metis', default=True, description='Enables metis backend') + variant('scotch', default=True, description='Enables scotch backend') + variant('fftw', default=True, description='Enables FFTW backend') + variant('suitesparse', default=True, description='Enables SuiteSparse support') + + # TODO : dependency on googlehash, superlu, adolc missing + + depends_on('metis@5:', when='+metis') + depends_on('scotch', when='+scotch') + depends_on('fftw', when='+fftw') + depends_on('suite-sparse', when='+suitesparse') + depends_on('mpfr@2.3.0:') # Eigen 3.2.7 requires at least 2.3.0 + depends_on('gmp') + + def install(self, spec, prefix): + + options = [] + options.extend(std_cmake_args) + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + + if '+debug' in spec: + options.append('-DCMAKE_BUILD_TYPE:STRING=Debug') + + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make("install") diff --git a/var/spack/packages/elfutils/package.py b/var/spack/repos/builtin/packages/elfutils/package.py index 926d234584..926d234584 100644 --- a/var/spack/packages/elfutils/package.py +++ b/var/spack/repos/builtin/packages/elfutils/package.py diff --git a/var/spack/repos/builtin/packages/elk/package.py b/var/spack/repos/builtin/packages/elk/package.py new file mode 100644 index 0000000000..1d9216fd1a --- /dev/null +++ b/var/spack/repos/builtin/packages/elk/package.py @@ -0,0 +1,122 @@ +from spack import * +import spack + +class Elk(Package): + '''An all-electron full-potential linearised augmented-plane wave + (FP-LAPW) code with many advanced features.''' + + homepage = 'http://elk.sourceforge.net/' + url = 'https://sourceforge.net/projects/elk/files/elk-3.3.17.tgz' + + version('3.3.17', 'f57f6230d14f3b3b558e5c71f62f0592') + + # Elk provides these libraries, but allows you to specify your own + variant('blas', default=True, description='Build with custom BLAS library') + variant('lapack', default=True, description='Build with custom LAPACK library') + variant('fft', default=True, description='Build with custom FFT library') + + # Elk does not provide these libraries, but allows you to use them + variant('mpi', default=True, description='Enable MPI parallelism') + variant('openmp', default=True, description='Enable OpenMP support') + variant('libxc', default=True, description='Link to Libxc functional library') + + depends_on('blas', when='+blas') + depends_on('lapack', when='+lapack') + depends_on('fftw', when='+fft') + depends_on('mpi', when='+mpi') + depends_on('libxc', when='+libxc') + + # Cannot be built in parallel + parallel = False + + + def configure(self, spec): + # Dictionary of configuration options + config = { + 'MAKE': 'make', + 'F90': join_path(spack.build_env_path, 'f90'), + 'F77': join_path(spack.build_env_path, 'f77'), + 'AR': 'ar', + 'LIB_FFT': 'fftlib.a', + 'SRC_MPI': 'mpi_stub.f90', + 'SRC_OMP': 'omp_stub.f90', + 'SRC_libxc': 'libxcifc_stub.f90', + 'SRC_FFT': 'zfftifc.f90' + } + + # Compiler-specific flags + flags = '' + if self.compiler.name == 'intel': + flags = '-O3 -ip -unroll -no-prec-div -openmp' + elif self.compiler.name == 'gcc': + flags = '-O3 -ffast-math -funroll-loops -fopenmp' + elif self.compiler.name == 'pgi': + flags = '-O3 -mp -lpthread' + elif self.compiler.name == 'g95': + flags = '-O3 -fno-second-underscore' + elif self.compiler.name == 'nag': + flags = '-O4 -kind=byte -dusty -dcfuns' + elif self.compiler.name == 'xl': + flags = '-O3 -qsmp=omp' + config['F90_OPTS'] = flags + config['F77_OPTS'] = flags + + # BLAS/LAPACK support + blas = 'blas.a' + lapack = 'lapack.a' + if '+blas' in spec: + blas = join_path(spec['blas'].prefix.lib, 'libblas.so') + if '+lapack' in spec: + lapack = join_path(spec['lapack'].prefix.lib, 'liblapack.so') + config['LIB_LPK'] = ' '.join([lapack, blas]) # lapack must come before blas + + # FFT support + if '+fft' in spec: + config['LIB_FFT'] = join_path(spec['fftw'].prefix.lib, 'libfftw3.so') + config['SRC_FFT'] = 'zfftifc_fftw.f90' + + # MPI support + if '+mpi' in spec: + config.pop('SRC_MPI') + config['F90'] = join_path(spec['mpi'].prefix.bin, 'mpif90') + config['F77'] = join_path(spec['mpi'].prefix.bin, 'mpif77') + + # OpenMP support + if '+openmp' in spec: + config.pop('SRC_OMP') + + # Libxc support + if '+libxc' in spec: + config['LIB_libxc'] = ' '.join([ + join_path(spec['libxc'].prefix.lib, 'libxcf90.so'), + join_path(spec['libxc'].prefix.lib, 'libxc.so') + ]) + config['SRC_libxc'] = ' '.join([ + 'libxc_funcs.f90', + 'libxc.f90', + 'libxcifc.f90' + ]) + + # Write configuration options to include file + with open('make.inc', 'w') as inc: + for key in config: + inc.write('{0} = {1}\n'.format(key, config[key])) + + + def install(self, spec, prefix): + # Elk only provides an interactive setup script + self.configure(spec) + + make() + make('test') + + # The Elk Makefile does not provide an install target + mkdirp(prefix.bin) + + install('src/elk', prefix.bin) + install('src/eos/eos', prefix.bin) + install('src/spacegroup/spacegroup', prefix.bin) + + install_tree('examples', join_path(prefix, 'examples')) + install_tree('species', join_path(prefix, 'species')) + diff --git a/var/spack/repos/builtin/packages/elpa/package.py b/var/spack/repos/builtin/packages/elpa/package.py new file mode 100644 index 0000000000..2ade5b0b37 --- /dev/null +++ b/var/spack/repos/builtin/packages/elpa/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Elpa(Package): + """ + Eigenvalue solvers for Petaflop-Applications (ELPA) + """ + + homepage = 'http://elpa.mpcdf.mpg.de/' + url = 'http://elpa.mpcdf.mpg.de/elpa-2015.11.001.tar.gz' + + version('2015.11.001', 'de0f35b7ee7c971fd0dca35c900b87e6', url='http://elpa.mpcdf.mpg.de/elpa-2015.11.001.tar.gz') + + variant('openmp', default=False, description='Activates OpenMP support') + + depends_on('mpi') + depends_on('blas') + depends_on('lapack') + depends_on('scalapack') + + def install(self, spec, prefix): + + options = ["--prefix=%s" % prefix] + + if '+openmp' in spec: + options.append("--enable-openmp") + + configure(*options) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/emacs/package.py b/var/spack/repos/builtin/packages/emacs/package.py new file mode 100644 index 0000000000..caa264857e --- /dev/null +++ b/var/spack/repos/builtin/packages/emacs/package.py @@ -0,0 +1,21 @@ +from spack import * + +class Emacs(Package): + """The Emacs programmable text editor.""" + homepage = "https://www.gnu.org/software/emacs" + url = "http://ftp.gnu.org/gnu/emacs/emacs-24.5.tar.gz" + + version('24.5', 'd74b597503a68105e61b5b9f6d065b44') + + depends_on('ncurses') + # Emacs also depends on: + # GTK or other widget library + # libtiff, png, etc. + # For now, we assume the system provides all that stuff. + # For Ubuntu 14.04 LTS: + # sudo apt-get install libgtk-3-dev libxpm-dev libtiff5-dev libjpeg8-dev libgif-dev libpng12-dev + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/environment-modules/package.py b/var/spack/repos/builtin/packages/environment-modules/package.py new file mode 100644 index 0000000000..45181da41b --- /dev/null +++ b/var/spack/repos/builtin/packages/environment-modules/package.py @@ -0,0 +1,38 @@ +from spack import * + + +class EnvironmentModules(Package): + """The Environment Modules package provides for the dynamic + modification of a user's environment via modulefiles.""" + + homepage = "https://sourceforge.net/p/modules/wiki/Home/" + url = "http://prdownloads.sourceforge.net/modules/modules-3.2.10.tar.gz" + + version('3.2.10', '8b097fdcb90c514d7540bb55a3cb90fb') + + # Dependencies: + depends_on('tcl') + + def install(self, spec, prefix): + tcl_spec = spec['tcl'] + + # See: https://sourceforge.net/p/modules/bugs/62/ + CPPFLAGS = ['-DUSE_INTERP_ERRORLINE'] + config_args = [ + "--without-tclx", + "--with-tclx-ver=0.0", + "--prefix=%s" % prefix, + "--with-tcl=%s" % join_path(tcl_spec.prefix, 'lib'), # It looks for tclConfig.sh + "--with-tcl-ver=%d.%d" % (tcl_spec.version.version[0], tcl_spec.version.version[1]), + '--disable-debug', + '--disable-dependency-tracking', + '--disable-silent-rules', + '--disable-versioning', + '--datarootdir=%s' % prefix.share, + 'CPPFLAGS=%s' % ' '.join(CPPFLAGS) + ] + + + configure(*config_args) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/espresso/package.py b/var/spack/repos/builtin/packages/espresso/package.py new file mode 100644 index 0000000000..0dad57a9f6 --- /dev/null +++ b/var/spack/repos/builtin/packages/espresso/package.py @@ -0,0 +1,72 @@ +from spack import * + +import os + +class Espresso(Package): + """ + QE is an integrated suite of Open-Source computer codes for electronic-structure calculations and materials + modeling at the nanoscale. It is based on density-functional theory, plane waves, and pseudopotentials. + """ + homepage = 'http://quantum-espresso.org' + url = 'http://www.qe-forge.org/gf/download/frsrelease/204/912/espresso-5.3.0.tar.gz' + + version('5.3.0', '6848fcfaeb118587d6be36bd10b7f2c3') + + variant('mpi', default=True, description='Build Quantum-ESPRESSO with mpi support') + variant('openmp', default=False, description='Enables openMP support') + variant('scalapack', default=True, description='Enables scalapack support') + variant('elpa', default=True, description='Use elpa as an eigenvalue solver') + + depends_on('blas') + depends_on('lapack') + + depends_on('mpi', when='+mpi') + depends_on('fftw~mpi', when='~mpi') + depends_on('fftw+mpi', when='+mpi') + depends_on('scalapack', when='+scalapack+mpi') # TODO : + mpi needed to avoid false dependencies installation + + def check_variants(self, spec): + error = 'you cannot ask for \'+{variant}\' when \'+mpi\' is not active' + if '+scalapack' in spec and '~mpi' in spec: + raise RuntimeError(error.format(variant='scalapack')) + if '+elpa' in spec and ('~mpi' in spec or '~scalapack' in spec): + raise RuntimeError(error.format(variant='elpa')) + + def install(self, spec, prefix): + from glob import glob + self.check_variants(spec) + + options = ['-prefix=%s' % prefix.bin] + + if '+mpi' in spec: + options.append('--enable-parallel') + + if '+openmp' in spec: + options.append('--enable-openmp') + + if '+scalapack' in spec: + options.append('--with-scalapack=yes') + + if '+elpa' in spec: + options.append('--with-elpa=yes') + + # Add a list of directories to search + search_list = [] + for name, dependency_spec in spec.dependencies.iteritems(): + search_list.extend([dependency_spec.prefix.lib, + dependency_spec.prefix.lib64]) + + search_list = " ".join(search_list) + options.append('LIBDIRS=%s' % search_list) + options.append('F90=%s' % os.environ['FC']) + + configure(*options) + make('all') + + if spec.architecture.startswith('darwin'): + mkdirp(prefix.bin) + for filename in glob("bin/*.x"): + install(filename, prefix.bin) + else: + make('install') + diff --git a/var/spack/repos/builtin/packages/exodusii/exodus-cmake.patch b/var/spack/repos/builtin/packages/exodusii/exodus-cmake.patch new file mode 100644 index 0000000000..25355269ca --- /dev/null +++ b/var/spack/repos/builtin/packages/exodusii/exodus-cmake.patch @@ -0,0 +1,12 @@ +diff --git a/cmake-exodus b/cmake-exodus +index 787fd9d..ed073a2 100755 +--- a/cmake-exodus ++++ b/cmake-exodus +@@ -1,4 +1,6 @@ +-EXTRA_ARGS=$@ ++#!/bin/bash ++ ++EXTRA_ARGS=-DSEACASProj_ENABLE_CXX11=OFF + + ### Change this to point to the compilers you want to use + CC=gcc diff --git a/var/spack/repos/builtin/packages/exodusii/package.py b/var/spack/repos/builtin/packages/exodusii/package.py new file mode 100644 index 0000000000..af258b7e6e --- /dev/null +++ b/var/spack/repos/builtin/packages/exodusii/package.py @@ -0,0 +1,49 @@ +from spack import * + +# TODO: Add support for a C++11 enabled installation that filters out the +# TODO: "C++11-Disabled" flag (but only if the spec compiler supports C++11). + +# TODO: Add support for parallel installation that uses MPI. + +# TODO: Create installation options for NetCDF that support larger page size +# TODO: suggested by Exodus (see the repository "README" file). + +class Exodusii(Package): + """Exodus II is a C++/Fortran library developed to store and retrieve data for + finite element analyses. It's used for preprocessing (problem definition), + postprocessing (results visualization), and data transfer between codes. + An Exodus II data file is a random access, machine independent, binary + file that is written and read via C, C++, or Fortran API routines.""" + + homepage = "https://github.com/gsjaardema/seacas" + url = "https://github.com/gsjaardema/seacas/archive/master.zip" + + version('2016-02-08', git='https://github.com/gsjaardema/seacas.git', commit='dcf3529') + + # TODO: Make this a build dependency once build dependencies are supported + # (see: https://github.com/LLNL/spack/pull/378). + depends_on('cmake@2.8.7:') + depends_on('hdf5~shared~mpi') + depends_on('netcdf~mpi') + + patch('exodus-cmake.patch') + + def patch(self): + ff = FileFilter('cmake-exodus') + + ff.filter('CMAKE_INSTALL_PREFIX:PATH=${ACCESS}', + 'CMAKE_INSTALL_PREFIX:PATH=%s' % self.spec.prefix, string=True) + ff.filter('NetCDF_DIR:PATH=${TPL}', + 'NetCDF_DIR:PATH=%s' % self.spec['netcdf'].prefix, string=True) + ff.filter('HDF5_ROOT:PATH=${TPL}', + 'HDF5_ROOT:PATH=%s' % self.spec['hdf5'].prefix, string=True) + + def install(self, spec, prefix): + mkdirp('build') + cd('build') + + cmake_exodus = Executable('../cmake-exodus') + cmake_exodus() + + make() + make('install') diff --git a/var/spack/repos/builtin/packages/expat/package.py b/var/spack/repos/builtin/packages/expat/package.py new file mode 100644 index 0000000000..3f925c6546 --- /dev/null +++ b/var/spack/repos/builtin/packages/expat/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Expat(Package): + """<eXpat/> is an XML parser library written in C""" + homepage = "http://expat.sourceforge.net/" + url = "http://downloads.sourceforge.net/project/expat/expat/2.1.0/expat-2.1.0.tar.gz" + + version('2.1.0', 'dd7dab7a5fea97d2a6a43f511449b7cd') + + depends_on('cmake') + + def install(self, spec, prefix): + + with working_dir('spack-build', create=True): + cmake('..', *std_cmake_args) + make() + make('install') + diff --git a/var/spack/packages/extrae/package.py b/var/spack/repos/builtin/packages/extrae/package.py index 3ad4cbaf86..3ad4cbaf86 100644 --- a/var/spack/packages/extrae/package.py +++ b/var/spack/repos/builtin/packages/extrae/package.py diff --git a/var/spack/packages/exuberant-ctags/package.py b/var/spack/repos/builtin/packages/exuberant-ctags/package.py index efd2b541b2..efd2b541b2 100644 --- a/var/spack/packages/exuberant-ctags/package.py +++ b/var/spack/repos/builtin/packages/exuberant-ctags/package.py diff --git a/var/spack/repos/builtin/packages/fftw/package.py b/var/spack/repos/builtin/packages/fftw/package.py new file mode 100644 index 0000000000..bc129aaf1a --- /dev/null +++ b/var/spack/repos/builtin/packages/fftw/package.py @@ -0,0 +1,77 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + + +from spack import * + + +class Fftw(Package): + """ + FFTW is a C subroutine library for computing the discrete Fourier transform (DFT) in one or more dimensions, of + arbitrary input size, and of both real and complex data (as well as of even/odd data, i.e. the discrete cosine/sine + transforms or DCT/DST). We believe that FFTW, which is free software, should become the FFT library of choice for + most applications. + """ + homepage = "http://www.fftw.org" + url = "http://www.fftw.org/fftw-3.3.4.tar.gz" + + version('3.3.4', '2edab8c06b24feeb3b82bbb3ebf3e7b3') + + variant('float', default=True, description='Produces a single precision version of the library') + variant('long_double', default=True, description='Produces a long double precision version of the library') + variant('quad', default=False, description='Produces a quad precision version of the library (works only with GCC and libquadmath)') + + variant('mpi', default=False, description='Activate MPI support') + + depends_on('mpi', when='+mpi') + + # TODO : add support for architecture specific optimizations as soon as targets are supported + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix, + '--enable-shared', + '--enable-threads', + '--enable-openmp'] + if not self.compiler.f77 or not self.compiler.fc: + options.append("--disable-fortran") + if '+mpi' in spec: + options.append('--enable-mpi') + + configure(*options) + make() + make("install") + + if '+float' in spec: + configure('--enable-float', *options) + make() + make("install") + if '+long_double' in spec: + configure('--enable-long-double', *options) + make() + make("install") + if '+quad' in spec: + configure('--enable-quad-precision', *options) + make() + make("install") diff --git a/var/spack/packages/fish/package.py b/var/spack/repos/builtin/packages/fish/package.py index 1225558705..b5a4a2d209 100644 --- a/var/spack/packages/fish/package.py +++ b/var/spack/repos/builtin/packages/fish/package.py @@ -7,7 +7,8 @@ class Fish(Package): homepage = "http://fishshell.com/" url = "http://fishshell.com/files/2.2.0/fish-2.2.0.tar.gz" - list_url = homepage + list_url = "http://fishshell.com/files/" + list_depth = 2 version('2.2.0', 'a76339fd14ce2ec229283c53e805faac48c3e99d9e3ede9d82c0554acfc7b77a') diff --git a/var/spack/packages/flex/package.py b/var/spack/repos/builtin/packages/flex/package.py index b065904912..b065904912 100644 --- a/var/spack/packages/flex/package.py +++ b/var/spack/repos/builtin/packages/flex/package.py diff --git a/var/spack/repos/builtin/packages/fltk/font.patch b/var/spack/repos/builtin/packages/fltk/font.patch new file mode 100644 index 0000000000..7706a1b4ee --- /dev/null +++ b/var/spack/repos/builtin/packages/fltk/font.patch @@ -0,0 +1,44 @@ +Index: FL/x.H +=================================================================== +--- a/FL/x.H (revision 10476) ++++ b/FL/x.H (working copy) +@@ -132,6 +132,7 @@ + XFontStruct *ptr; + }; + extern FL_EXPORT Fl_XFont_On_Demand fl_xfont; ++extern FL_EXPORT XFontStruct* fl_core_font(); + + // this object contains all X-specific stuff about a window: + // Warning: this object is highly subject to change! +Index: src/fl_font.cxx +=================================================================== +--- a/src/fl_font.cxx (revision 10476) ++++ b/src/fl_font.cxx (working copy) +@@ -55,6 +55,14 @@ + # include "fl_font_x.cxx" + #endif // WIN32 + ++#ifdef WIN32 ++#elif defined(__APPLE__) ++#else ++XFontStruct *fl_core_font() ++{ ++ return fl_xfont.value(); ++} ++#endif + + double fl_width(const char* c) { + if (c) return fl_width(c, (int) strlen(c)); +Index: src/gl_draw.cxx +=================================================================== +--- a/src/gl_draw.cxx (revision 10476) ++++ b/src/gl_draw.cxx (working copy) +@@ -84,7 +84,7 @@ + * then sorting through them at draw time (for normal X rendering) to find which one can + * render the current glyph... But for now, just use the first font in the list for GL... + */ +- XFontStruct *font = fl_xfont; ++ XFontStruct *font = fl_core_font(); + int base = font->min_char_or_byte2; + int count = font->max_char_or_byte2-base+1; + fl_fontsize->listbase = glGenLists(256); diff --git a/var/spack/repos/builtin/packages/fltk/package.py b/var/spack/repos/builtin/packages/fltk/package.py new file mode 100644 index 0000000000..0b462f83f8 --- /dev/null +++ b/var/spack/repos/builtin/packages/fltk/package.py @@ -0,0 +1,58 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + + +class Fltk(Package): + """ + FLTK (pronounced "fulltick") is a cross-platform C++ GUI toolkit for UNIX/Linux (X11), Microsoft Windows, and + MacOS X. FLTK provides modern GUI functionality without the bloat and supports 3D graphics via OpenGL and its + built-in GLUT emulation. + + FLTK is designed to be small and modular enough to be statically linked, but works fine as a shared library. FLTK + also includes an excellent UI builder called FLUID that can be used to create applications in minutes. + """ + homepage = 'http://www.fltk.org/' + url = 'http://fltk.org/pub/fltk/1.3.3/fltk-1.3.3-source.tar.gz' + + version('1.3.3', '9ccdb0d19dc104b87179bd9fd10822e3') + + patch('font.patch', when='@1.3.3') + + variant('shared', default=True, description='Enables the build of shared libraries') + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix, + '--enable-localjpeg', + '--enable-localpng', + '--enable-localzlib'] + + if '+shared' in spec: + options.append('--enable-shared') + + # FLTK needs to be built in-source + configure(*options) + make() + make('install') diff --git a/var/spack/packages/flux/package.py b/var/spack/repos/builtin/packages/flux/package.py index c128f46be8..dc4e0594c5 100644 --- a/var/spack/packages/flux/package.py +++ b/var/spack/repos/builtin/packages/flux/package.py @@ -12,20 +12,23 @@ class Flux(Package): # Also needs autotools, but should use the system version if available depends_on("zeromq@4.0.4:") depends_on("czmq@2.2:") + depends_on("hwloc") depends_on("lua@5.1:5.1.99") depends_on("munge") depends_on("libjson-c") depends_on("libxslt") + depends_on("python") + depends_on("py-cffi") + # TODO: This provides a catalog, hacked with environment below for now depends_on("docbook-xml") depends_on("asciidoc") - depends_on("python") - depends_on("py-cffi") def install(self, spec, prefix): # Bootstrap with autotools bash = which('bash') bash('./autogen.sh') + bash('./autogen.sh') #yes, twice, intentionally # Fix asciidoc dependency on xml style sheets and whatnot os.environ['XML_CATALOG_FILES'] = os.path.join(spec['docbook-xml'].prefix, diff --git a/var/spack/packages/fontconfig/package.py b/var/spack/repos/builtin/packages/fontconfig/package.py index 89b13604e8..517c9d1813 100644 --- a/var/spack/packages/fontconfig/package.py +++ b/var/spack/repos/builtin/packages/fontconfig/package.py @@ -8,9 +8,10 @@ class Fontconfig(Package): version('2.11.1' , 'e75e303b4f7756c2b16203a57ac87eba') depends_on('freetype') + depends_on('libxml2') def install(self, spec, prefix): - configure("--prefix=%s" % prefix) + configure("--prefix=%s" % prefix, "--enable-libxml2") make() make("install") diff --git a/var/spack/packages/freetype/package.py b/var/spack/repos/builtin/packages/freetype/package.py index 0309b858a1..0309b858a1 100644 --- a/var/spack/packages/freetype/package.py +++ b/var/spack/repos/builtin/packages/freetype/package.py diff --git a/var/spack/packages/gasnet/package.py b/var/spack/repos/builtin/packages/gasnet/package.py index 705961d1de..705961d1de 100644 --- a/var/spack/packages/gasnet/package.py +++ b/var/spack/repos/builtin/packages/gasnet/package.py diff --git a/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch1 b/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch1 new file mode 100644 index 0000000000..444e292786 --- /dev/null +++ b/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch1 @@ -0,0 +1,42 @@ +diff --git a/gcc/configure b/gcc/configure +index 9523773..52b0bf7 100755 +--- a/gcc/configure ++++ b/gcc/configure +@@ -24884,7 +24884,7 @@ if test "${gcc_cv_as_ix86_filds+set}" = set; then : + else + gcc_cv_as_ix86_filds=no + if test x$gcc_cv_as != x; then +- $as_echo 'filds mem; fists mem' > conftest.s ++ $as_echo 'filds (%ebp); fists (%ebp)' > conftest.s + if { ac_try='$gcc_cv_as $gcc_cv_as_flags -o conftest.o conftest.s >&5' + { { eval echo "\"\$as_me\":${as_lineno-$LINENO}: \"$ac_try\""; } >&5 + (eval $ac_try) 2>&5 +@@ -24915,7 +24915,7 @@ if test "${gcc_cv_as_ix86_fildq+set}" = set; then : + else + gcc_cv_as_ix86_fildq=no + if test x$gcc_cv_as != x; then +- $as_echo 'fildq mem; fistpq mem' > conftest.s ++ $as_echo 'fildq (%ebp); fistpq (%ebp)' > conftest.s + if { ac_try='$gcc_cv_as $gcc_cv_as_flags -o conftest.o conftest.s >&5' + { { eval echo "\"\$as_me\":${as_lineno-$LINENO}: \"$ac_try\""; } >&5 + (eval $ac_try) 2>&5 +diff --git a/gcc/configure.ac b/gcc/configure.ac +index 68b0ee8..bd53978 100644 +--- a/gcc/configure.ac ++++ b/gcc/configure.ac +@@ -3869,13 +3869,13 @@ foo: nop + + gcc_GAS_CHECK_FEATURE([filds and fists mnemonics], + gcc_cv_as_ix86_filds,,, +- [filds mem; fists mem],, ++ [filds (%ebp); fists (%ebp)],, + [AC_DEFINE(HAVE_AS_IX86_FILDS, 1, + [Define if your assembler uses filds and fists mnemonics.])]) + + gcc_GAS_CHECK_FEATURE([fildq and fistpq mnemonics], + gcc_cv_as_ix86_fildq,,, +- [fildq mem; fistpq mem],, ++ [fildq (%ebp); fistpq (%ebp)],, + [AC_DEFINE(HAVE_AS_IX86_FILDQ, 1, + [Define if your assembler uses fildq and fistq mnemonics.])]) + diff --git a/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch2 b/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch2 new file mode 100644 index 0000000000..b065997f45 --- /dev/null +++ b/var/spack/repos/builtin/packages/gcc/darwin/gcc-4.9.patch2 @@ -0,0 +1,28 @@ +From 82f81877458ea372176eabb5de36329431dce99b Mon Sep 17 00:00:00 2001 +From: Iain Sandoe <iain@codesourcery.com> +Date: Sat, 21 Dec 2013 00:30:18 +0000 +Subject: [PATCH] don't try to mark local symbols as no-dead-strip + +--- + gcc/config/darwin.c | 5 +++++ + 1 file changed, 5 insertions(+) + +diff --git a/gcc/config/darwin.c b/gcc/config/darwin.c +index 40804b8..0080299 100644 +--- a/gcc/config/darwin.c ++++ b/gcc/config/darwin.c +@@ -1259,6 +1259,11 @@ darwin_encode_section_info (tree decl, rtx rtl, int first ATTRIBUTE_UNUSED) + void + darwin_mark_decl_preserved (const char *name) + { ++ /* Actually we shouldn't mark any local symbol this way, but for now ++ this only happens with ObjC meta-data. */ ++ if (darwin_label_is_anonymous_local_objc_name (name)) ++ return; ++ + fprintf (asm_out_file, "\t.no_dead_strip "); + assemble_name (asm_out_file, name); + fputc ('\n', asm_out_file); +-- +2.2.1 + diff --git a/var/spack/packages/gcc/package.py b/var/spack/repos/builtin/packages/gcc/package.py index a49a1348aa..6043b62279 100644 --- a/var/spack/packages/gcc/package.py +++ b/var/spack/repos/builtin/packages/gcc/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -26,6 +26,8 @@ from spack import * from contextlib import closing from glob import glob +import sys +import os class Gcc(Package): """The GNU Compiler Collection includes front ends for C, C++, @@ -36,8 +38,7 @@ class Gcc(Package): list_url = 'http://open-source-box.org/gcc/' list_depth = 2 - DEPENDS_ON_ISL_PREDICATE = '@5.0:' - + version('5.3.0', 'c9616fd448f980259c31de613e575719') version('5.2.0', 'a51bcfeb3da7dd4c623e27207ed43467') version('4.9.3', '6f831b4d251872736e8e9cc09746f327') version('4.9.2', '4df8ee253b7f3863ad0b86359cd39c43') @@ -47,23 +48,34 @@ class Gcc(Package): version('4.7.4', '4c696da46297de6ae77a82797d2abe28') version('4.6.4', 'b407a3d1480c11667f293bfb1f17d1a4') version('4.5.4', '27e459c2566b8209ab064570e1b378f7') - + + variant('binutils', default=sys.platform != 'darwin', + description="Build via binutils") + variant('gold', default=sys.platform != 'darwin', + description="Build the gold linker plugin for ld-based LTO") + depends_on("mpfr") depends_on("gmp") - depends_on("mpc") # when @4.5: - depends_on("binutils~libiberty") + depends_on("mpc", when='@4.5:') + depends_on("isl", when='@5.0:') + depends_on("binutils~libiberty", when='+binutils ~gold') + depends_on("binutils~libiberty+gold", when='+binutils +gold') - # Save these until we can do optional deps. - depends_on("isl", when=DEPENDS_ON_ISL_PREDICATE) + # TODO: integrate these libraries. #depends_on("ppl") #depends_on("cloog") + if sys.platform == 'darwin': + patch('darwin/gcc-4.9.patch1', when='@4.9.3') + patch('darwin/gcc-4.9.patch2', when='@4.9.3') def install(self, spec, prefix): # libjava/configure needs a minor fix to install into spack paths. - filter_file(r"'@.*@'", "'@[[:alnum:]]*@'", 'libjava/configure', string=True) + filter_file(r"'@.*@'", "'@[[:alnum:]]*@'", 'libjava/configure', + string=True) enabled_languages = set(('c', 'c++', 'fortran', 'java', 'objc')) - if spec.satisfies("@4.7.1:"): + + if spec.satisfies("@4.7.1:") and sys.platform != 'darwin': enabled_languages.add('go') # Generic options to compile GCC @@ -71,28 +83,41 @@ class Gcc(Package): "--libdir=%s/lib64" % prefix, "--disable-multilib", "--enable-languages=" + ','.join(enabled_languages), - "--with-mpc=%s" % spec['mpc'].prefix, - "--with-mpfr=%s" % spec['mpfr'].prefix, - "--with-gmp=%s" % spec['gmp'].prefix, + "--with-mpc=%s" % spec['mpc'].prefix, + "--with-mpfr=%s" % spec['mpfr'].prefix, + "--with-gmp=%s" % spec['gmp'].prefix, "--enable-lto", - "--with-gnu-ld", - "--with-gnu-as", "--with-quad"] # Binutils - binutils_options = ["--with-stage1-ldflags=%s" % self.rpath_args, - "--with-boot-ldflags=%s" % self.rpath_args, - "--with-ld=%s/bin/ld" % spec['binutils'].prefix, - "--with-as=%s/bin/as" % spec['binutils'].prefix] - options.extend(binutils_options) + if spec.satisfies('+binutils'): + static_bootstrap_flags = "-static-libstdc++ -static-libgcc" + binutils_options = ["--with-sysroot=/", + "--with-stage1-ldflags=%s %s" % + (self.rpath_args, static_bootstrap_flags), + "--with-boot-ldflags=%s %s" % + (self.rpath_args, static_bootstrap_flags), + "--with-gnu-ld", + "--with-ld=%s/bin/ld" % spec['binutils'].prefix, + "--with-gnu-as", + "--with-as=%s/bin/as" % spec['binutils'].prefix] + options.extend(binutils_options) # Isl - if spec.satisfies(Gcc.DEPENDS_ON_ISL_PREDICATE): + if 'isl' in spec: isl_options = ["--with-isl=%s" % spec['isl'].prefix] options.extend(isl_options) - # Rest of install is straightforward. - configure(*options) - make() - make("install") + if sys.platform == 'darwin' : + darwin_options = [ "--with-build-config=bootstrap-debug" ] + options.extend(darwin_options) + + build_dir = join_path(self.stage.path, 'spack-build') + configure = Executable( join_path(self.stage.source_path, 'configure') ) + with working_dir(build_dir, create=True): + # Rest of install is straightforward. + configure(*options) + if sys.platform == 'darwin' : make("bootstrap") + else: make() + make("install") self.write_rpath_specs() @@ -108,15 +133,17 @@ class Gcc(Package): """Generate a spec file so the linker adds a rpath to the libs the compiler used to build the executable.""" if not self.spec_dir: - tty.warn("Could not install specs for %s." % self.spec.format('$_$@')) + tty.warn("Could not install specs for %s." % + self.spec.format('$_$@')) return gcc = Executable(join_path(self.prefix.bin, 'gcc')) - lines = gcc('-dumpspecs', return_output=True).strip().split("\n") + lines = gcc('-dumpspecs', output=str).strip().split("\n") specs_file = join_path(self.spec_dir, 'specs') with closing(open(specs_file, 'w')) as out: for line in lines: out.write(line + "\n") if line.startswith("*link:"): - out.write("-rpath %s/lib:%s/lib64 \\\n"% (self.prefix, self.prefix)) + out.write("-rpath %s/lib:%s/lib64 \\\n" % + (self.prefix, self.prefix)) set_install_permissions(specs_file) diff --git a/var/spack/repos/builtin/packages/gdal/package.py b/var/spack/repos/builtin/packages/gdal/package.py new file mode 100644 index 0000000000..4f1f1ec2dd --- /dev/null +++ b/var/spack/repos/builtin/packages/gdal/package.py @@ -0,0 +1,69 @@ +from spack import * + +class Gdal(Package): + """ + GDAL is a translator library for raster and vector geospatial + data formats that is released under an X/MIT style Open Source + license by the Open Source Geospatial Foundation. As a library, + it presents a single raster abstract data model and vector + abstract data model to the calling application for all supported + formats. It also comes with a variety of useful command line + utilities for data translation and processing + """ + + homepage = "http://www.gdal.org/" + url = "http://download.osgeo.org/gdal/2.0.2/gdal-2.0.2.tar.gz" + list_url = "http://download.osgeo.org/gdal/" + list_depth = 2 + + version('2.0.2', '573865f3f59ba7b4f8f4cddf223b52a5') + + extends('python') + + variant('hdf5', default=False, description='Enable HDF5 support') + variant('hdf', default=False, description='Enable HDF4 support') + variant('openjpeg', default=False, description='Enable JPEG2000 support') + variant('geos', default=False, description='Enable GEOS support') + variant('kea', default=False, description='Enable KEA support') + variant('netcdf', default=False, description='Enable netcdf support') + + depends_on('swig') + depends_on("hdf5", when='+hdf5') + depends_on("hdf", when='+hdf') + depends_on("openjpeg", when='+openjpeg') + depends_on("geos", when='+geos') + depends_on("kealib", when='+kea') + depends_on("netcdf", when='+netcdf') + depends_on("libtiff") + depends_on("libpng") + depends_on("zlib") + depends_on("proj") + depends_on("py-numpy") + + parallel = False + + def install(self, spec, prefix): + args = [] + args.append("--prefix=%s" % prefix) + args.append("--with-liblzma=yes") + args.append("--with-zlib=%s" % spec['zlib'].prefix) + args.append("--with-python=%s" % spec['python'].prefix.bin + "/python") + args.append("--without-libtool") + + if '+geos' in spec: + args.append('--with-geos=yes') + if '+hdf' in spec: + args.append('--with-hdf4=%s' % spec['hdf'].prefix) + if '+hdf5' in spec: + args.append('--with-hdf5=%s' % spec['hdf5'].prefix) + if '+openjpeg' in spec: + args.append('--with-openjpeg=%s' % spec['openjpeg'].prefix) + if '+kea' in spec: + args.append('--with-kea=yes') + if '+netcdf' in spec: + args.append('--with-netcdf=%s' % spec['netcdf'].prefix) + + configure(*args) + + make() + make("install") diff --git a/var/spack/repos/builtin/packages/gdb/package.py b/var/spack/repos/builtin/packages/gdb/package.py new file mode 100644 index 0000000000..b346fe80c2 --- /dev/null +++ b/var/spack/repos/builtin/packages/gdb/package.py @@ -0,0 +1,48 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://software.llnl.gov/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Gdb(Package): + """ + GDB, the GNU Project debugger, allows you to see what is going on `inside' another program while it executes + -- or what another program was doing at the moment it crashed. + """ + homepage = "https://www.gnu.org/software/gdb" + url = "http://ftp.gnu.org/gnu/gdb/gdb-7.10.tar.gz" + + version('7.10.1', 'b93a2721393e5fa226375b42d567d90b') + version('7.10', 'fa6827ad0fd2be1daa418abb11a54d86') + version('7.9.1', 'f3b97de919a9dba84490b2e076ec4cb0') + version('7.9', '8f8ced422fe462a00e0135a643544f17') + version('7.8.2', '8b0ea8b3559d3d90b3ff4952f0aeafbc') + + depends_on('texinfo') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/gdk-pixbuf/package.py b/var/spack/repos/builtin/packages/gdk-pixbuf/package.py index 14a5569984..14a5569984 100644 --- a/var/spack/packages/gdk-pixbuf/package.py +++ b/var/spack/repos/builtin/packages/gdk-pixbuf/package.py diff --git a/var/spack/packages/geos/package.py b/var/spack/repos/builtin/packages/geos/package.py index 4a2657e32f..030703f286 100644 --- a/var/spack/packages/geos/package.py +++ b/var/spack/repos/builtin/packages/geos/package.py @@ -1,4 +1,5 @@ from spack import * +import os class Geos(Package): """GEOS (Geometry Engine - Open Source) is a C++ port of the Java @@ -10,6 +11,10 @@ class Geos(Package): homepage = "http://trac.osgeo.org/geos/" url = "http://download.osgeo.org/geos/geos-3.4.2.tar.bz2" + # Verison 3.5.0 supports Autotools and CMake + version('3.5.0', '136842690be7f504fba46b3c539438dd') + + # Versions through 3.4.2 have CMake, but only Autotools is supported version('3.4.2', 'fc5df2d926eb7e67f988a43a92683bae') version('3.4.1', '4c930dec44c45c49cd71f3e0931ded7e') version('3.4.0', 'e41318fc76b5dc764a69d43ac6b18488') @@ -21,11 +26,22 @@ class Geos(Package): version('3.3.4', '1bb9f14d57ef06ffa41cb1d67acb55a1') version('3.3.3', '8454e653d7ecca475153cc88fd1daa26') - extends('python') - depends_on('swig') +# # Python3 is not supported. +# variant('python', default=False, description='Enable Python support') + +# extends('python', when='+python') +# depends_on('python', when='+python') +# depends_on('swig', when='+python') def install(self, spec, prefix): - configure("--prefix=%s" % prefix, - "--enable-python") + args = ["--prefix=%s" % prefix] +# if '+python' in spec: +# os.environ['PYTHON'] = join_path(spec['python'].prefix, 'bin', +# 'python' if spec['python'].version[:1][0] <= 2 else 'python3') +# os.environ['SWIG'] = join_path(spec['swig'].prefix, 'bin', 'swig') +# +# args.append("--enable-python") + + configure(*args) make() make("install") diff --git a/var/spack/repos/builtin/packages/gettext/package.py b/var/spack/repos/builtin/packages/gettext/package.py new file mode 100644 index 0000000000..05712d7392 --- /dev/null +++ b/var/spack/repos/builtin/packages/gettext/package.py @@ -0,0 +1,30 @@ +from spack import * + +class Gettext(Package): + """GNU internationalization (i18n) and localization (l10n) library.""" + homepage = "https://www.gnu.org/software/gettext/" + url = "http://ftpmirror.gnu.org/gettext/gettext-0.19.7.tar.xz" + + version('0.19.7', 'f81e50556da41b44c1d59ac93474dca5') + + def install(self, spec, prefix): + options = ['--disable-dependency-tracking', + '--disable-silent-rules', + '--disable-debug', + '--prefix=%s' % prefix, + '--with-included-gettext', + '--with-included-glib', + '--with-included-libcroco', + '--with-included-libunistring', + '--with-emacs', + '--with-lispdir=%s/emacs/site-lisp/gettext' % prefix.share, + '--disable-java', + '--disable-csharp', + '--without-git', # Don't use VCS systems to create these archives + '--without-cvs', + '--without-xz'] + + configure(*options) + + make() + make("install") diff --git a/var/spack/packages/gflags/package.py b/var/spack/repos/builtin/packages/gflags/package.py index 62dd80a094..62dd80a094 100644 --- a/var/spack/packages/gflags/package.py +++ b/var/spack/repos/builtin/packages/gflags/package.py diff --git a/var/spack/packages/ghostscript/package.py b/var/spack/repos/builtin/packages/ghostscript/package.py index 0ab49d425f..0ab49d425f 100644 --- a/var/spack/packages/ghostscript/package.py +++ b/var/spack/repos/builtin/packages/ghostscript/package.py diff --git a/var/spack/repos/builtin/packages/git/package.py b/var/spack/repos/builtin/packages/git/package.py new file mode 100644 index 0000000000..388f84aefd --- /dev/null +++ b/var/spack/repos/builtin/packages/git/package.py @@ -0,0 +1,71 @@ +from spack import * + +class Git(Package): + """Git is a free and open source distributed version control + system designed to handle everything from small to very large + projects with speed and efficiency.""" + homepage = "http://git-scm.com" + url = "https://github.com/git/git/tarball/v2.7.1" + + version('2.8.0-rc2', 'c2cf9f2cc70e35f2fafbaf9258f82e4c') + version('2.7.3', 'fa1c008b56618c355a32ba4a678305f6') + version('2.7.1', 'bf0706b433a8dedd27a63a72f9a66060') + + + # See here for info on vulnerable Git versions: + # http://www.theregister.co.uk/2016/03/16/git_server_client_patch_now/ + # All the following are vulnerable + #version('2.6.3', 'b711be7628a4a2c25f38d859ee81b423') + #version('2.6.2', 'da293290da69f45a86a311ad3cd43dc8') + #version('2.6.1', '4c62ee9c5991fe93d99cf2a6b68397fd') + #version('2.6.0', 'eb76a07148d94802a1745d759716a57e') + #version('2.5.4', '3eca2390cf1fa698b48e2a233563a76b') + #version('2.2.1', 'ff41fdb094eed1ec430aed8ee9b9849c') + + + # Git compiles with curl support by default on but if your system + # does not have it you will not be able to clone https repos + variant("curl", default=False, description="Add the internal support of curl for https clone") + + # Git compiles with expat support by default on but if your system + # does not have it you will not be able to push https repos + variant("expat", default=False, description="Add the internal support of expat for https push") + + depends_on("openssl") + depends_on("autoconf") + depends_on("curl", when="+curl") + depends_on("expat", when="+expat") + + # Also depends_on gettext: apt-get install gettext (Ubuntu) + + # Use system perl for now. + # depends_on("perl") + # depends_on("pcre") + + depends_on("zlib") + + def install(self, spec, prefix): + configure_args = [ + "--prefix=%s" % prefix, + "--without-pcre", + "--with-openssl=%s" % spec['openssl'].prefix, + "--with-zlib=%s" % spec['zlib'].prefix + ] + + if '+curl' in spec: + configure_args.append("--with-curl=%s" % spec['curl'].prefix) + + if '+expat' in spec: + configure_args.append("--with-expat=%s" % spec['expat'].prefix) + + which('autoreconf')('-i') + configure(*configure_args) + make() + make("install") + + + + + + + diff --git a/var/spack/repos/builtin/packages/gl2ps/package.py b/var/spack/repos/builtin/packages/gl2ps/package.py new file mode 100644 index 0000000000..cb376b3f03 --- /dev/null +++ b/var/spack/repos/builtin/packages/gl2ps/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Gl2ps(Package): + """GL2PS is a C library providing high quality vector output for any + OpenGL application.""" + + homepage = "http://www.geuz.org/gl2ps/" + url = "http://geuz.org/gl2ps/src/gl2ps-1.3.9.tgz" + + version('1.3.9', '377b2bcad62d528e7096e76358f41140') + + depends_on("libpng") + + def install(self, spec, prefix): + cmake('.', *std_cmake_args) + + make() + make("install") diff --git a/var/spack/packages/glib/package.py b/var/spack/repos/builtin/packages/glib/package.py index 178f0b9df5..67ead5f941 100644 --- a/var/spack/packages/glib/package.py +++ b/var/spack/repos/builtin/packages/glib/package.py @@ -11,8 +11,9 @@ class Glib(Package): version('2.42.1', '89c4119e50e767d3532158605ee9121a') depends_on("libffi") + depends_on("zlib") def install(self, spec, prefix): configure("--prefix=%s" % prefix) make() - make("install") + make("install", parallel=False) diff --git a/var/spack/packages/glm/package.py b/var/spack/repos/builtin/packages/glm/package.py index d00c301b4c..d00c301b4c 100644 --- a/var/spack/packages/glm/package.py +++ b/var/spack/repos/builtin/packages/glm/package.py diff --git a/var/spack/packages/global/package.py b/var/spack/repos/builtin/packages/global/package.py index a77b1bdc09..aac1cede30 100644 --- a/var/spack/packages/global/package.py +++ b/var/spack/repos/builtin/packages/global/package.py @@ -4,18 +4,19 @@ import os class Global(Package): """ The Gnu Global tagging system """ - # FIXME: add a proper url for your package's homepage here. + homepage = "http://www.gnu.org/software/global" url = "http://tamacom.com/global/global-6.5.tar.gz" version('6.5', 'dfec818b4f53d91721e247cf7b218078') depends_on('exuberant-ctags') + depends_on('ncurses') def install(self, spec, prefix): - config_args = ['--prefix={}'.format(prefix)] + config_args = ['--prefix={0}'.format(prefix)] - config_args.append('--with-exuberant-ctags={}'.format( + config_args.append('--with-exuberant-ctags={0}'.format( os.path.join(spec['exuberant-ctags'].prefix.bin, 'ctags'))) configure(*config_args) diff --git a/var/spack/packages/glog/package.py b/var/spack/repos/builtin/packages/glog/package.py index d73386b394..d73386b394 100644 --- a/var/spack/packages/glog/package.py +++ b/var/spack/repos/builtin/packages/glog/package.py diff --git a/var/spack/repos/builtin/packages/glpk/package.py b/var/spack/repos/builtin/packages/glpk/package.py new file mode 100644 index 0000000000..855f459fb3 --- /dev/null +++ b/var/spack/repos/builtin/packages/glpk/package.py @@ -0,0 +1,53 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Glpk(Package): + """ + The GLPK (GNU Linear Programming Kit) package is intended for solving large-scale linear programming (LP), mixed + integer programming (MIP), and other related problems. It is a set of routines written in ANSI C and organized in + the form of a callable library + """ + homepage = "https://www.gnu.org/software/glpk" + url = "http://ftp.gnu.org/gnu/glpk/glpk-4.57.tar.gz" + + version('4.57', '237531a54f73155842f8defe51aedb0f') + + variant('gmp', default=False, description='Activates support for GMP library') + + depends_on('gmp', when='+gmp') + + def install(self, spec, prefix): + + options = ['--prefix=%s' % prefix] + + if '+gmp' in spec: + options.append('--with-gmp') + + configure(*options) + make() + make("install") diff --git a/var/spack/packages/gmp/package.py b/var/spack/repos/builtin/packages/gmp/package.py index d6af821b34..fe13de3b95 100644 --- a/var/spack/packages/gmp/package.py +++ b/var/spack/repos/builtin/packages/gmp/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -31,6 +31,7 @@ class Gmp(Package): homepage = "https://gmplib.org" url = "https://gmplib.org/download/gmp/gmp-6.0.0a.tar.bz2" + version('6.1.0' , '86ee6e54ebfc4a90b643a65e402c4048') version('6.0.0a', 'b7ff2d88cae7f8085bd5006096eed470') version('6.0.0' , '6ef5869ae735db9995619135bd856b84') diff --git a/var/spack/repos/builtin/packages/gmsh/package.py b/var/spack/repos/builtin/packages/gmsh/package.py new file mode 100644 index 0000000000..9d759303cb --- /dev/null +++ b/var/spack/repos/builtin/packages/gmsh/package.py @@ -0,0 +1,84 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * + + +class Gmsh(Package): + """ + Gmsh is a free 3D finite element grid generator with a built-in CAD engine and post-processor. Its design goal is + to provide a fast, light and user-friendly meshing tool with parametric input and advanced visualization + capabilities. Gmsh is built around four modules: geometry, mesh, solver and post-processing. The specification of + any input to these modules is done either interactively using the graphical user interface or in ASCII text files + using Gmsh's own scripting language. + """ + homepage = 'http://gmsh.info' + url = 'http://gmsh.info/src/gmsh-2.11.0-source.tgz' + + version('2.11.0', 'f15b6e7ac9ca649c9a74440e1259d0db') + + # FIXME : Misses dependencies on gmm, PetsC, TetGen + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds the library in debug mode') + variant('mpi', default=False, description='Builds MPI support for parser and solver') + variant('fltk', default=False, description='Enables the build of the FLTK GUI') + variant('hdf5', default=False, description='Enables HDF5 support') + variant('compression', default=True, description='Enables IO compression through zlib') + + depends_on('blas') + depends_on('lapack') + depends_on('gmp') + depends_on('mpi', when='+mpi') + depends_on('fltk', when='+fltk') # Assumes OpenGL with GLU is already provided by the system + depends_on('hdf5', when='+hdf5') + depends_on('zlib', when='+compression') + + def install(self, spec, prefix): + + options = [] + options.extend(std_cmake_args) + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + + if '+shared' in spec: + options.extend(['-DENABLE_BUILD_SHARED:BOOL=ON', + '-DENABLE_BUILD_DYNAMIC:BOOL=ON']) # Builds dynamic executable and installs shared library + else: + options.append('-DENABLE_BUILD_LIB:BOOL=ON') # Builds and installs static library + + if '+debug' in spec: + options.append('-DCMAKE_BUILD_TYPE:STRING=Debug') + + if '+mpi' in spec: + options.append('-DENABLE_MPI:BOOL=ON') + + if '+compression' in spec: + options.append('-DENABLE_COMPRESSED_IO:BOOL=ON') + + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/gnuplot/package.py b/var/spack/repos/builtin/packages/gnuplot/package.py new file mode 100644 index 0000000000..71c09bd43d --- /dev/null +++ b/var/spack/repos/builtin/packages/gnuplot/package.py @@ -0,0 +1,61 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + +import os + +class Gnuplot(Package): + """ + Gnuplot is a portable command-line driven graphing utility for Linux, OS/2, MS Windows, OSX, VMS, and many other + platforms. The source code is copyrighted but freely distributed (i.e., you don't have to pay for it). It was + originally created to allow scientists and students to visualize mathematical functions and data interactively, + but has grown to support many non-interactive uses such as web scripting. It is also used as a plotting engine by + third-party applications like Octave. Gnuplot has been supported and under active development since 1986 + """ + homepage = "http://www.gnuplot.info" + url = "http://downloads.sourceforge.net/project/gnuplot/gnuplot/5.0.1/gnuplot-5.0.1.tar.gz" + + version('5.0.1', '79b4f9e203728f76b60b28bcd402d3c7') + + depends_on('readline') + depends_on('libcerf') + depends_on('libgd') + depends_on('cairo') + depends_on('pango') + depends_on('wx', when='+wx') + + variant('wx', default=False, description='Activates wxWidgets terminal') + + def install(self, spec, prefix): + # It seems there's an open bug for wxWidgets support + # See : http://sourceforge.net/p/gnuplot/bugs/1694/ + os.environ['TERMLIBS'] = '-lX11' + + options = ['--prefix=%s' % prefix] + + configure(*options) + make() + make("install") diff --git a/var/spack/packages/gnutls/package.py b/var/spack/repos/builtin/packages/gnutls/package.py index cf57a24a6d..cf57a24a6d 100644 --- a/var/spack/packages/gnutls/package.py +++ b/var/spack/repos/builtin/packages/gnutls/package.py diff --git a/var/spack/repos/builtin/packages/googletest/package.py b/var/spack/repos/builtin/packages/googletest/package.py new file mode 100644 index 0000000000..663b758747 --- /dev/null +++ b/var/spack/repos/builtin/packages/googletest/package.py @@ -0,0 +1,24 @@ +from spack import * + +class Googletest(Package): + """Google test framework for C++. Also called gtest.""" + homepage = "https://github.com/google/googletest" + url = "https://github.com/google/googletest/tarball/release-1.7.0" + + version('1.7.0', '5eaf03ed925a47b37c8e1d559eb19bc4') + + depends_on("cmake") + + def install(self, spec, prefix): + which('cmake')('.', *std_cmake_args) + + make() + + # Google Test doesn't have a make install + # We have to do our own install here. + install_tree('include', prefix.include) + + mkdirp(prefix.lib) + install('./libgtest.a', '%s' % prefix.lib) + install('./libgtest_main.a', '%s' % prefix.lib) + diff --git a/var/spack/packages/gperf/package.py b/var/spack/repos/builtin/packages/gperf/package.py index 32551b67b4..32551b67b4 100644 --- a/var/spack/packages/gperf/package.py +++ b/var/spack/repos/builtin/packages/gperf/package.py diff --git a/var/spack/packages/gperftools/package.py b/var/spack/repos/builtin/packages/gperftools/package.py index 8900462324..22b2e6c424 100644 --- a/var/spack/packages/gperftools/package.py +++ b/var/spack/repos/builtin/packages/gperftools/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -30,8 +30,11 @@ class Gperftools(Package): homepage = "https://code.google.com/p/gperftools" url = "https://googledrive.com/host/0B6NtGsLhIcf7MWxMMF9JdTN3UVk/gperftools-2.3.tar.gz" + version('2.4', '2171cea3bbe053036fb5d5d25176a160', url="https://github.com/gperftools/gperftools/releases/download/gperftools-2.4/gperftools-2.4.tar.gz") version('2.3', 'f54dd119f0e46ac1f13264f8d97adf90', url="https://googledrive.com/host/0B6NtGsLhIcf7MWxMMF9JdTN3UVk/gperftools-2.3.tar.gz") + depends_on("libunwind") + def install(self, spec, prefix): configure("--prefix=" + prefix) make() diff --git a/var/spack/packages/graphlib/package.py b/var/spack/repos/builtin/packages/graphlib/package.py index ddac0b2b66..ddac0b2b66 100644 --- a/var/spack/packages/graphlib/package.py +++ b/var/spack/repos/builtin/packages/graphlib/package.py diff --git a/var/spack/repos/builtin/packages/graphviz/package.py b/var/spack/repos/builtin/packages/graphviz/package.py new file mode 100644 index 0000000000..ecf92620d4 --- /dev/null +++ b/var/spack/repos/builtin/packages/graphviz/package.py @@ -0,0 +1,29 @@ +from spack import * + +class Graphviz(Package): + """Graph Visualization Software""" + homepage = "http://www.graphviz.org" + url = "http://www.graphviz.org/pub/graphviz/stable/SOURCES/graphviz-2.38.0.tar.gz" + + version('2.38.0', '5b6a829b2ac94efcd5fa3c223ed6d3ae') + + # By default disable optional Perl language support to prevent build issues + # related to missing Perl packages. If spack begins support for Perl in the + # future, this package can be updated to depend_on('perl') and the + # ncecessary devel packages. + variant('perl', default=False, description='Enable if you need the optional Perl language bindings.') + + parallel = False + + depends_on("swig") + depends_on("python") + depends_on("ghostscript") + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix] + if not '+perl' in spec: + options.append('--disable-perl') + + configure(*options) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/gromacs/package.py b/var/spack/repos/builtin/packages/gromacs/package.py new file mode 100644 index 0000000000..5fe8399308 --- /dev/null +++ b/var/spack/repos/builtin/packages/gromacs/package.py @@ -0,0 +1,56 @@ +from spack import * + + +class Gromacs(Package): + """ + GROMACS (GROningen MAchine for Chemical Simulations) is a molecular dynamics package primarily designed for + simulations of proteins, lipids and nucleic acids. It was originally developed in the Biophysical Chemistry + department of University of Groningen, and is now maintained by contributors in universities and research centers + across the world. + + GROMACS is one of the fastest and most popular software packages available and can run on CPUs as well as GPUs. + It is free, open source released under the GNU General Public License. Starting from version 4.6, GROMACS is + released under the GNU Lesser General Public License. + """ + + homepage = 'http://www.gromacs.org' + url = 'ftp://ftp.gromacs.org/pub/gromacs/gromacs-5.1.2.tar.gz' + + version('5.1.2', '614d0be372f1a6f1f36382b7a6fcab98') + + variant('mpi', default=True, description='Activate MPI support') + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Enables debug mode') + variant('double', default=False, description='Produces a double precision version of the executables') + + depends_on('mpi', when='+mpi') + + depends_on('fftw') + + # TODO : add GPU support + + def install(self, spec, prefix): + + options = [] + + if '+mpi' in spec: + options.append('-DGMX_MPI:BOOL=ON') + + if '+double' in spec: + options.append('-DGMX_DOUBLE:BOOL=ON') + + if '~shared' in spec: + options.append('-DBUILD_SHARED_LIBS:BOOL=OFF') + + if '+debug' in spec: + options.append('-DCMAKE_BUILD_TYPE:STRING=Debug') + else: + options.append('-DCMAKE_BUILD_TYPE:STRING=Release') + + options.extend(std_cmake_args) + + with working_dir('spack-build', create=True): + + cmake('..', *options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/gsl/package.py b/var/spack/repos/builtin/packages/gsl/package.py new file mode 100644 index 0000000000..789eb49d85 --- /dev/null +++ b/var/spack/repos/builtin/packages/gsl/package.py @@ -0,0 +1,46 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Gsl(Package): + """ + The GNU Scientific Library (GSL) is a numerical library for C and C++ programmers. It is free software under the + GNU General Public License. The library provides a wide range of mathematical routines such as random number + generators, special functions and least-squares fitting. There are over 1000 functions in total with an extensive + test suite. + """ + homepage = "http://www.gnu.org/software/gsl" + url = "http://mirror.switch.ch/ftp/mirror/gnu/gsl/gsl-2.1.tar.gz" + + version('2.1' , 'd8f70abafd3e9f0bae03c52d1f4e8de5') + version('2.0' , 'ae44cdfed78ece40e73411b63a78c375') + version('1.16', 'e49a664db13d81c968415cd53f62bc8b') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/gtkplus/package.py b/var/spack/repos/builtin/packages/gtkplus/package.py index 0ebc7100de..0ebc7100de 100644 --- a/var/spack/packages/gtkplus/package.py +++ b/var/spack/repos/builtin/packages/gtkplus/package.py diff --git a/var/spack/packages/harfbuzz/package.py b/var/spack/repos/builtin/packages/harfbuzz/package.py index ed7c42a909..ed7c42a909 100644 --- a/var/spack/packages/harfbuzz/package.py +++ b/var/spack/repos/builtin/packages/harfbuzz/package.py diff --git a/var/spack/repos/builtin/packages/hdf/package.py b/var/spack/repos/builtin/packages/hdf/package.py new file mode 100644 index 0000000000..ac6435f2a2 --- /dev/null +++ b/var/spack/repos/builtin/packages/hdf/package.py @@ -0,0 +1,45 @@ +from spack import * + +class Hdf(Package): + """HDF4 (also known as HDF) is a library and multi-object + file format for storing and managing data between machines.""" + + homepage = "https://www.hdfgroup.org/products/hdf4/" + url = "https://www.hdfgroup.org/ftp/HDF/releases/HDF4.2.11/src/hdf-4.2.11.tar.gz" + list_url = "https://www.hdfgroup.org/ftp/HDF/releases/" + list_depth = 3 + + version('4.2.11', '063f9928f3a19cc21367b71c3b8bbf19') + + variant('szip', default=False, description="Enable szip support") + + depends_on("jpeg") + depends_on("szip", when='+szip') + depends_on("zlib") + + + def url_for_version(self, version): + return "https://www.hdfgroup.org/ftp/HDF/releases/HDF" + str(version) + "/src/hdf-" + str(version) + ".tar.gz" + + + def install(self, spec, prefix): + config_args = [ + 'CFLAGS=-fPIC', + '--prefix=%s' % prefix, + '--with-jpeg=%s' % spec['jpeg'].prefix, + '--with-zlib=%s' % spec['zlib'].prefix, + '--disable-netcdf', # must be disabled to build NetCDF with HDF4 support + '--enable-fortran', + '--disable-shared', # fortran and shared libraries are not compatible + '--enable-static', + '--enable-production' + ] + + # SZip support + if '+szip' in spec: + config_args.append('--with-szlib=%s' % spec['szip'].prefix) + + configure(*config_args) + + make() + make("install") diff --git a/var/spack/repos/builtin/packages/hdf5/package.py b/var/spack/repos/builtin/packages/hdf5/package.py new file mode 100644 index 0000000000..cce609eb29 --- /dev/null +++ b/var/spack/repos/builtin/packages/hdf5/package.py @@ -0,0 +1,152 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Hdf5(Package): + """HDF5 is a data model, library, and file format for storing and managing + data. It supports an unlimited variety of datatypes, and is designed for + flexible and efficient I/O and for high volume and complex data. + """ + + homepage = "http://www.hdfgroup.org/HDF5/" + url = "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-1.8.13/src/hdf5-1.8.13.tar.gz" + list_url = "http://www.hdfgroup.org/ftp/HDF5/releases" + list_depth = 3 + + version('1.10.0', 'bdc935337ee8282579cd6bc4270ad199') + version('1.8.16', 'b8ed9a36ae142317f88b0c7ef4b9c618') + version('1.8.15', '03cccb5b33dbe975fdcd8ae9dc021f24') + version('1.8.13', 'c03426e9e77d7766944654280b467289') + + variant('debug', default=False, description='Builds a debug version of the library') + variant('shared', default=True, description='Builds a shared version of the library') + + variant('cxx', default=True, description='Enable C++ support') + variant('fortran', default=True, description='Enable Fortran support') + + variant('mpi', default=False, description='Enable MPI support') + variant('szip', default=False, description='Enable szip support') + variant('threadsafe', default=False, description='Enable thread-safe capabilities') + + depends_on("mpi", when='+mpi') + depends_on("szip", when='+szip') + depends_on("zlib") + + def validate(self, spec): + """ + Checks if incompatible variants have been activated at the same time + + :param spec: spec of the package + :raises RuntimeError: in case of inconsistencies + """ + if '+fortran' in spec and not self.compiler.fc: + msg = 'cannot build a fortran variant without a fortran compiler' + raise RuntimeError(msg) + + if '+threadsafe' in spec and ('+cxx' in spec or '+fortran' in spec): + raise RuntimeError("cannot use variant +threadsafe with either +cxx or +fortran") + + def install(self, spec, prefix): + self.validate(spec) + # Handle compilation after spec validation + extra_args = [] + + # Always enable this option. This does not actually enable any + # features: it only *allows* the user to specify certain + # combinations of other arguments. Enabling it just skips a + # sanity check in configure, so this doesn't merit a variant. + extra_args.append("--enable-unsupported") + + if spec.satisfies('@1.10:'): + if '+debug' in spec: + extra_args.append('--enable-build-mode=debug') + else: + extra_args.append('--enable-build-mode=production') + else: + if '+debug' in spec: + extra_args.append('--enable-debug=all') + else: + extra_args.append('--enable-production') + + if '+shared' in spec: + extra_args.append('--enable-shared') + else: + extra_args.append('--enable-static-exec') + + if '+cxx' in spec: + extra_args.append('--enable-cxx') + + if '+fortran' in spec: + extra_args.append('--enable-fortran') + # '--enable-fortran2003' no longer exists as of version 1.10.0 + if spec.satisfies('@:1.8.16'): + extra_args.append('--enable-fortran2003') + + if '+mpi' in spec: + # The HDF5 configure script warns if cxx and mpi are enabled + # together. There doesn't seem to be a real reason for this, except + # that parts of the MPI interface are not accessible via the C++ + # interface. Since they are still accessible via the C interface, + # this is not actually a problem. + extra_args.extend([ + "--enable-parallel", + "CC=%s" % spec['mpi'].prefix.bin + "/mpicc", + ]) + + if '+cxx' in spec: + extra_args.append("CXX=%s" % spec['mpi'].prefix.bin + "/mpic++") + + if '+fortran' in spec: + extra_args.append("FC=%s" % spec['mpi'].prefix.bin + "/mpifort") + + if '+szip' in spec: + extra_args.append("--with-szlib=%s" % spec['szip'].prefix) + + if '+threadsafe' in spec: + extra_args.extend([ + '--enable-threadsafe', + '--disable-hl', + ]) + + configure( + "--prefix=%s" % prefix, + "--with-zlib=%s" % spec['zlib'].prefix, + *extra_args) + make() + make("install") + + def url_for_version(self, version): + v = str(version) + + if version == Version("1.2.2"): + return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + v + ".tar.gz" + elif version < Version("1.7"): + return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + version.up_to(2) + "/hdf5-" + v + ".tar.gz" + elif version < Version("1.10"): + return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + v + "/src/hdf5-" + v + ".tar.gz" + else: + return "http://www.hdfgroup.org/ftp/HDF5/releases/hdf5-" + version.up_to(2) + "/hdf5-" + v + "/src/hdf5-" + v + ".tar.gz" diff --git a/var/spack/repos/builtin/packages/hoomd-blue/package.py b/var/spack/repos/builtin/packages/hoomd-blue/package.py new file mode 100644 index 0000000000..d310b7687a --- /dev/null +++ b/var/spack/repos/builtin/packages/hoomd-blue/package.py @@ -0,0 +1,73 @@ +from spack import * +import os + +class HoomdBlue(Package): + """HOOMD-blue is a general-purpose particle simulation toolkit. It scales + from a single CPU core to thousands of GPUs. + + You define particle initial conditions and interactions in a high-level + python script. Then tell HOOMD-blue how you want to execute the job and it + takes care of the rest. Python job scripts give you unlimited flexibility + to create custom initialization routines, control simulation parameters, + and perform in situ analysis.""" + + homepage = "https://codeblue.umich.edu/hoomd-blue/index.html" + url = "https://bitbucket.org/glotzer/hoomd-blue/get/v1.3.3.tar.bz2" + + version('1.3.3', '1469ef4531dc14b579c0acddbfe6a273') + + variant('mpi', default=True, description='Compile with MPI enabled') + variant('cuda', default=True, description='Compile with CUDA Toolkit') + variant('doc', default=True, description='Generate documentation') + + extends('python') + depends_on('py-numpy') + depends_on('boost+python') + depends_on('cmake') + depends_on('mpi', when='+mpi') + depends_on('cuda', when='+cuda') + depends_on('doxygen', when='+doc') + + def install(self, spec, prefix): + + cmake_args = [ + '-DPYTHON_EXECUTABLE=%s/python' % spec['python'].prefix.bin, + '-DBOOST_ROOT=%s' % spec['boost' ].prefix + ] + + # MPI support + if '+mpi' in spec: + os.environ['MPI_HOME'] = spec['mpi'].prefix + cmake_args.append('-DENABLE_MPI=ON') + else: + cmake_args.append('-DENABLE_MPI=OFF') + + # CUDA support + if '+cuda' in spec: + cmake_args.append('-DENABLE_CUDA=ON') + else: + cmake_args.append('-DENABLE_CUDA=OFF') + + # CUDA-aware MPI library support + #if '+cuda' in spec and '+mpi' in spec: + # cmake_args.append('-DENABLE_MPI_CUDA=ON') + #else: + # cmake_args.append('-DENABLE_MPI_CUDA=OFF') + + # There may be a bug in the MPI-CUDA code. See: + # https://groups.google.com/forum/#!msg/hoomd-users/2griTESmc5I/E69s_M5fDwAJ + # This prevented "make test" from passing for me. + cmake_args.append('-DENABLE_MPI_CUDA=OFF') + + # Documentation + if '+doc' in spec: + cmake_args.append('-DENABLE_DOXYGEN=ON') + else: + cmake_args.append('-DENABLE_DOXYGEN=OFF') + + cmake_args.extend(std_cmake_args) + cmake('.', *cmake_args) + + make() + make("test") + make("install") diff --git a/var/spack/repos/builtin/packages/hpx5/package.py b/var/spack/repos/builtin/packages/hpx5/package.py new file mode 100644 index 0000000000..3dae3c4170 --- /dev/null +++ b/var/spack/repos/builtin/packages/hpx5/package.py @@ -0,0 +1,52 @@ +from spack import * +import os + +class Hpx5(Package): + """The HPX-5 Runtime System. HPX-5 (High Performance ParalleX) is an + open source, portable, performance-oriented runtime developed at + CREST (Indiana University). HPX-5 provides a distributed + programming model allowing programs to run unmodified on systems + from a single SMP to large clusters and supercomputers with + thousands of nodes. HPX-5 supports a wide variety of Intel and ARM + platforms. It is being used by a broad range of scientific + applications enabling scientists to write code that performs and + scales better than contemporary runtimes.""" + homepage = "http://hpx.crest.iu.edu" + url = "http://hpx.crest.iu.edu/release/hpx-2.0.0.tar.gz" + + version('2.0.0', '3d2ff3aab6c46481f9ec65c5b2bfe7a6') + version('1.3.0', '2260ecc7f850e71a4d365a43017d8cee') + version('1.2.0', '4972005f85566af4afe8b71afbf1480f') + version('1.1.0', '646afb460ecb7e0eea713a634933ce4f') + version('1.0.0', '8020822adf6090bd59ed7fe465f6c6cb') + + variant('debug', default=False, description='Build a debug version of HPX-5') + variant('photon', default=False, description='Enable Photon support') + variant('mpi', default=False, description='Enable MPI support') + + depends_on("mpi", when='+mpi') + depends_on("mpi", when='+photon') + + def install(self, spec, prefix): + extra_args = [] + if '+debug' in spec: + extra_args.extend([ + '--enable-debug', + 'CFLAGS=-g -O0' + ]) + else: + extra_args.append('CFLAGS=-O3') + + if '+mpi' in spec: + extra_args.append('--enable-mpi') + + if '+photon' in spec: + extra_args.extend([ + '--enable-mpi', + '--enable-photon' + ]) + + os.chdir("./hpx/") + configure('--prefix=%s' % prefix, *extra_args) + make() + make("install") diff --git a/var/spack/packages/hwloc/package.py b/var/spack/repos/builtin/packages/hwloc/package.py index 31a31f376a..ab7205646e 100644 --- a/var/spack/packages/hwloc/package.py +++ b/var/spack/repos/builtin/packages/hwloc/package.py @@ -14,12 +14,20 @@ class Hwloc(Package): efficiently.""" homepage = "http://www.open-mpi.org/projects/hwloc/" url = "http://www.open-mpi.org/software/hwloc/v1.9/downloads/hwloc-1.9.tar.gz" + list_url = "http://www.open-mpi.org/software/hwloc/" + list_depth = 3 - version('1.9', '1f9f9155682fe8946a97c08896109508') + version('1.11.2', 'e4ca55c2a5c5656da4a4e37c8fc51b23') + version('1.11.1', 'feb4e416a1b25963ed565d8b42252fdc') + version('1.9', '1f9f9155682fe8946a97c08896109508') + + depends_on('libpciaccess') + + def url_for_version(self, version): + return "http://www.open-mpi.org/software/hwloc/v%s/downloads/hwloc-%s.tar.gz" % (version.up_to(2), version) def install(self, spec, prefix): configure("--prefix=%s" % prefix) make() make("install") - diff --git a/var/spack/repos/builtin/packages/hypre/package.py b/var/spack/repos/builtin/packages/hypre/package.py new file mode 100644 index 0000000000..4b915daa68 --- /dev/null +++ b/var/spack/repos/builtin/packages/hypre/package.py @@ -0,0 +1,55 @@ +from spack import * +import os, sys + +class Hypre(Package): + """Hypre is a library of high performance preconditioners that + features parallel multigrid methods for both structured and + unstructured grid problems.""" + + homepage = "http://computation.llnl.gov/project/linear_solvers/software.php" + url = "http://computation.llnl.gov/project/linear_solvers/download/hypre-2.10.0b.tar.gz" + + version('2.10.1', 'dc048c4cabb3cd549af72591474ad674') + version('2.10.0b', '768be38793a35bb5d055905b271f5b8e') + + # hypre does not know how to build shared libraries on Darwin + variant('shared', default=sys.platform!='darwin', description="Build shared library version (disables static library)") + # SuperluDist have conflicting headers with those in Hypre + variant('internal-superlu', default=True, description="Use internal Superlu routines") + + depends_on("mpi") + depends_on("blas") + depends_on("lapack") + + def install(self, spec, prefix): + blas_dir = spec['blas'].prefix + lapack_dir = spec['lapack'].prefix + mpi_dir = spec['mpi'].prefix + + os.environ['CC'] = os.path.join(mpi_dir, 'bin', 'mpicc') + os.environ['CXX'] = os.path.join(mpi_dir, 'bin', 'mpicxx') + os.environ['F77'] = os.path.join(mpi_dir, 'bin', 'mpif77') + + + configure_args = [ + "--prefix=%s" % prefix, + "--with-lapack-libs=lapack", + "--with-lapack-lib-dirs=%s/lib" % lapack_dir, + "--with-blas-libs=blas", + "--with-blas-lib-dirs=%s/lib" % blas_dir] + if '+shared' in self.spec: + configure_args.append("--enable-shared") + + if '~internal-superlu' in self.spec: + configure_args.append("--without-superlu") + # MLI and FEI do not build without superlu on Linux + configure_args.append("--without-mli") + configure_args.append("--without-fei") + + # Hypre's source is staged under ./src so we'll have to manually + # cd into it. + with working_dir("src"): + configure(*configure_args) + + make() + make("install") diff --git a/var/spack/packages/icu/package.py b/var/spack/repos/builtin/packages/icu/package.py index f256ec5712..f256ec5712 100644 --- a/var/spack/packages/icu/package.py +++ b/var/spack/repos/builtin/packages/icu/package.py diff --git a/var/spack/packages/icu4c/package.py b/var/spack/repos/builtin/packages/icu4c/package.py index 55b44463b2..55b44463b2 100644 --- a/var/spack/packages/icu4c/package.py +++ b/var/spack/repos/builtin/packages/icu4c/package.py diff --git a/var/spack/repos/builtin/packages/intltool/package.py b/var/spack/repos/builtin/packages/intltool/package.py new file mode 100644 index 0000000000..9b3c095378 --- /dev/null +++ b/var/spack/repos/builtin/packages/intltool/package.py @@ -0,0 +1,19 @@ +from spack import * + +class Intltool(Package): + """intltool is a set of tools to centralize translation of many different file formats using GNU gettext-compatible PO files.""" + homepage = 'https://freedesktop.org/wiki/Software/intltool/' + + version('0.51.0', '12e517cac2b57a0121cda351570f1e63') + + def url_for_version(self, version): + """Handle version-based custom URLs.""" + return 'https://launchpad.net/intltool/trunk/%s/+download/intltool-%s.tar.gz' % (version, version) + + def install(self, spec, prefix): + + # configure, build, install: + options = ['--prefix=%s' % prefix ] + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/ipopt/package.py b/var/spack/repos/builtin/packages/ipopt/package.py new file mode 100644 index 0000000000..13c37bf79c --- /dev/null +++ b/var/spack/repos/builtin/packages/ipopt/package.py @@ -0,0 +1,51 @@ +from spack import * + +class Ipopt(Package): + """Ipopt (Interior Point OPTimizer, pronounced eye-pea-Opt) is a + software package for large-scale nonlinear optimization.""" + homepage = "https://projects.coin-or.org/Ipopt" + url = "http://www.coin-or.org/download/source/Ipopt/Ipopt-3.12.4.tgz" + + version('3.12.4', '12a8ecaff8dd90025ddea6c65b49cb03') + version('3.12.3', 'c560cbfa9cbf62acf8b485823c255a1b') + version('3.12.2', 'ec1e855257d7de09e122c446506fb00d') + version('3.12.1', 'ceaf895ce80c77778f2cab68ba9f17f3') + version('3.12.0', 'f7dfc3aa106a6711a85214de7595e827') + + depends_on("blas") + depends_on("lapack") + depends_on("pkg-config") + depends_on("mumps+double~mpi") + + def install(self, spec, prefix): + # Dependency directories + blas_dir = spec['blas'].prefix + lapack_dir = spec['lapack'].prefix + mumps_dir = spec['mumps'].prefix + + # Add directory with fake MPI headers in sequential MUMPS + # install to header search path + mumps_flags = "-ldmumps -lmumps_common -lpord -lmpiseq" + mumps_libcmd = "-L%s " % mumps_dir.lib + mumps_flags + + # By convention, spack links blas & lapack libs to libblas & liblapack + blas_lib = "-L%s" % blas_dir.lib + " -lblas" + lapack_lib = "-L%s" % lapack_dir.lib + " -llapack" + + configure_args = [ + "--prefix=%s" % prefix, + "--with-mumps-incdir=%s" % mumps_dir.include, + "--with-mumps-lib=%s" % mumps_libcmd, + "--enable-shared", + "--with-blas-incdir=%s" % blas_dir.include, + "--with-blas-lib=%s" % blas_lib, + "--with-lapack-incdir=%s" % lapack_dir.include, + "--with-lapack-lib=%s" % lapack_lib + ] + + configure(*configure_args) + + # IPOPT does not build correctly in parallel on OS X + make(parallel=False) + make("test", parallel=False) + make("install", parallel=False) diff --git a/var/spack/packages/isl/package.py b/var/spack/repos/builtin/packages/isl/package.py index 836ef3ea40..836ef3ea40 100644 --- a/var/spack/packages/isl/package.py +++ b/var/spack/repos/builtin/packages/isl/package.py diff --git a/var/spack/packages/jdk/package.py b/var/spack/repos/builtin/packages/jdk/package.py index 8f8076dd14..cbcc53ac0a 100644 --- a/var/spack/packages/jdk/package.py +++ b/var/spack/repos/builtin/packages/jdk/package.py @@ -14,8 +14,8 @@ class Jdk(Package): in the form of a binary product aimed at Java developers.""" homepage = "http://www.oracle.com/technetwork/java/javase/downloads/index.html" - version('8u25-linux-x64', 'e145c03a7edc845215092786bcfba77e', - url="http://download.oracle.com/otn-pub/java/jdk/8u25-b17/jdk-8u25-linux-x64.tar.gz") + version('8u66-linux-x64', '88f31f3d642c3287134297b8c10e61bf', + url="http://download.oracle.com/otn-pub/java/jdk/8u66-b17/jdk-8u66-linux-x64.tar.gz") # Oracle requires that you accept their License Agreement in order # to access the Java packages in download.oracle.com. In order to @@ -28,7 +28,7 @@ class Jdk(Package): '-H', # specify required License Agreement cookie 'Cookie: oraclelicense=accept-securebackup-cookie'] - def do_fetch(self): + def do_fetch(self, mirror_only=False): # Add our custom curl commandline options tty.msg( "[Jdk] Adding required commandline options to curl " + @@ -39,7 +39,7 @@ class Jdk(Package): spack.curl.add_default_arg(option) # Now perform the actual fetch - super(Jdk, self).do_fetch() + super(Jdk, self).do_fetch(mirror_only) def install(self, spec, prefix): diff --git a/var/spack/repos/builtin/packages/jemalloc/package.py b/var/spack/repos/builtin/packages/jemalloc/package.py new file mode 100644 index 0000000000..9cb0fd1f40 --- /dev/null +++ b/var/spack/repos/builtin/packages/jemalloc/package.py @@ -0,0 +1,28 @@ +from spack import * + +class Jemalloc(Package): + """jemalloc is a general purpose malloc(3) implementation that emphasizes fragmentation avoidance and scalable concurrency support.""" + homepage = "http://www.canonware.com/jemalloc/" + url = "https://github.com/jemalloc/jemalloc/releases/download/4.0.4/jemalloc-4.0.4.tar.bz2" + + version('4.1.0', 'c4e53c947905a533d5899e5cc3da1f94') + version('4.0.4', '687c5cc53b9a7ab711ccd680351ff988') + + variant('stats', default=False, description='Enable heap statistics') + variant('prof', default=False, description='Enable heap profiling') + + def install(self, spec, prefix): + configure_args = ['--prefix=%s' % prefix,] + + if '+stats' in spec: + configure_args.append('--enable-stats') + if '+prof' in spec: + configure_args.append('--enable-prof') + + configure(*configure_args) + + # Don't use -Werror + filter_file(r'-Werror=\S*', '', 'Makefile') + + make() + make("install") diff --git a/var/spack/packages/jpeg/package.py b/var/spack/repos/builtin/packages/jpeg/package.py index 87820467db..87820467db 100644 --- a/var/spack/packages/jpeg/package.py +++ b/var/spack/repos/builtin/packages/jpeg/package.py diff --git a/var/spack/repos/builtin/packages/judy/package.py b/var/spack/repos/builtin/packages/judy/package.py new file mode 100644 index 0000000000..b8d8701383 --- /dev/null +++ b/var/spack/repos/builtin/packages/judy/package.py @@ -0,0 +1,15 @@ +from spack import * + +class Judy(Package): + """A general-purpose dynamic array, associative array and hash-trie - Judy""" + homepage = "http://judy.sourceforge.net/" + url = "http://downloads.sourceforge.net/project/judy/judy/Judy-1.0.5/Judy-1.0.5.tar.gz" + + version('1.0.5', '115a0d26302676e962ae2f70ec484a54') + parallel = False + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/repos/builtin/packages/julia/gc.patch b/var/spack/repos/builtin/packages/julia/gc.patch new file mode 100644 index 0000000000..6db69c6c1b --- /dev/null +++ b/var/spack/repos/builtin/packages/julia/gc.patch @@ -0,0 +1,11 @@ +--- julia/src/gc.c ++++ julia/src/gc.c +@@ -162,7 +162,7 @@ + // A region is contiguous storage for up to REGION_PG_COUNT naturally aligned GC_PAGE_SZ pages + // It uses a very naive allocator (see malloc_page & free_page) + #if defined(_P64) && !defined(_COMPILER_MICROSOFT_) +-#define REGION_PG_COUNT 16*8*4096 // 8G because virtual memory is cheap ++#define REGION_PG_COUNT 8*4096 // 512M + #else + #define REGION_PG_COUNT 8*4096 // 512M + #endif diff --git a/var/spack/repos/builtin/packages/julia/openblas.patch b/var/spack/repos/builtin/packages/julia/openblas.patch new file mode 100644 index 0000000000..f75d7dd04f --- /dev/null +++ b/var/spack/repos/builtin/packages/julia/openblas.patch @@ -0,0 +1,68 @@ +diff --git a/deps/Makefile b/deps/Makefile +index 6cb73be..bcd8520 100644 +--- a/deps/Makefile ++++ b/deps/Makefile +@@ -1049,7 +1049,7 @@ OPENBLAS_BUILD_OPTS += NO_AFFINITY=1 + + # Build for all architectures - required for distribution + ifeq ($(OPENBLAS_DYNAMIC_ARCH), 1) +-OPENBLAS_BUILD_OPTS += DYNAMIC_ARCH=1 ++OPENBLAS_BUILD_OPTS += DYNAMIC_ARCH=1 MAKE_NO_J=1 + endif + + # 64-bit BLAS interface +@@ -1085,6 +1085,7 @@ OPENBLAS_BUILD_OPTS += NO_AVX2=1 + endif + + $(OPENBLAS_SRC_DIR)/config.status: $(OPENBLAS_SRC_DIR)/Makefile ++ cd $(dir $@) && patch -p1 < ../openblas-make.patch + ifeq ($(OS),WINNT) + cd $(dir $@) && patch -p1 < ../openblas-win64.patch + endif +diff --git a/deps/openblas.version b/deps/openblas.version +index 7c97e1b..58b9467 100644 +--- a/deps/openblas.version ++++ b/deps/openblas.version +@@ -1,2 +1,2 @@ +-OPENBLAS_BRANCH=v0.2.15 +-OPENBLAS_SHA1=53e849f4fcae4363a64576de00e982722c7304f9 ++OPENBLAS_BRANCH=v0.2.17 ++OPENBLAS_SHA1=a71e8c82f6a9f73093b631e5deab1e8da716b61f +--- a/deps/openblas-make.patch ++++ b/deps/openblas-make.patch +@@ -0,0 +1,35 @@ ++diff --git a/Makefile.system b/Makefile.system ++index b89f60e..2dbdad0 100644 ++--- a/Makefile.system +++++ b/Makefile.system ++@@ -139,6 +139,10 @@ NO_PARALLEL_MAKE=0 ++ endif ++ GETARCH_FLAGS += -DNO_PARALLEL_MAKE=$(NO_PARALLEL_MAKE) ++ +++ifdef MAKE_NO_J +++GETARCH_FLAGS += -DMAKE_NO_J=$(MAKE_NO_J) +++endif +++ ++ ifdef MAKE_NB_JOBS ++ GETARCH_FLAGS += -DMAKE_NB_JOBS=$(MAKE_NB_JOBS) ++ endif ++diff --git a/getarch.c b/getarch.c ++index f9c49e6..dffad70 100644 ++--- a/getarch.c +++++ b/getarch.c ++@@ -1012,6 +1012,7 @@ int main(int argc, char *argv[]){ ++ #endif ++ #endif ++ +++#ifndef MAKE_NO_J ++ #ifdef MAKE_NB_JOBS ++ printf("MAKE += -j %d\n", MAKE_NB_JOBS); ++ #elif NO_PARALLEL_MAKE==1 ++@@ -1021,6 +1022,7 @@ int main(int argc, char *argv[]){ ++ printf("MAKE += -j %d\n", get_num_cores()); ++ #endif ++ #endif +++#endif ++ ++ break; ++ diff --git a/var/spack/repos/builtin/packages/julia/package.py b/var/spack/repos/builtin/packages/julia/package.py new file mode 100644 index 0000000000..25d782266b --- /dev/null +++ b/var/spack/repos/builtin/packages/julia/package.py @@ -0,0 +1,93 @@ +from spack import * +import os + +class Julia(Package): + """The Julia Language: A fresh approach to technical computing""" + homepage = "http://julialang.org" + url = "https://github.com/JuliaLang/julia/releases/download/v0.4.3/julia-0.4.3-full.tar.gz" + + version('master', + git='https://github.com/JuliaLang/julia.git', branch='master') + version('0.4.5', '69141ff5aa6cee7c0ec8c85a34aa49a6') + version('0.4.3', '8a4a59fd335b05090dd1ebefbbe5aaac') + + patch('gc.patch') + patch('openblas.patch', when='@0.4:0.4.5') + + # Build-time dependencies: + # depends_on("awk") + # depends_on("m4") + # depends_on("pkg-config") + + # Combined build-time and run-time dependencies: + depends_on("binutils") + depends_on("cmake @2.8:") + depends_on("git") + depends_on("openssl") + depends_on("python @2.7:2.999") + + # I think that Julia requires the dependencies above, but it + # builds fine (on my system) without these. We should enable them + # as necessary. + + # Run-time dependencies: + # depends_on("arpack") + # depends_on("fftw +float") + # depends_on("gmp") + # depends_on("libgit") + # depends_on("mpfr") + # depends_on("openblas") + # depends_on("pcre2") + + # ARPACK: Requires BLAS and LAPACK; needs to use the same version + # as Julia. + + # BLAS and LAPACK: Julia prefers 64-bit versions on 64-bit + # systems. OpenBLAS has an option for this; make it available as + # variant. + + # FFTW: Something doesn't work when using a pre-installed FFTW + # library; need to investigate. + + # GMP, MPFR: Something doesn't work when using a pre-installed + # FFTW library; need to investigate. + + # LLVM: Julia works only with specific versions, and might require + # patches. Thus we let Julia install its own LLVM. + + # Other possible dependencies: + # USE_SYSTEM_OPENLIBM=0 + # USE_SYSTEM_OPENSPECFUN=0 + # USE_SYSTEM_DSFMT=0 + # USE_SYSTEM_SUITESPARSE=0 + # USE_SYSTEM_UTF8PROC=0 + # USE_SYSTEM_LIBGIT2=0 + + # Run-time dependencies for Julia packages: + depends_on("hdf5") + depends_on("mpi") + + def install(self, spec, prefix): + if '@master' in spec: + # Julia needs to know the offset from a specific commit + git = which('git') + git('fetch', '--unshallow') + + # Explicitly setting CC, CXX, or FC breaks building libuv, one + # of Julia's dependencies. This might be a Darwin-specific + # problem. Given how Spack sets up compilers, Julia should + # still use Spack's compilers, even if we don't specify them + # explicitly. + options = [#"CC=cc", + #"CXX=c++", + #"FC=fc", + #"USE_SYSTEM_ARPACK=1", + #"USE_SYSTEM_FFTW=1", + #"USE_SYSTEM_GMP=1", + #"USE_SYSTEM_MPFR=1", + #TODO "USE_SYSTEM_PCRE=1", + "prefix=%s" % prefix] + with open('Make.user', 'w') as f: + f.write('\n'.join(options) + '\n') + make() + make("install") diff --git a/var/spack/repos/builtin/packages/kealib/package.py b/var/spack/repos/builtin/packages/kealib/package.py new file mode 100644 index 0000000000..475d21e1d8 --- /dev/null +++ b/var/spack/repos/builtin/packages/kealib/package.py @@ -0,0 +1,35 @@ +from spack import * + +class Kealib(Package): + """An HDF5 Based Raster File Format + + KEALib provides an implementation of the GDAL data model. + The format supports raster attribute tables, image pyramids, + meta-data and in-built statistics while also handling very + large files and compression throughout. + + Based on the HDF5 standard, it also provides a base from which + other formats can be derived and is a good choice for long + term data archiving. An independent software library (libkea) + provides complete access to the KEA image format and a GDAL + driver allowing KEA images to be used from any GDAL supported software. + + Development work on this project has been funded by Landcare Research. + """ + homepage = "http://kealib.org/" + url = "https://bitbucket.org/chchrsc/kealib/get/kealib-1.4.5.tar.gz" + + version('1.4.5', '112e9c42d980b2d2987a3c15d0833a5d') + + depends_on("hdf5") + + def install(self, spec, prefix): + with working_dir('trunk', create=False): + cmake_args = [] + cmake_args.append("-DCMAKE_INSTALL_PREFIX=%s" % prefix) + cmake_args.append("-DHDF5_INCLUDE_DIR=%s" % spec['hdf5'].prefix.include) + cmake_args.append("-DHDF5_LIB_PATH=%s" % spec['hdf5'].prefix.lib) + cmake('.', *cmake_args) + + make() + make("install") diff --git a/var/spack/packages/launchmon/package.py b/var/spack/repos/builtin/packages/launchmon/package.py index 6fbe6a68d0..aec2fd6fa7 100644 --- a/var/spack/packages/launchmon/package.py +++ b/var/spack/repos/builtin/packages/launchmon/package.py @@ -6,7 +6,7 @@ # Written by Matthew LeGendre, legendre1@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -31,12 +31,22 @@ class Launchmon(Package): url = "http://downloads.sourceforge.net/project/launchmon/launchmon/1.0.1%20release/launchmon-1.0.1.tar.gz" version('1.0.1', '2f12465803409fd07f91174a4389eb2b') - version('1.0.1-2', git='https://github.com/scalability-llnl/launchmon.git', commit='ff7e22424b8f375318951eb1c9282fcbbfa8aadf') + version('1.0.1-2', git='https://github.com/llnl/launchmon.git', commit='ff7e22424b8f375318951eb1c9282fcbbfa8aadf') depends_on('autoconf') depends_on('automake') depends_on('libtool') + + def patch(self): + # This patch makes libgcrypt compile correctly with newer gcc versions. + mf = FileFilter('tools/libgcrypt/tests/Makefile.in') + mf.filter(r'(basic_LDADD\s*=\s*.*)', r'\1 -lgpg-error') + mf.filter(r'(tsexp_LDADD\s*=\s*.*)', r'\1 -lgpg-error') + mf.filter(r'(keygen_LDADD\s*=\s*.*)', r'\1 -lgpg-error') + mf.filter(r'(benchmark_LDADD\s*=\s*.*)', r'\1 -lgpg-error') + + def install(self, spec, prefix): configure( "--prefix=" + prefix, diff --git a/var/spack/packages/launchmon/patch.lmon_install_dir b/var/spack/repos/builtin/packages/launchmon/patch.lmon_install_dir index 8a1d93fdc9..8a1d93fdc9 100644 --- a/var/spack/packages/launchmon/patch.lmon_install_dir +++ b/var/spack/repos/builtin/packages/launchmon/patch.lmon_install_dir diff --git a/var/spack/packages/lcms/package.py b/var/spack/repos/builtin/packages/lcms/package.py index a53c2f997a..a53c2f997a 100644 --- a/var/spack/packages/lcms/package.py +++ b/var/spack/repos/builtin/packages/lcms/package.py diff --git a/var/spack/packages/leveldb/package.py b/var/spack/repos/builtin/packages/leveldb/package.py index da68a9cbcb..da68a9cbcb 100644 --- a/var/spack/packages/leveldb/package.py +++ b/var/spack/repos/builtin/packages/leveldb/package.py diff --git a/var/spack/packages/libNBC/package.py b/var/spack/repos/builtin/packages/libNBC/package.py index 6d08f3219c..550568e97d 100644 --- a/var/spack/packages/libNBC/package.py +++ b/var/spack/repos/builtin/packages/libNBC/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/packages/libarchive/package.py b/var/spack/repos/builtin/packages/libarchive/package.py index cbd4b89cd0..cbd4b89cd0 100644 --- a/var/spack/packages/libarchive/package.py +++ b/var/spack/repos/builtin/packages/libarchive/package.py diff --git a/var/spack/repos/builtin/packages/libcerf/package.py b/var/spack/repos/builtin/packages/libcerf/package.py new file mode 100644 index 0000000000..15e87ce4fe --- /dev/null +++ b/var/spack/repos/builtin/packages/libcerf/package.py @@ -0,0 +1,42 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Libcerf(Package): + """ + A self-contained C library providing complex error functions, based on Faddeeva's plasma dispersion function + w(z). Also provides Dawson's integral and Voigt's convolution of a Gaussian and a Lorentzian + """ + homepage = "http://sourceforge.net/projects/libcerf" + url = "http://downloads.sourceforge.net/project/libcerf/libcerf-1.3.tgz" + + version('1.3', 'b3504c467204df71e62aeccf73a25612') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/libcircle/package.py b/var/spack/repos/builtin/packages/libcircle/package.py index 3f7c996fb0..3f7c996fb0 100644 --- a/var/spack/packages/libcircle/package.py +++ b/var/spack/repos/builtin/packages/libcircle/package.py diff --git a/var/spack/packages/libdrm/package.py b/var/spack/repos/builtin/packages/libdrm/package.py index 00736b7811..d5d779f796 100644 --- a/var/spack/packages/libdrm/package.py +++ b/var/spack/repos/builtin/packages/libdrm/package.py @@ -2,7 +2,7 @@ from spack import * class Libdrm(Package): """A userspace library for accessing the DRM, direct - rendering manager, on Linux, BSD and other operating + rendering manager, on Linux, BSD and other operating systems that support the ioctl interface.""" homepage = "http://dri.freedesktop.org/libdrm/" # no real website... @@ -11,6 +11,8 @@ class Libdrm(Package): version('2.4.59', '105ac7af1afcd742d402ca7b4eb168b6') version('2.4.33', '86e4e3debe7087d5404461e0032231c8') + depends_on('libpciaccess') + def install(self, spec, prefix): configure("--prefix=%s" % prefix) diff --git a/var/spack/packages/libdwarf/package.py b/var/spack/repos/builtin/packages/libdwarf/package.py index 099a974e93..addb557519 100644 --- a/var/spack/packages/libdwarf/package.py +++ b/var/spack/repos/builtin/packages/libdwarf/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/libedit/package.py b/var/spack/repos/builtin/packages/libedit/package.py new file mode 100644 index 0000000000..faed8bad37 --- /dev/null +++ b/var/spack/repos/builtin/packages/libedit/package.py @@ -0,0 +1,16 @@ +from spack import * + +class Libedit(Package): + """An autotools compatible port of the NetBSD editline library""" + homepage = "http://thrysoee.dk/editline/" + url = "http://thrysoee.dk/editline/libedit-20150325-3.1.tar.gz" + + version('3.1', '43cdb5df3061d78b5e9d59109871b4f6', url="http://thrysoee.dk/editline/libedit-20150325-3.1.tar.gz") + + depends_on('ncurses') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/packages/libelf/package.py b/var/spack/repos/builtin/packages/libelf/package.py index 9338b8f393..29bc21b65c 100644 --- a/var/spack/packages/libelf/package.py +++ b/var/spack/repos/builtin/packages/libelf/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/packages/libevent/package.py b/var/spack/repos/builtin/packages/libevent/package.py index 11b1083d67..714a155dc0 100644 --- a/var/spack/packages/libevent/package.py +++ b/var/spack/repos/builtin/packages/libevent/package.py @@ -22,9 +22,16 @@ class Libevent(Package): version('2.0.13', 'af786b4b3f790c9d3279792edf7867fc') version('2.0.12', '42986228baf95e325778ed328a93e070') + variant('openssl', default=True, description="Build with encryption enabled at the libevent level.") + depends_on('openssl', when='+openssl') def install(self, spec, prefix): - configure("--prefix=%s" % prefix) + configure_args = [] + if '+openssl' in spec: + configure_args.append('--enable-openssl') + else: + configure_args.append('--enable-openssl') + configure("--prefix=%s" % prefix, *configure_args) make() make("install") diff --git a/var/spack/packages/libffi/package.py b/var/spack/repos/builtin/packages/libffi/package.py index acec031717..acec031717 100644 --- a/var/spack/packages/libffi/package.py +++ b/var/spack/repos/builtin/packages/libffi/package.py diff --git a/var/spack/packages/libgcrypt/package.py b/var/spack/repos/builtin/packages/libgcrypt/package.py index 1d0a57f317..1d0a57f317 100644 --- a/var/spack/packages/libgcrypt/package.py +++ b/var/spack/repos/builtin/packages/libgcrypt/package.py diff --git a/var/spack/packages/clang/package.py b/var/spack/repos/builtin/packages/libgd/package.py index 4f977bf9a4..d920957ef1 100644 --- a/var/spack/packages/clang/package.py +++ b/var/spack/repos/builtin/packages/libgd/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -22,30 +22,32 @@ # along with this program; if not, write to the Free Software Foundation, # Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA ############################################################################## + from spack import * -class Clang(Package): - """The goal of the Clang project is to create a new C, C++, - Objective C and Objective C++ front-end for the LLVM compiler. + +class Libgd(Package): """ - homepage = 'http://clang.llvm.org' - url = 'http://llvm.org/releases/3.7.0/cfe-3.7.0.src.tar.xz' + GD is an open source code library for the dynamic creation of images by programmers. GD is written in C, and + "wrappers" are available for Perl, PHP and other languages. GD creates PNG, JPEG, GIF, WebP, XPM, BMP images, + among other formats. GD is commonly used to generate charts, graphics, thumbnails, and most anything else, on the + fly. While not restricted to use on the web, the most common applications of GD involve website development. + """ + + homepage = "https://github.com/libgd/libgd" + url = "https://github.com/libgd/libgd/archive/gd-2.1.1.tar.gz" - depends_on('llvm@3.7.0', when='@3.7.0') - depends_on('llvm@3.6.2', when='@3.6.2') - depends_on('llvm@3.5.1', when='@3.5.1') + version('2.1.1', 'e91a1a99903e460e7ba00a794e72cc1e') - version('3.7.0', '8f9d27335e7331cf0a4711e952f21f01', url='http://llvm.org/releases/3.7.0/cfe-3.7.0.src.tar.xz') - version('3.6.2', 'ff862793682f714bb7862325b9c06e20', url='http://llvm.org/releases/3.6.2/cfe-3.6.2.src.tar.xz') - version('3.5.1', '93f9532f8f7e6f1d8e5c1116907051cb', url='http://llvm.org/releases/3.5.1/cfe-3.5.1.src.tar.xz') + depends_on('libpng') def install(self, spec, prefix): - env['CXXFLAGS'] = self.compiler.cxx11_flag with working_dir('spack-build', create=True): cmake('..', - '-DCLANG_PATH_TO_LLVM_BUILD=%s' % spec['llvm'].prefix, - '-DLLVM_MAIN_SRC_DIR=%s' % spec['llvm'].prefix, + '-DENABLE_JPEG:BOOL=ON', + '-DENABLE_PNG:BOOL=ON', + '-DENABLE_TIFF:BOOL=ON', *std_cmake_args) make() make("install") diff --git a/var/spack/packages/libgpg-error/package.py b/var/spack/repos/builtin/packages/libgpg-error/package.py index 6c1d1a10a7..dd5fc2408a 100644 --- a/var/spack/packages/libgpg-error/package.py +++ b/var/spack/repos/builtin/packages/libgpg-error/package.py @@ -9,6 +9,7 @@ class LibgpgError(Package): homepage = "https://www.gnupg.org/related_software/libgpg-error" url = "ftp://ftp.gnupg.org/gcrypt/libgpg-error/libgpg-error-1.18.tar.bz2" + version('1.21', 'ab0b5aba6d0a185b41d07bda804fd8b2') version('1.18', '12312802d2065774b787cbfc22cc04e9') def install(self, spec, prefix): diff --git a/var/spack/packages/libjpeg-turbo/package.py b/var/spack/repos/builtin/packages/libjpeg-turbo/package.py index 07ee183947..07ee183947 100644 --- a/var/spack/packages/libjpeg-turbo/package.py +++ b/var/spack/repos/builtin/packages/libjpeg-turbo/package.py diff --git a/var/spack/packages/libjson-c/package.py b/var/spack/repos/builtin/packages/libjson-c/package.py index c0801cce9c..c0801cce9c 100644 --- a/var/spack/packages/libjson-c/package.py +++ b/var/spack/repos/builtin/packages/libjson-c/package.py diff --git a/var/spack/packages/libmng/package.py b/var/spack/repos/builtin/packages/libmng/package.py index e5336ea2c2..e5336ea2c2 100644 --- a/var/spack/packages/libmng/package.py +++ b/var/spack/repos/builtin/packages/libmng/package.py diff --git a/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0000.patch b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0000.patch new file mode 100644 index 0000000000..3a90106850 --- /dev/null +++ b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0000.patch @@ -0,0 +1,18 @@ +--- libmonitor-20130218/configure 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/configure 2013-02-18 10:34:05.237918411 -0800 +@@ -3600,13 +3600,13 @@ + CFLAGS=$ac_save_CFLAGS + elif test $ac_cv_prog_cc_g = yes; then + if test "$GCC" = yes; then +- CFLAGS="-g -O2" ++ CFLAGS="-g -O0" + else + CFLAGS="-g" + fi + else + if test "$GCC" = yes; then +- CFLAGS="-O2" ++ CFLAGS="-O0" + else + CFLAGS= + fi diff --git a/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0001.patch b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0001.patch new file mode 100644 index 0000000000..85d69595c0 --- /dev/null +++ b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0001.patch @@ -0,0 +1,395 @@ +--- libmonitor-20130218/src/callback.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/callback.c 2013-02-18 10:34:17.839842826 -0800 +@@ -173,3 +173,18 @@ + MONITOR_DEBUG1("(default callback)\n"); + return 0; + } ++ ++ ++void __attribute__ ((weak)) ++monitor_mpi_post_comm_rank(void) ++{ ++ MONITOR_DEBUG1("(default callback)\n"); ++} ++ ++void __attribute__ ((weak)) ++monitor_mpi_pcontrol(int level) ++{ ++ MONITOR_DEBUG("(default callback) level = %d\n", level); ++} ++ ++ +--- libmonitor-20130218/src/main.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/main.c 2013-02-18 10:34:17.839842826 -0800 +@@ -230,6 +230,44 @@ + monitor_fini_library_called = 1; + } + ++/* ++ * Internal monitor functions. ++ */ ++ ++struct monitor_thread_node * __attribute__ ((weak)) ++monitor_get_tn(void) ++{ ++ return &monitor_main_tn; ++} ++ ++int __attribute__ ((weak)) ++monitor_get_thread_num(void) ++{ ++ return (0); ++} ++ ++void __attribute__ ((weak)) ++monitor_reset_thread_list(struct monitor_thread_node *main_tn) ++{ ++ MONITOR_DEBUG1("(weak)\n"); ++ return; ++} ++ ++void __attribute__ ((weak)) ++monitor_thread_release(void) ++{ ++ MONITOR_DEBUG1("(weak)\n"); ++ return; ++} ++ ++void __attribute__ ((weak)) ++monitor_thread_shootdown(void) ++{ ++ MONITOR_DEBUG1("(weak)\n"); ++ return; ++} ++ ++ + void + monitor_begin_process_fcn(void *user_data, int is_fork) + { +@@ -625,12 +663,6 @@ + return (monitor_main_tn.tn_user_data); + } + +-int __attribute__ ((weak)) +-monitor_get_thread_num(void) +-{ +- return (0); +-} +- + void * __attribute__ ((weak)) + monitor_get_addr_thread_start(void) + { +@@ -691,33 +723,3 @@ + MONITOR_DEBUG1("(weak)\n"); + return (FALSE); + } +- +-/* +- * Internal monitor functions. +- */ +-struct monitor_thread_node * __attribute__ ((weak)) +-monitor_get_tn(void) +-{ +- return &monitor_main_tn; +-} +- +-void __attribute__ ((weak)) +-monitor_reset_thread_list(struct monitor_thread_node *main_tn) +-{ +- MONITOR_DEBUG1("(weak)\n"); +- return; +-} +- +-void __attribute__ ((weak)) +-monitor_thread_release(void) +-{ +- MONITOR_DEBUG1("(weak)\n"); +- return; +-} +- +-void __attribute__ ((weak)) +-monitor_thread_shootdown(void) +-{ +- MONITOR_DEBUG1("(weak)\n"); +- return; +-} +--- libmonitor-20130218/src/monitor.h 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/monitor.h 2013-02-18 10:34:17.840842821 -0800 +@@ -73,6 +73,11 @@ + extern void monitor_fini_mpi(void); + extern void monitor_mpi_post_fini(void); + ++extern void monitor_mpi_post_comm_rank(void); ++extern void monitor_mpi_pcontrol(int level); ++ ++ ++ + /* + * Monitor support functions. + */ +--- libmonitor-20130218/src/mpi_comm_c.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_comm_c.c 2013-02-18 10:34:17.878842622 -0800 +@@ -36,5 +36,8 @@ + ret = (*real_mpi_comm_rank)(comm, rank); + monitor_set_mpi_size_rank(size, *rank); + ++ monitor_mpi_post_comm_rank(); ++ ++ + return (ret); + } +--- libmonitor-20130218/src/mpi_comm_f0.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_comm_f0.c 2013-02-18 10:34:17.879842617 -0800 +@@ -34,4 +34,5 @@ + (*real_mpi_comm_size)(comm, &size, ierror); + (*real_mpi_comm_rank)(comm, rank, ierror); + monitor_set_mpi_size_rank(size, *rank); ++ monitor_mpi_post_comm_rank(); + } +--- libmonitor-20130218/src/mpi_comm_f1.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_comm_f1.c 2013-02-18 10:34:17.880842612 -0800 +@@ -34,4 +34,5 @@ + (*real_mpi_comm_size)(comm, &size, ierror); + (*real_mpi_comm_rank)(comm, rank, ierror); + monitor_set_mpi_size_rank(size, *rank); ++ monitor_mpi_post_comm_rank(); + } +--- libmonitor-20130218/src/mpi_comm_f2.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_comm_f2.c 2013-02-18 10:34:17.880842612 -0800 +@@ -34,4 +34,5 @@ + (*real_mpi_comm_size)(comm, &size, ierror); + (*real_mpi_comm_rank)(comm, rank, ierror); + monitor_set_mpi_size_rank(size, *rank); ++ monitor_mpi_post_comm_rank(); + } +--- libmonitor-20130218/src/pmpi.c 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/pmpi.c 2013-02-18 10:34:17.881842607 -0800 +@@ -52,11 +52,15 @@ + typedef int mpi_init_thread_fcn_t(int *, char ***, int, int *); + typedef int mpi_finalize_fcn_t(void); + typedef int mpi_comm_fcn_t(void *, int *); ++typedef int mpi_pcontrol_fcn_t(int ); ++ + + typedef void f_mpi_init_fcn_t(int *); + typedef void f_mpi_init_thread_fcn_t(int *, int *, int *); + typedef void f_mpi_finalize_fcn_t(int *); + typedef void f_mpi_comm_fcn_t(int *, int *, int *); ++typedef int f_mpi_pcontrol_fcn_t(int ); ++ + + static mpi_init_fcn_t *real_pmpi_init = NULL; + static f_mpi_init_fcn_t *real_pmpi_init_f0 = NULL; +@@ -83,6 +87,12 @@ + static f_mpi_comm_fcn_t *real_pmpi_comm_rank_f1 = NULL; + static f_mpi_comm_fcn_t *real_pmpi_comm_rank_f2 = NULL; + ++static mpi_pcontrol_fcn_t *real_pmpi_pcontrol = NULL; ++static f_mpi_pcontrol_fcn_t *real_pmpi_pcontrol_f0 = NULL; ++static f_mpi_pcontrol_fcn_t *real_pmpi_pcontrol_f1 = NULL; ++static f_mpi_pcontrol_fcn_t *real_pmpi_pcontrol_f2 = NULL; ++ ++ + /* + *---------------------------------------------------------------------- + * PMPI_INIT OVERRIDE FUNCTIONS +@@ -297,6 +307,7 @@ + ret = (*real_pmpi_comm_size)(comm, &size); + ret = (*real_pmpi_comm_rank)(comm, rank); + monitor_set_mpi_size_rank(size, *rank); ++ monitor_mpi_post_comm_rank(); + + return (ret); + } +@@ -308,7 +319,9 @@ + MONITOR_GET_REAL_NAME_WRAP(rank_var, rank_fcn); \ + (*size_var)(comm, &size, ierror); \ + (*rank_var)(comm, rank, ierror); \ +- monitor_set_mpi_size_rank(size, *rank); ++ monitor_set_mpi_size_rank(size, *rank); \ ++ monitor_mpi_post_comm_rank(); ++ + + /* + * In Fortran, MPI_Comm is always int. +@@ -333,3 +346,48 @@ + FORTRAN_COMM_RANK_BODY(real_pmpi_comm_size_f2, pmpi_comm_size__, + real_pmpi_comm_rank_f2, pmpi_comm_rank__); + } ++ ++ ++/* ++ *---------------------------------------------------------------------- ++ * PMPI_PCONTROL OVERRIDE FUNCTIONS ++ *---------------------------------------------------------------------- ++ */ ++ ++int ++MONITOR_WRAP_NAME(PMPI_Pcontrol)(int level) ++{ ++ int ret; ++ ++ MONITOR_DEBUG("level = %d\n", level); \ ++ MONITOR_GET_REAL_NAME_WRAP(real_pmpi_pcontrol, PMPI_Pcontrol); ++ ret = (*real_pmpi_pcontrol) (level) ; ++ monitor_mpi_pcontrol(level); ++ ++ return (ret); ++} ++ ++#define FORTRAN_PCONTROL_BODY(var_name, fcn_name)\ ++ int ret; \ ++ MONITOR_DEBUG("level = %d\n", level); \ ++ MONITOR_GET_REAL_NAME_WRAP(var_name, fcn_name); \ ++ ret = (*var_name) (level) ; \ ++ monitor_mpi_pcontrol(level); ++ ++int ++MONITOR_WRAP_NAME(pmpi_pcontrol)(int level) ++{ ++ FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f0, pmpi_pcontrol); ++} ++ ++int ++MONITOR_WRAP_NAME(pmpi_pcontrol_)(int level) ++{ ++ FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f1, pmpi_pcontrol_); ++} ++ ++int ++MONITOR_WRAP_NAME(pmpi_pcontrol__)(int level) ++{ ++ FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f2, pmpi_pcontrol__); ++} +--- libmonitor-20130218/src/mpi_pcontrol_c.c 1969-12-31 16:00:00.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_pcontrol_c.c 2013-02-18 10:34:17.882842602 -0800 +@@ -0,0 +1,30 @@ ++/* ++ * Override MPI_Pcontrol in C/C++. ++ * ++ * ++ */ ++ ++#include "config.h" ++#include "common.h" ++#include "monitor.h" ++ ++typedef int mpi_pcontrol_fcn_t(int level); ++#ifdef MONITOR_STATIC ++extern mpi_pcontrol_fcn_t __real_MPI_Pcontrol; ++#endif ++static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; ++ ++int ++MONITOR_WRAP_NAME(MPI_Pcontrol)(int level) ++{ ++ int ret, count; ++ ++ MONITOR_DEBUG("level = %d\n", level); \ ++ ++ MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, MPI_Pcontrol); ++ ret = (*real_mpi_pcontrol)(level); ++ monitor_mpi_pcontrol(level); ++ ++ ++ return (ret); ++} +--- libmonitor-20130218/src/mpi_pcontrol_f0.c 1969-12-31 16:00:00.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_pcontrol_f0.c 2013-02-18 10:34:17.882842602 -0800 +@@ -0,0 +1,24 @@ ++/* ++ * Override mpi_pcontrol in Fortran. ++ * ++ */ ++ ++#include "config.h" ++#include "common.h" ++#include "monitor.h" ++ ++typedef void mpi_pcontrol_fcn_t(int level); ++#ifdef MONITOR_STATIC ++extern mpi_pcontrol_fcn_t __real_mpi_pcontrol; ++#endif ++static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; ++ ++int ++MONITOR_WRAP_NAME(mpi_pcontrol)(int level) ++{ ++ int count; ++ ++ MONITOR_DEBUG1("\n"); ++ MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol); ++ (*real_mpi_pcontrol)(level); ++} +--- libmonitor-20130218/src/mpi_pcontrol_f1.c 1969-12-31 16:00:00.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_pcontrol_f1.c 2013-02-18 10:34:17.883842597 -0800 +@@ -0,0 +1,24 @@ ++/* ++ * Override mpi_pcontrol_ in Fortran. ++ * ++ */ ++ ++#include "config.h" ++#include "common.h" ++#include "monitor.h" ++ ++typedef void mpi_pcontrol_fcn_t(int level); ++#ifdef MONITOR_STATIC ++extern mpi_pcontrol_fcn_t __real_mpi_pcontrol_; ++#endif ++static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; ++ ++int ++MONITOR_WRAP_NAME(mpi_pcontrol_)(int level) ++{ ++ int count; ++ ++ MONITOR_DEBUG1("\n"); ++ MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol_); ++ (*real_mpi_pcontrol)(level); ++} +--- libmonitor-20130218/src/mpi_pcontrol_f2.c 1969-12-31 16:00:00.000000000 -0800 ++++ libmonitor-20130218-fixes/src/mpi_pcontrol_f2.c 2013-02-18 10:34:17.883842597 -0800 +@@ -0,0 +1,24 @@ ++/* ++ * Override mpi_pcontrol__ in Fortran. ++ * ++ */ ++ ++#include "config.h" ++#include "common.h" ++#include "monitor.h" ++ ++typedef void mpi_pcontrol_fcn_t(int level); ++#ifdef MONITOR_STATIC ++extern mpi_pcontrol_fcn_t __real_mpi_pcontrol__; ++#endif ++static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; ++ ++int ++MONITOR_WRAP_NAME(mpi_pcontrol__)(int level) ++{ ++ int count; ++ ++ MONITOR_DEBUG1("\n"); ++ MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol__); ++ (*real_mpi_pcontrol)(level); ++} +--- libmonitor-20130218/src/Makefile.am 2013-02-17 23:08:32.000000000 -0800 ++++ libmonitor-20130218-fixes/src/Makefile.am 2013-02-18 10:34:17.931842343 -0800 +@@ -38,10 +38,11 @@ + MONITOR_THREAD_FILES = pthread.c + MONITOR_SCRIPT_FILES = monitor-link monitor-run + MONITOR_MPI_FILES = \ +- mpi_init_c.c mpi_init_thread_c.c mpi_final_c.c mpi_comm_c.c \ +- mpi_init_f0.c mpi_init_thread_f0.c mpi_final_f0.c mpi_comm_f0.c \ +- mpi_init_f1.c mpi_init_thread_f1.c mpi_final_f1.c mpi_comm_f1.c \ +- mpi_init_f2.c mpi_init_thread_f2.c mpi_final_f2.c mpi_comm_f2.c ++ mpi_init_c.c mpi_init_thread_c.c mpi_final_c.c mpi_comm_c.c mpi_pcontrol_c.c \ ++ mpi_init_f0.c mpi_init_thread_f0.c mpi_final_f0.c mpi_comm_f0.c mpi_pcontrol_f0.c \ ++ mpi_init_f1.c mpi_init_thread_f1.c mpi_final_f1.c mpi_comm_f1.c mpi_pcontrol_f1.c \ ++ mpi_init_f2.c mpi_init_thread_f2.c mpi_final_f2.c mpi_comm_f2.c mpi_pcontrol_f2.c ++ + + include_HEADERS = monitor.h + bin_SCRIPTS = diff --git a/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0002.patch b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0002.patch new file mode 100644 index 0000000000..514dfdf13e --- /dev/null +++ b/var/spack/repos/builtin/packages/libmonitor/libmonitorkrell-0002.patch @@ -0,0 +1,106 @@ +--- libmonitor-20130218/src/pmpi.c 2013-02-18 11:34:17.000000000 -0700 ++++ libmonitor-20130218-fixed/src/pmpi.c 2013-04-11 10:03:59.300550393 -0600 +@@ -355,7 +355,7 @@ + */ + + int +-MONITOR_WRAP_NAME(PMPI_Pcontrol)(int level) ++MONITOR_WRAP_NAME(PMPI_Pcontrol)(int level, int *ierror ) + { + int ret; + +@@ -375,19 +375,19 @@ + monitor_mpi_pcontrol(level); + + int +-MONITOR_WRAP_NAME(pmpi_pcontrol)(int level) ++MONITOR_WRAP_NAME(pmpi_pcontrol)(int level, int *ierror ) + { + FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f0, pmpi_pcontrol); + } + + int +-MONITOR_WRAP_NAME(pmpi_pcontrol_)(int level) ++MONITOR_WRAP_NAME(pmpi_pcontrol_)(int level, int *ierror ) + { + FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f1, pmpi_pcontrol_); + } + + int +-MONITOR_WRAP_NAME(pmpi_pcontrol__)(int level) ++MONITOR_WRAP_NAME(pmpi_pcontrol__)(int level, int *ierror ) + { + FORTRAN_PCONTROL_BODY(real_pmpi_pcontrol_f2, pmpi_pcontrol__); + } +--- libmonitor-20130218/src/mpi_pcontrol_f0.c 2013-02-18 11:34:17.000000000 -0700 ++++ libmonitor-20130218-fixed/src/mpi_pcontrol_f0.c 2013-04-11 10:13:47.783002000 -0600 +@@ -7,18 +7,18 @@ + #include "common.h" + #include "monitor.h" + +-typedef void mpi_pcontrol_fcn_t(int level); ++typedef void mpi_pcontrol_fcn_t(int level, int *ierror); + #ifdef MONITOR_STATIC + extern mpi_pcontrol_fcn_t __real_mpi_pcontrol; + #endif + static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; + + int +-MONITOR_WRAP_NAME(mpi_pcontrol)(int level) ++MONITOR_WRAP_NAME(mpi_pcontrol)(int level, int *ierror) + { + int count; + + MONITOR_DEBUG1("\n"); + MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol); +- (*real_mpi_pcontrol)(level); ++ (*real_mpi_pcontrol)(level, ierror); + } +--- libmonitor-20130218/src/mpi_pcontrol_f1.c 2013-02-18 11:34:17.000000000 -0700 ++++ libmonitor-20130218-fixed/src/mpi_pcontrol_f1.c 2013-04-11 10:14:08.039214000 -0600 +@@ -7,18 +7,18 @@ + #include "common.h" + #include "monitor.h" + +-typedef void mpi_pcontrol_fcn_t(int level); ++typedef void mpi_pcontrol_fcn_t(int level, int *ierror); + #ifdef MONITOR_STATIC + extern mpi_pcontrol_fcn_t __real_mpi_pcontrol_; + #endif + static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; + + int +-MONITOR_WRAP_NAME(mpi_pcontrol_)(int level) ++MONITOR_WRAP_NAME(mpi_pcontrol_)(int level, int *ierror) + { + int count; + + MONITOR_DEBUG1("\n"); + MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol_); +- (*real_mpi_pcontrol)(level); ++ (*real_mpi_pcontrol)(level, ierror); + } +--- libmonitor-20130218/src/mpi_pcontrol_f2.c 2013-02-18 11:34:17.000000000 -0700 ++++ libmonitor-20130218-fixed/src/mpi_pcontrol_f2.c 2013-04-11 10:14:19.000960000 -0600 +@@ -7,18 +7,18 @@ + #include "common.h" + #include "monitor.h" + +-typedef void mpi_pcontrol_fcn_t(int level); ++typedef void mpi_pcontrol_fcn_t(int level, int *ierror); + #ifdef MONITOR_STATIC + extern mpi_pcontrol_fcn_t __real_mpi_pcontrol__; + #endif + static mpi_pcontrol_fcn_t *real_mpi_pcontrol = NULL; + + int +-MONITOR_WRAP_NAME(mpi_pcontrol__)(int level) ++MONITOR_WRAP_NAME(mpi_pcontrol__)(int level, int *ierror) + { + int count; + + MONITOR_DEBUG1("\n"); + MONITOR_GET_REAL_NAME_WRAP(real_mpi_pcontrol, mpi_pcontrol__); +- (*real_mpi_pcontrol)(level); ++ (*real_mpi_pcontrol)(level, ierror); + } diff --git a/var/spack/packages/libmonitor/package.py b/var/spack/repos/builtin/packages/libmonitor/package.py index 3b95b86ddf..eecf1963e3 100644 --- a/var/spack/packages/libmonitor/package.py +++ b/var/spack/repos/builtin/packages/libmonitor/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -29,6 +29,13 @@ class Libmonitor(Package): homepage = "http://hpctoolkit.org" version('20130218', svn='http://libmonitor.googlecode.com/svn/trunk/', revision=146) + variant('krellpatch', default=False, description="build with openspeedshop based patch.") + + + patch('libmonitorkrell-0000.patch', when='@20130218+krellpatch') + patch('libmonitorkrell-0001.patch', when='@20130218+krellpatch') + patch('libmonitorkrell-0002.patch', when='@20130218+krellpatch') + def install(self, spec, prefix): configure("--prefix=" + prefix) diff --git a/var/spack/repos/builtin/packages/libpciaccess/package.py b/var/spack/repos/builtin/packages/libpciaccess/package.py new file mode 100644 index 0000000000..0c0847d323 --- /dev/null +++ b/var/spack/repos/builtin/packages/libpciaccess/package.py @@ -0,0 +1,23 @@ +from spack import * +import os.path + +class Libpciaccess(Package): + """Generic PCI access library.""" + + homepage = "http://cgit.freedesktop.org/xorg/lib/libpciaccess/" + url = "http://xorg.freedesktop.org/archive/individual/lib/libpciaccess-0.13.4.tar.bz2" + + version('0.13.4', 'ace78aec799b1cf6dfaea55d3879ed9f') + + depends_on('libtool') + + def install(self, spec, prefix): + # libpciaccess does not support OS X + if spec.satisfies('=darwin-x86_64'): + # create a dummy directory + mkdir(prefix.lib) + return + + configure("--prefix=%s" % prefix) + make() + make("install") diff --git a/var/spack/packages/libpng/package.py b/var/spack/repos/builtin/packages/libpng/package.py index e02b08663e..9d5782896e 100644 --- a/var/spack/packages/libpng/package.py +++ b/var/spack/repos/builtin/packages/libpng/package.py @@ -8,6 +8,11 @@ class Libpng(Package): version('1.6.16', '1a4ad377919ab15b54f6cb6a3ae2622d') version('1.6.15', '829a256f3de9307731d4f52dc071916d') version('1.6.14', '2101b3de1d5f348925990f9aa8405660') + version('1.5.26', '3ca98347a5541a2dad55cd6d07ee60a9') + version('1.4.19', '89bcbc4fc8b31f4a403906cf4f662330') + version('1.2.56', '9508fc59d10a1ffadd9aae35116c19ee') + + depends_on('zlib') def install(self, spec, prefix): configure("--prefix=%s" % prefix) diff --git a/var/spack/repos/builtin/packages/libsigsegv/package.py b/var/spack/repos/builtin/packages/libsigsegv/package.py new file mode 100644 index 0000000000..4b486198ec --- /dev/null +++ b/var/spack/repos/builtin/packages/libsigsegv/package.py @@ -0,0 +1,15 @@ +from spack import * + +class Libsigsegv(Package): + """GNU libsigsegv is a library for handling page faults in user mode.""" + homepage = "https://www.gnu.org/software/libsigsegv/" + url = "ftp://ftp.gnu.org/gnu/libsigsegv/libsigsegv-2.10.tar.gz" + + version('2.10', '7f96fb1f65b3b8cbc1582fb7be774f0f') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix, + '--enable-shared') + + make() + make("install") diff --git a/var/spack/packages/libsodium/package.py b/var/spack/repos/builtin/packages/libsodium/package.py index 1c8a16d998..1c8a16d998 100644 --- a/var/spack/packages/libsodium/package.py +++ b/var/spack/repos/builtin/packages/libsodium/package.py diff --git a/var/spack/packages/libtiff/package.py b/var/spack/repos/builtin/packages/libtiff/package.py index 63c6704cb8..63c6704cb8 100644 --- a/var/spack/packages/libtiff/package.py +++ b/var/spack/repos/builtin/packages/libtiff/package.py diff --git a/var/spack/packages/libtool/package.py b/var/spack/repos/builtin/packages/libtool/package.py index a07daf9781..82a54953b2 100644 --- a/var/spack/packages/libtool/package.py +++ b/var/spack/repos/builtin/packages/libtool/package.py @@ -5,6 +5,7 @@ class Libtool(Package): homepage = "https://www.gnu.org/software/libtool/" url = "http://ftpmirror.gnu.org/libtool/libtool-2.4.2.tar.gz" + version('2.4.6' , 'addf44b646ddb4e3919805aa88fa7c5e') version('2.4.2' , 'd2f3b7d4627e69e13514a40e72a24d50') def install(self, spec, prefix): diff --git a/var/spack/packages/libunwind/package.py b/var/spack/repos/builtin/packages/libunwind/package.py index 239fcbcfd5..6f162f7b08 100644 --- a/var/spack/packages/libunwind/package.py +++ b/var/spack/repos/builtin/packages/libunwind/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/packages/libuuid/package.py b/var/spack/repos/builtin/packages/libuuid/package.py index 373c5bfcac..373c5bfcac 100644 --- a/var/spack/packages/libuuid/package.py +++ b/var/spack/repos/builtin/packages/libuuid/package.py diff --git a/var/spack/repos/builtin/packages/libxc/package.py b/var/spack/repos/builtin/packages/libxc/package.py new file mode 100644 index 0000000000..010a5918c5 --- /dev/null +++ b/var/spack/repos/builtin/packages/libxc/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Libxc(Package): + """Libxc is a library of exchange-correlation functionals for + density-functional theory.""" + + homepage = "http://www.tddft.org/programs/octopus/wiki/index.php/Libxc" + url = "http://www.tddft.org/programs/octopus/down.php?file=libxc/libxc-2.2.2.tar.gz" + + version('2.2.2', 'd9f90a0d6e36df6c1312b6422280f2ec') + + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix, + '--enable-shared') + + make() + make("install") diff --git a/var/spack/packages/libxcb/package.py b/var/spack/repos/builtin/packages/libxcb/package.py index 16a5525c0d..d7d94c4546 100644 --- a/var/spack/packages/libxcb/package.py +++ b/var/spack/repos/builtin/packages/libxcb/package.py @@ -1,9 +1,9 @@ from spack import * class Libxcb(Package): - """The X protocol C-language Binding (XCB) is a replacement - for Xlib featuring a small footprint, latency hiding, direct - access to the protocol, improved threading support, and + """The X protocol C-language Binding (XCB) is a replacement + for Xlib featuring a small footprint, latency hiding, direct + access to the protocol, improved threading support, and extensibility.""" homepage = "http://xcb.freedesktop.org/" @@ -14,6 +14,13 @@ class Libxcb(Package): depends_on("python") depends_on("xcb-proto") + # depends_on('pthread') # Ubuntu: apt-get install libpthread-stubs0-dev + # depends_on('xau') # Ubuntu: apt-get install libxau-dev + + def patch(self): + filter_file('typedef struct xcb_auth_info_t {', 'typedef struct {', 'src/xcb.h') + + def install(self, spec, prefix): configure("--prefix=%s" % prefix) diff --git a/var/spack/repos/builtin/packages/libxml2/package.py b/var/spack/repos/builtin/packages/libxml2/package.py new file mode 100644 index 0000000000..134e596963 --- /dev/null +++ b/var/spack/repos/builtin/packages/libxml2/package.py @@ -0,0 +1,30 @@ +from spack import * +import os + +class Libxml2(Package): + """Libxml2 is the XML C parser and toolkit developed for the Gnome + project (but usable outside of the Gnome platform), it is free + software available under the MIT License.""" + homepage = "http://xmlsoft.org" + url = "http://xmlsoft.org/sources/libxml2-2.9.2.tar.gz" + + version('2.9.2', '9e6a9aca9d155737868b3dc5fd82f788') + + variant('python', default=False, description='Enable Python support') + + extends('python', when='+python', ignore=r'(bin.*$)|(include.*$)|(share.*$)|(lib/libxml2.*$)|(lib/xml2.*$)|(lib/cmake.*$)') + depends_on('zlib') + depends_on('xz') + + def install(self, spec, prefix): + if '+python' in spec: + site_packages_dir = os.path.join(prefix, 'lib/python%s.%s/site-packages' %(spec['python'].version[:2])) + python_args = ["--with-python=%s" % spec['python'].prefix, "--with-python-install-dir=%s" % site_packages_dir] + else: + python_args = ["--without-python"] + + configure("--prefix=%s" % prefix, + *python_args) + + make() + make("install") diff --git a/var/spack/packages/libxshmfence/package.py b/var/spack/repos/builtin/packages/libxshmfence/package.py index 3aa2448b46..3aa2448b46 100644 --- a/var/spack/packages/libxshmfence/package.py +++ b/var/spack/repos/builtin/packages/libxshmfence/package.py diff --git a/var/spack/packages/libxslt/package.py b/var/spack/repos/builtin/packages/libxslt/package.py index f97332d020..f97332d020 100644 --- a/var/spack/packages/libxslt/package.py +++ b/var/spack/repos/builtin/packages/libxslt/package.py diff --git a/var/spack/packages/llvm-lld/package.py b/var/spack/repos/builtin/packages/llvm-lld/package.py index f229211396..cb91aa22a5 100644 --- a/var/spack/packages/llvm-lld/package.py +++ b/var/spack/repos/builtin/packages/llvm-lld/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/llvm/package.py b/var/spack/repos/builtin/packages/llvm/package.py new file mode 100644 index 0000000000..1d25d59e50 --- /dev/null +++ b/var/spack/repos/builtin/packages/llvm/package.py @@ -0,0 +1,273 @@ +############################################################################## +# Copyright (c) 2016, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by David Beckingsale, david@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * +import os, shutil + + +class Llvm(Package): + """The LLVM Project is a collection of modular and reusable compiler and + toolchain technologies. Despite its name, LLVM has little to do with + traditional virtual machines, though it does provide helpful libraries + that can be used to build them. The name "LLVM" itself is not an acronym; + it is the full name of the project. + """ + homepage = 'http://llvm.org/' + url = 'http://llvm.org/releases/3.7.1/llvm-3.7.1.src.tar.xz' + + version('3.0', 'a8e5f5f1c1adebae7b4a654c376a6005', url='http://llvm.org/releases/3.0/llvm-3.0.tar.gz') # currently required by mesa package + + variant('debug', default=False, description="Build a debug version of LLVM, this increases binary size by an order of magnitude, make sure you have 20-30gb of space available to build this") + variant('clang', default=True, description="Build the LLVM C/C++/Objective-C compiler frontend") + variant('lldb', default=True, description="Build the LLVM debugger") + variant('internal_unwind', default=True, description="Build the libcxxabi libunwind") + variant('polly', default=True, description="Build the LLVM polyhedral optimization plugin, only builds for 3.7.0+") + variant('libcxx', default=True, description="Build the LLVM C++ standard library") + variant('compiler-rt', default=True, description="Build the LLVM compiler runtime, including sanitizers") + variant('gold', default=True, description="Add support for LTO with the gold linker plugin") + + + # Build dependency + depends_on('cmake @2.8.12.2:') + + # Universal dependency + depends_on('python@2.7:2.8') # Seems not to support python 3.X.Y + + # lldb dependencies + depends_on('ncurses', when='+lldb') + depends_on('swig', when='+lldb') + depends_on('libedit', when='+lldb') + + # gold support + depends_on('binutils+gold', when='+gold') + + # polly plugin + depends_on('gmp', when='@:3.6.999 +polly') + depends_on('isl', when='@:3.6.999 +polly') + + base_url = 'http://llvm.org/releases/%%(version)s/%(pkg)s-%%(version)s.src.tar.xz' + llvm_url = base_url % { 'pkg' : 'llvm'} + + resources = { + 'compiler-rt' : { + 'url' : base_url % { 'pkg' : 'compiler-rt'}, + 'destination' : 'projects', + 'placement' : 'compiler-rt', + }, + 'openmp' : { + 'url' : base_url % { 'pkg' : 'openmp'}, + 'destination' : 'projects', + 'placement' : 'openmp', + }, + 'libcxx' : { + 'url' : base_url % { 'pkg' : 'libcxx'}, + 'destination' : 'projects', + 'placement' : 'libcxx', + }, + 'libcxxabi' : { + 'url' : base_url % { 'pkg' : 'libcxxabi'}, + 'destination' : 'projects', + 'placement' : 'libcxxabi', + }, + 'clang' : { + 'url' : base_url % { 'pkg' : 'cfe'}, + 'destination' : 'tools', + 'placement' : 'clang', + }, + 'clang-tools-extra' : { + 'url' : base_url % { 'pkg' : 'clang-tools-extra'}, + 'destination' : 'tools/clang/tools', + 'placement' : 'extra', + }, + 'lldb' : { + 'url' : base_url % { 'pkg' : 'lldb'}, + 'destination' : 'tools', + 'placement' : 'lldb', + }, + 'polly' : { + 'url' : base_url % { 'pkg' : 'polly'}, + 'destination' : 'tools', + 'placement' : 'polly', + }, + 'llvm-libunwind' : { + 'url' : base_url % { 'pkg' : 'libunwind'}, + 'destination' : 'projects', + 'placement' : 'libunwind', + }, + } + releases = [ + { + 'version' : 'trunk', + 'repo' : 'http://llvm.org/svn/llvm-project/llvm/trunk', + 'resources' : { + 'compiler-rt' : 'http://llvm.org/svn/llvm-project/compiler-rt/trunk', + 'openmp' : 'http://llvm.org/svn/llvm-project/openmp/trunk', + 'polly' : 'http://llvm.org/svn/llvm-project/polly/trunk', + 'libcxx' : 'http://llvm.org/svn/llvm-project/libcxx/trunk', + 'libcxxabi' : 'http://llvm.org/svn/llvm-project/libcxxabi/trunk', + 'clang' : 'http://llvm.org/svn/llvm-project/cfe/trunk', + 'clang-tools-extra' : 'http://llvm.org/svn/llvm-project/clang-tools-extra/trunk', + 'lldb' : 'http://llvm.org/svn/llvm-project/lldb/trunk', + 'llvm-libunwind' : 'http://llvm.org/svn/llvm-project/libunwind/trunk', + } + }, + { + 'version' : '3.8.0', + 'md5':'07a7a74f3c6bd65de4702bf941b511a0', + 'resources' : { + 'compiler-rt' : 'd6fcbe14352ffb708e4d1ac2e48bb025', + 'openmp' : '8fd7cc35d48051613cf1e750e9f22e40', + 'polly' : '1b3b20f52d34a4024e21a4ea7112caa7', + 'libcxx' : 'd6e0bdbbee39f7907ad74fd56d03b88a', + 'libcxxabi' : 'bbe6b4d72c7c5978550d370af529bcf7', + 'clang' : 'cc99e7019bb74e6459e80863606250c5', + 'clang-tools-extra' : 'c2344f50e0eea0b402f0092a80ddc036', + 'lldb' : 'a5da35ed9cc8c8817ee854e3dbfba00e', + 'llvm-libunwind' : '162ade468607f153cca12be90b5194fa', + } + }, + { + 'version' : '3.7.1', + 'md5':'bf8b3a2c79e61212c5409041dfdbd319', + 'resources' : { + 'compiler-rt' : '1c6975daf30bb3b0473b53c3a1a6ff01', + 'openmp' : 'b4ad08cda4e5c22e42b66062b140438e', + 'polly' : '3a2a7367002740881637f4d47bca4dc3', + 'libcxx' : 'f9c43fa552a10e14ff53b94d04bea140', + 'libcxxabi' : '52d925afac9f97e9dcac90745255c169', + 'clang' : '0acd026b5529164197563d135a8fd83e', + 'clang-tools-extra' : '5d49ff745037f061a7c86aeb6a24c3d2', + 'lldb' : 'a106d8a0d21fc84d76953822fbaf3398', + 'llvm-libunwind' : '814bd52c9247c5d04629658fbcb3ab8c', + } + }, + { + 'version' : '3.7.0', + 'md5':'b98b9495e5655a672d6cb83e1a180f8e', + 'resources' : { + 'compiler-rt' : '383c10affd513026f08936b5525523f5', + 'openmp' : 'f482c86fdead50ba246a1a2b0bbf206f', + 'polly' : '32f93ffc9cc7e042df22089761558f8b', + 'libcxx' : '46aa5175cbe1ad42d6e9c995968e56dd', + 'libcxxabi' : '5aa769e2fca79fa5335cfae8f6258772', + 'clang' : '8f9d27335e7331cf0a4711e952f21f01', + 'clang-tools-extra' : 'd5a87dacb65d981a427a536f6964642e', + 'lldb' : 'e5931740400d1dc3e7db4c7ba2ceff68', + 'llvm-libunwind' : '9a75392eb7eb8ed5c0840007e212baf5', + } + }, + { + 'version' : '3.6.2', + 'md5':'0c1ee3597d75280dee603bae9cbf5cc2', + 'resources' : { + 'compiler-rt' : 'e3bc4eb7ba8c39a6fe90d6c988927f3c', + 'openmp' : '65dd5863b9b270960a96817e9152b123', + 'libcxx' : '22214c90697636ef960a49aef7c1823a', + 'libcxxabi' : '17518e361e4e228f193dd91e8ef54ba2', + 'clang' : 'ff862793682f714bb7862325b9c06e20', + 'clang-tools-extra' : '3ebc1dc41659fcec3db1b47d81575e06', + 'lldb' : '51e5eb552f777b950bb0ff326e60d5f0', + } + }, + { + 'version' : '3.5.1', + 'md5':'2d3d8004f38852aa679e5945b8ce0b14', + 'resources' : { + 'compiler-rt' : 'd626cfb8a9712cb92b820798ab5bc1f8', + 'openmp' : '121ddb10167d7fc38b1f7e4b029cf059', + 'libcxx' : '406f09b1dab529f3f7879f4d548329d2', + 'libcxxabi' : 'b22c707e8d474a99865ad3c521c3d464', + 'clang' : '93f9532f8f7e6f1d8e5c1116907051cb', + 'clang-tools-extra' : 'f13f31ed3038acadc6fa63fef812a246', + 'lldb' : 'cc5ea8a414c62c33e760517f8929a204', + } + }, + ] + + for release in releases: + if release['version'] == 'trunk' : + version(release['version'], svn=release['repo']) + + for name, repo in release['resources'].items(): + resource(name=name, + svn=repo, + destination=resources[name]['destination'], + when='@%(version)s' % release, + placement=resources[name].get('placement', None)) + else: + version(release['version'], release['md5'], url=llvm_url % release) + + for name, md5 in release['resources'].items(): + resource(name=name, + url=resources[name]['url'] % release, + md5=md5, + destination=resources[name]['destination'], + when='@%(version)s' % release, + placement=resources[name].get('placement', None)) + + def install(self, spec, prefix): + env['CXXFLAGS'] = self.compiler.cxx11_flag + cmake_args = [ arg for arg in std_cmake_args if 'BUILD_TYPE' not in arg ] + + build_type = 'RelWithDebInfo' if '+debug' in spec else 'Release' + cmake_args.extend([ + '..', + '-DCMAKE_BUILD_TYPE=' + build_type, + '-DLLVM_REQUIRES_RTTI:BOOL=ON', + '-DCLANG_DEFAULT_OPENMP_RUNTIME:STRING=libomp', + '-DPYTHON_EXECUTABLE:PATH=%s/bin/python' % spec['python'].prefix ]) + + if '+gold' in spec: + cmake_args.append('-DLLVM_BINUTILS_INCDIR=' + os.path.join( spec['binutils'].prefix, 'include')) + if '+polly' in spec: + cmake_args.append('-DLINK_POLLY_INTO_TOOLS:Bool=ON') + else: + cmake_args.append('-DLLVM_EXTERNAL_POLLY_BUILD:Bool=OFF') + + if '+clang' not in spec: + cmake_args.append('-DLLVM_EXTERNAL_CLANG_BUILD:Bool=OFF') + if '+lldb' not in spec: + cmake_args.append('-DLLVM_EXTERNAL_LLDB_BUILD:Bool=OFF') + if '+internal_unwind' not in spec: + cmake_args.append('-DLLVM_EXTERNAL_LIBUNWIND_BUILD:Bool=OFF') + if '+libcxx' not in spec: + cmake_args.append('-DLLVM_EXTERNAL_LIBCXX_BUILD:Bool=OFF') + cmake_args.append('-DLLVM_EXTERNAL_LIBCXXABI_BUILD:Bool=OFF') + if '+compiler-rt' not in spec: + cmake_args.append('-DLLVM_EXTERNAL_COMPILER_RT_BUILD:Bool=OFF') + + if '+clang' not in spec: + if '+clang_extra' in spec: + raise SpackException('The clang_extra variant requires the clang variant to be selected') + if '+lldb' in spec: + raise SpackException('The lldb variant requires the clang variant to be selected') + + with working_dir('spack-build', create=True): + cmake(*cmake_args) + make() + make("install") + query_path = os.path.join('bin', 'clang-query') + # Manually install clang-query, because llvm doesn't... + if os.path.exists(query_path): + shutil.copy(query_path, os.path.join(prefix, 'bin')) diff --git a/var/spack/packages/lmdb/package.py b/var/spack/repos/builtin/packages/lmdb/package.py index 875b8100c5..875b8100c5 100644 --- a/var/spack/packages/lmdb/package.py +++ b/var/spack/repos/builtin/packages/lmdb/package.py diff --git a/var/spack/repos/builtin/packages/lmod/package.py b/var/spack/repos/builtin/packages/lmod/package.py new file mode 100644 index 0000000000..d642594f92 --- /dev/null +++ b/var/spack/repos/builtin/packages/lmod/package.py @@ -0,0 +1,26 @@ +from spack import * +import os + +class Lmod(Package): + """ + Lmod is a Lua based module system that easily handles the MODULEPATH + Hierarchical problem. Environment Modules provide a convenient way to + dynamically change the users' environment through modulefiles. This + includes easily adding or removing directories to the PATH environment + variable. Modulefiles for Library packages provide environment variables + that specify where the library and header files can be found. + """ + homepage = "https://www.tacc.utexas.edu/research-development/tacc-projects/lmod" + url = "http://sourceforge.net/projects/lmod/files/Lmod-6.0.1.tar.bz2/download" + + version('6.0.1', '91abf52fe5033bd419ffe2842ebe7af9') + + depends_on("lua@5.2:") + + def install(self, spec, prefix): + # Add our lua to PATH + os.environ['PATH'] = spec['lua'].prefix.bin + ';' + os.environ['PATH'] + + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/lua/package.py b/var/spack/repos/builtin/packages/lua/package.py index 57c443cc2d..ca8cfc5365 100644 --- a/var/spack/packages/lua/package.py +++ b/var/spack/repos/builtin/packages/lua/package.py @@ -6,6 +6,7 @@ class Lua(Package): homepage = "http://www.lua.org" url = "http://www.lua.org/ftp/lua-5.1.5.tar.gz" + version('5.3.2', '33278c2ab5ee3c1a875be8d55c1ca2a1') version('5.3.1', '797adacada8d85761c079390ff1d9961') version('5.3.0', 'a1b0a7e92d0c85bbff7a8d27bf29f8af') version('5.2.4', '913fdb32207046b273fdb17aad70be13') @@ -18,9 +19,16 @@ class Lua(Package): version('5.1.3', 'a70a8dfaa150e047866dc01a46272599') depends_on('ncurses') + depends_on('readline') def install(self, spec, prefix): + if spec.satisfies("=darwin-i686") or spec.satisfies("=darwin-x86_64"): + target = 'macosx' + else: + target = 'linux' make('INSTALL_TOP=%s' % prefix, - 'MYLDFLAGS=-L%s/lib' % spec['ncurses'].prefix, - 'linux', + 'MYLDFLAGS=-L%s -lncurses' % spec['ncurses'].prefix.lib, + target) + make('INSTALL_TOP=%s' % prefix, + 'MYLDFLAGS=-L%s -lncurses' % spec['ncurses'].prefix.lib, 'install') diff --git a/var/spack/packages/lwgrp/package.py b/var/spack/repos/builtin/packages/lwgrp/package.py index 5963382b92..5963382b92 100644 --- a/var/spack/packages/lwgrp/package.py +++ b/var/spack/repos/builtin/packages/lwgrp/package.py diff --git a/var/spack/packages/lwm2/package.py b/var/spack/repos/builtin/packages/lwm2/package.py index 31afff8816..31afff8816 100644 --- a/var/spack/packages/lwm2/package.py +++ b/var/spack/repos/builtin/packages/lwm2/package.py diff --git a/var/spack/repos/builtin/packages/m4/package.py b/var/spack/repos/builtin/packages/m4/package.py new file mode 100644 index 0000000000..a4b9dcb623 --- /dev/null +++ b/var/spack/repos/builtin/packages/m4/package.py @@ -0,0 +1,25 @@ +from spack import * + +class M4(Package): + """GNU M4 is an implementation of the traditional Unix macro processor.""" + homepage = "https://www.gnu.org/software/m4/m4.html" + url = "ftp://ftp.gnu.org/gnu/m4/m4-1.4.17.tar.gz" + + version('1.4.17', 'a5e9954b1dae036762f7b13673a2cf76') + + patch('pgi.patch', when='@1.4.17') + + variant('sigsegv', default=True, description="Build the libsigsegv dependency") + + depends_on('libsigsegv', when='+sigsegv') + + def install(self, spec, prefix): + configure_args = [] + if 'libsigsegv' in spec: + configure_args.append('--with-libsigsegv-prefix=%s' % spec['libsigsegv'].prefix) + else: + configure_args.append('--without-libsigsegv-prefix') + + configure("--prefix=%s" % prefix, *configure_args) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/m4/pgi.patch b/var/spack/repos/builtin/packages/m4/pgi.patch new file mode 100644 index 0000000000..1ad63e2cf1 --- /dev/null +++ b/var/spack/repos/builtin/packages/m4/pgi.patch @@ -0,0 +1,10 @@ +--- a/lib/config.hin ++++ b/lib/config.hin +@@ -1510,6 +1510,7 @@ + ? defined __GNUC_STDC_INLINE__ && __GNUC_STDC_INLINE__ \ + : (199901L <= __STDC_VERSION__ \ + && !defined __HP_cc \ ++ && !defined __PGI \ + && !(defined __SUNPRO_C && __STDC__))) \ + && !defined _GL_EXTERN_INLINE_APPLE_BUG) + # define _GL_INLINE inline diff --git a/var/spack/packages/matio/package.py b/var/spack/repos/builtin/packages/matio/package.py index 12cfb80926..12cfb80926 100644 --- a/var/spack/packages/matio/package.py +++ b/var/spack/repos/builtin/packages/matio/package.py diff --git a/var/spack/repos/builtin/packages/mbedtls/package.py b/var/spack/repos/builtin/packages/mbedtls/package.py new file mode 100644 index 0000000000..3da00cf417 --- /dev/null +++ b/var/spack/repos/builtin/packages/mbedtls/package.py @@ -0,0 +1,22 @@ +from spack import * + +class Mbedtls(Package): + """ + mbed TLS (formerly known as PolarSSL) makes it trivially easy for developers to include cryptographic and SSL/TLS capabilities in their (embedded) products, facilitating this functionality with a minimal coding footprint. + """ + homepage = "https://tls.mbed.org" + url = "https://github.com/ARMmbed/mbedtls/archive/mbedtls-2.2.1.tar.gz" + + version('2.2.1' , '73a38f96898d6d03e32f55dd9f9a67be') + version('2.2.0' , 'eaf4586c1ef93ae872e606b6c1203942') + version('2.1.4' , '40cdf67b6c6d92c9cbcfd552d39ea3ae') + version('2.1.3' , '7eb4cf1dfa68578a2c8dbd0b6fa752dd') + version('1.3.16', '4144d7320c691f721aeb9e67a1bc38e0') + + depends_on('cmake') + + def install(self, spec, prefix): + cmake('.', *std_cmake_args) + + make() + make("install") diff --git a/var/spack/packages/memaxes/package.py b/var/spack/repos/builtin/packages/memaxes/package.py index 76d5d3f831..4b1da558a2 100644 --- a/var/spack/packages/memaxes/package.py +++ b/var/spack/repos/builtin/packages/memaxes/package.py @@ -3,10 +3,10 @@ from spack import * class Memaxes(Package): """MemAxes is a visualizer for sampled memory trace data.""" - homepage = "https://github.com/scalability-llnl/MemAxes" + homepage = "https://github.com/llnl/MemAxes" version('0.5', '5874f3fda9fd2d313c0ff9684f915ab5', - url='https://github.com/scalability-llnl/MemAxes/archive/v0.5.tar.gz') + url='https://github.com/llnl/MemAxes/archive/v0.5.tar.gz') depends_on("cmake@2.8.9:") depends_on("qt@5:") @@ -16,4 +16,3 @@ class Memaxes(Package): cmake('..', *std_cmake_args) make() make("install") - diff --git a/var/spack/packages/mesa/package.py b/var/spack/repos/builtin/packages/mesa/package.py index 2a04a8fd51..62da8c993b 100644 --- a/var/spack/packages/mesa/package.py +++ b/var/spack/repos/builtin/packages/mesa/package.py @@ -14,7 +14,7 @@ class Mesa(Package): # mesa 7.x, 8.x, 9.x depends_on("libdrm@2.4.33") depends_on("llvm@3.0") - depends_on("libxml2") + depends_on("libxml2+python") # patch("llvm-fixes.patch") # using newer llvm diff --git a/var/spack/repos/builtin/packages/metis/install_gklib_defs_rename.patch b/var/spack/repos/builtin/packages/metis/install_gklib_defs_rename.patch new file mode 100644 index 0000000000..b182b167b9 --- /dev/null +++ b/var/spack/repos/builtin/packages/metis/install_gklib_defs_rename.patch @@ -0,0 +1,22 @@ +# HG changeset patch +# User Sean Farley <sean@mcs.anl.gov> +# Date 1332269671 18000 +# Tue Mar 20 13:54:31 2012 -0500 +# Node ID b95c0c2e1d8bf8e3273f7d45e856f0c0127d998e +# Parent 88049269953c67c3fdcc4309bf901508a875f0dc +cmake: add gklib headers to install into include + +diff -r 88049269953c -r b95c0c2e1d8b libmetis/CMakeLists.txt +Index: libmetis/CMakeLists.txt +=================================================================== +--- a/libmetis/CMakeLists.txt Tue Mar 20 13:54:29 2012 -0500 ++++ b/libmetis/CMakeLists.txt Tue Mar 20 13:54:31 2012 -0500 +@@ -12,6 +12,8 @@ endif() + if(METIS_INSTALL) + install(TARGETS metis + LIBRARY DESTINATION lib + RUNTIME DESTINATION lib + ARCHIVE DESTINATION lib) ++ install(FILES gklib_defs.h DESTINATION include) ++ install(FILES gklib_rename.h DESTINATION include) + endif() diff --git a/var/spack/repos/builtin/packages/metis/package.py b/var/spack/repos/builtin/packages/metis/package.py new file mode 100644 index 0000000000..b05f23a3dc --- /dev/null +++ b/var/spack/repos/builtin/packages/metis/package.py @@ -0,0 +1,187 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * +import glob, sys, os + +class Metis(Package): + """ + METIS is a set of serial programs for partitioning graphs, partitioning finite element meshes, and producing fill + reducing orderings for sparse matrices. The algorithms implemented in METIS are based on the multilevel + recursive-bisection, multilevel k-way, and multi-constraint partitioning schemes. + """ + + homepage = 'http://glaros.dtc.umn.edu/gkhome/metis/metis/overview' + url = "http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/metis-5.1.0.tar.gz" + + version('5.1.0', '5465e67079419a69e0116de24fce58fe', + url='http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/metis-5.1.0.tar.gz') + version('4.0.3', '5efa35de80703c1b2c4d0de080fafbcf4e0d363a21149a1ad2f96e0144841a55', + url='http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/OLD/metis-4.0.3.tar.gz') + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds the library in debug mode') + variant('gdb', default=False, description='Enables gdb support') + + variant('idx64', default=False, description='Use int64_t as default index type') + variant('double', default=False, description='Use double precision floating point types') + + depends_on('cmake @2.8:', when='@5:') # build-time dependency + depends_on('gdb', when='+gdb') + + patch('install_gklib_defs_rename.patch', when='@5:') + + + @when('@4:4.0.3') + def install(self, spec, prefix): + + if '+gdb' in spec: + raise InstallError('gdb support not implemented in METIS 4!') + if '+idx64' in spec: + raise InstallError('idx64 option not implemented in METIS 4!') + if '+double' in spec: + raise InstallError('double option not implemented for METIS 4!') + + options = ['COPTIONS=-fPIC'] + if '+debug' in spec: + options.append('OPTFLAGS=-g -O0') + make(*options) + + mkdir(prefix.bin) + for x in ('pmetis', 'kmetis', 'oemetis', 'onmetis', 'partnmesh', + 'partdmesh', 'mesh2nodal', 'mesh2dual', 'graphchk'): + install(x, prefix.bin) + + mkdir(prefix.lib) + install('libmetis.a', prefix.lib) + + mkdir(prefix.include) + for h in glob.glob(join_path('Lib', '*.h')): + install(h, prefix.include) + + mkdir(prefix.share) + for f in (join_path(*p) + for p in (('Programs', 'io.c'), + ('Test','mtest.c'), + ('Graphs','4elt.graph'), + ('Graphs', 'metis.mesh'), + ('Graphs', 'test.mgraph'))): + install(f, prefix.share) + + if '+shared' in spec: + if sys.platform == 'darwin': + lib_dsuffix = 'dylib' + load_flag = '-Wl,-all_load' + no_load_flag = '' + else: + lib_dsuffix = 'so' + load_flag = '-Wl,-whole-archive' + no_load_flag = '-Wl,-no-whole-archive' + + os.system(spack_cc + ' -fPIC -shared ' + load_flag + + ' libmetis.a ' + no_load_flag + ' -o libmetis.' + + lib_dsuffix) + install('libmetis.' + lib_dsuffix, prefix.lib) + + # Set up and run tests on installation + symlink(join_path(prefix.share, 'io.c'), 'io.c') + symlink(join_path(prefix.share, 'mtest.c'), 'mtest.c') + os.system(spack_cc + ' -I%s' % prefix.include + ' -c io.c') + os.system(spack_cc + ' -I%s' % prefix.include + + ' -L%s' % prefix.lib + ' -lmetis mtest.c io.o -o mtest') + _4eltgraph = join_path(prefix.share, '4elt.graph') + test_mgraph = join_path(prefix.share, 'test.mgraph') + metis_mesh = join_path(prefix.share, 'metis.mesh') + kmetis = join_path(prefix.bin, 'kmetis') + os.system('./mtest ' + _4eltgraph) + os.system(kmetis + ' ' + _4eltgraph + ' 40') + os.system(join_path(prefix.bin, 'onmetis') + ' ' + _4eltgraph) + os.system(join_path(prefix.bin, 'pmetis') + ' ' + test_mgraph + ' 2') + os.system(kmetis + ' ' + test_mgraph + ' 2') + os.system(kmetis + ' ' + test_mgraph + ' 5') + os.system(join_path(prefix.bin, 'partnmesh') + metis_mesh + ' 10') + os.system(join_path(prefix.bin, 'partdmesh') + metis_mesh + ' 10') + os.system(join_path(prefix.bin, 'mesh2dual') + metis_mesh) + + + @when('@5:') + def install(self, spec, prefix): + + options = [] + options.extend(std_cmake_args) + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + + options.append('-DGKLIB_PATH:PATH={metis_source}/GKlib'.format(metis_source=source_directory)) + options.append('-DCMAKE_INSTALL_NAME_DIR:PATH=%s/lib' % prefix) + + if '+shared' in spec: + options.append('-DSHARED:BOOL=ON') + + if '+debug' in spec: + options.extend(['-DDEBUG:BOOL=ON', + '-DCMAKE_BUILD_TYPE:STRING=Debug']) + + if '+gdb' in spec: + options.append('-DGDB:BOOL=ON') + + metis_header = join_path(source_directory, 'include', 'metis.h') + + if '+idx64' in spec: + filter_file('IDXTYPEWIDTH 32', 'IDXTYPEWIDTH 64', metis_header) + + if '+double' in spec: + filter_file('REALTYPEWIDTH 32', 'REALTYPEWIDTH 64', metis_header) + + # Make clang 7.3 happy. + # Prevents "ld: section __DATA/__thread_bss extends beyond end of file" + # See upstream LLVM issue https://llvm.org/bugs/show_bug.cgi?id=27059 + # Adopted from https://github.com/Homebrew/homebrew-science/blob/master/metis.rb + if spec.satisfies('%clang@7.3.0'): + filter_file('#define MAX_JBUFS 128', '#define MAX_JBUFS 24', join_path(source_directory, 'GKlib', 'error.c')) + + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make("install") + # now run some tests: + for f in ["4elt", "copter2", "mdual"]: + graph = join_path(source_directory,'graphs','%s.graph' % f) + Executable(join_path(prefix.bin,'graphchk'))(graph) + Executable(join_path(prefix.bin,'gpmetis'))(graph,'2') + Executable(join_path(prefix.bin,'ndmetis'))(graph) + + graph = join_path(source_directory,'graphs','test.mgraph') + Executable(join_path(prefix.bin,'gpmetis'))(graph,'2') + graph = join_path(source_directory,'graphs','metis.mesh') + Executable(join_path(prefix.bin,'mpmetis'))(graph,'2') + + # install GKlib headers, which will be needed for ParMETIS + GKlib_dist = join_path(prefix.include,'GKlib') + mkdirp(GKlib_dist) + fs = glob.glob(join_path(source_directory,'GKlib',"*.h")) + for f in fs: + install(f, GKlib_dist) diff --git a/var/spack/packages/mpc/package.py b/var/spack/repos/builtin/packages/mpc/package.py index 6fbfca3007..108fec678f 100644 --- a/var/spack/packages/mpc/package.py +++ b/var/spack/repos/builtin/packages/mpc/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -31,11 +31,18 @@ class Mpc(Package): homepage = "http://www.multiprecision.org" url = "ftp://ftp.gnu.org/gnu/mpc/mpc-1.0.2.tar.gz" + version('1.0.3', 'd6a1d5f8ddea3abd2cc3e98f58352d26') version('1.0.2', '68fadff3358fb3e7976c7a398a0af4c3') depends_on("gmp") depends_on("mpfr") + def url_for_version(self, version): + if version < Version("1.0.1"): + return "http://www.multiprecision.org/mpc/download/mpc-%s.tar.gz" % version + else: + return "ftp://ftp.gnu.org/gnu/mpc/mpc-%s.tar.gz" % version + def install(self, spec, prefix): configure("--prefix=%s" % prefix) make() diff --git a/var/spack/packages/mpe2/mpe2.patch b/var/spack/repos/builtin/packages/mpe2/mpe2.patch index 3ade1f04f4..3ade1f04f4 100644 --- a/var/spack/packages/mpe2/mpe2.patch +++ b/var/spack/repos/builtin/packages/mpe2/mpe2.patch diff --git a/var/spack/packages/mpe2/package.py b/var/spack/repos/builtin/packages/mpe2/package.py index 27295172cc..27295172cc 100644 --- a/var/spack/packages/mpe2/package.py +++ b/var/spack/repos/builtin/packages/mpe2/package.py diff --git a/var/spack/packages/mpfr/package.py b/var/spack/repos/builtin/packages/mpfr/package.py index 9c744a22df..7e6e7d5bb6 100644 --- a/var/spack/packages/mpfr/package.py +++ b/var/spack/repos/builtin/packages/mpfr/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -28,10 +28,11 @@ class Mpfr(Package): """The MPFR library is a C library for multiple-precision floating-point computations with correct rounding.""" homepage = "http://www.mpfr.org" - url = "http://www.mpfr.org/mpfr-current/mpfr-3.1.3.tar.bz2" + url = "https://gforge.inria.fr/frs/download.php/latestfile/159/mpfr-3.1.2.tar.bz2" + version('3.1.4', 'b8a2f6b0e68bef46e53da2ac439e1cf4') version('3.1.3', '5fdfa3cfa5c86514ee4a241a1affa138') - # version('3.1.2', 'ee2c3ac63bf0c2359bf08fc3ee094c19') + version('3.1.2', 'ee2c3ac63bf0c2359bf08fc3ee094c19') depends_on('gmp') diff --git a/var/spack/packages/mpibash/mpibash-4.3.patch b/var/spack/repos/builtin/packages/mpibash/mpibash-4.3.patch index 17e285b0bf..17e285b0bf 100644 --- a/var/spack/packages/mpibash/mpibash-4.3.patch +++ b/var/spack/repos/builtin/packages/mpibash/mpibash-4.3.patch diff --git a/var/spack/packages/mpibash/package.py b/var/spack/repos/builtin/packages/mpibash/package.py index d0f6dafed6..d0f6dafed6 100644 --- a/var/spack/packages/mpibash/package.py +++ b/var/spack/repos/builtin/packages/mpibash/package.py diff --git a/var/spack/packages/mpich/package.py b/var/spack/repos/builtin/packages/mpich/package.py index d48bf878f6..b317ec6651 100644 --- a/var/spack/packages/mpich/package.py +++ b/var/spack/repos/builtin/packages/mpich/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify @@ -25,6 +25,7 @@ from spack import * import os + class Mpich(Package): """MPICH is a high performance and widely portable implementation of the Message Passing Interface (MPI) standard.""" @@ -33,28 +34,41 @@ class Mpich(Package): list_url = "http://www.mpich.org/static/downloads/" list_depth = 2 + version('3.2', 'f414cfa77099cd1fa1a5ae4e22db508a') version('3.1.4', '2ab544607986486562e076b83937bba2') version('3.1.3', '93cb17f91ac758cbf9174ecb03563778') version('3.1.2', '7fbf4b81dcb74b07ae85939d1ceee7f1') version('3.1.1', '40dc408b1e03cc36d80209baaa2d32b7') - version('3.1', '5643dd176499bfb7d25079aaff25f2ec') + version('3.1', '5643dd176499bfb7d25079aaff25f2ec') version('3.0.4', '9c5d5d4fe1e17dd12153f40bc5b6dbc0') + variant('verbs', default=False, description='Build support for OpenFabrics verbs.') + provides('mpi@:3.0', when='@3:') provides('mpi@:1.3', when='@1:') - def setup_dependent_environment(self, module, spec, dep_spec): - """For dependencies, make mpicc's use spack wrapper.""" - os.environ['MPICH_CC'] = 'cc' - os.environ['MPICH_CXX'] = 'c++' - os.environ['MPICH_F77'] = 'f77' - os.environ['MPICH_F90'] = 'f90' + def setup_dependent_environment(self, spack_env, run_env, dependent_spec): + spack_env.set('MPICH_CC', spack_cc) + spack_env.set('MPICH_CXX', spack_cxx) + spack_env.set('MPICH_F77', spack_f77) + spack_env.set('MPICH_F90', spack_fc) + spack_env.set('MPICH_FC', spack_fc) + def setup_dependent_package(self, module, dep_spec): + """For dependencies, make mpicc's use spack wrapper.""" + # FIXME : is this necessary ? Shouldn't this be part of a contract with MPI providers? + module.mpicc = join_path(self.prefix.bin, 'mpicc') def install(self, spec, prefix): config_args = ["--prefix=" + prefix, "--enable-shared"] + # Variants + if '+verbs' in spec: + config_args.append("--with-ibverbs") + else: + config_args.append("--without-ibverbs") + # TODO: Spack should make it so that you can't actually find # these compilers if they're "disabled" for the current # compiler configuration. @@ -64,6 +78,9 @@ class Mpich(Package): if not self.compiler.fc: config_args.append("--disable-fc") + if not self.compiler.fc and not self.compiler.f77: + config_args.append("--disable-fortran") + configure(*config_args) make() make("install") @@ -85,8 +102,13 @@ class Mpich(Package): mpif77 = os.path.join(bin, 'mpif77') mpif90 = os.path.join(bin, 'mpif90') + spack_cc = os.environ['CC'] + spack_cxx = os.environ['CXX'] + spack_f77 = os.environ['F77'] + spack_fc = os.environ['FC'] + kwargs = { 'ignore_absent' : True, 'backup' : False, 'string' : True } - filter_file('CC="cc"', 'CC="%s"' % self.compiler.cc, mpicc, **kwargs) - filter_file('CXX="c++"', 'CXX="%s"' % self.compiler.cxx, mpicxx, **kwargs) - filter_file('F77="f77"', 'F77="%s"' % self.compiler.f77, mpif77, **kwargs) - filter_file('FC="f90"', 'FC="%s"' % self.compiler.fc, mpif90, **kwargs) + filter_file('CC="%s"' % spack_cc , 'CC="%s"' % self.compiler.cc, mpicc, **kwargs) + filter_file('CXX="%s"'% spack_cxx, 'CXX="%s"' % self.compiler.cxx, mpicxx, **kwargs) + filter_file('F77="%s"'% spack_f77, 'F77="%s"' % self.compiler.f77, mpif77, **kwargs) + filter_file('FC="%s"' % spack_fc , 'FC="%s"' % self.compiler.fc, mpif90, **kwargs) diff --git a/var/spack/packages/mpileaks/package.py b/var/spack/repos/builtin/packages/mpileaks/package.py index 4ef866588c..661d9d66bf 100644 --- a/var/spack/packages/mpileaks/package.py +++ b/var/spack/repos/builtin/packages/mpileaks/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/mrnet/krell-5.0.1.patch b/var/spack/repos/builtin/packages/mrnet/krell-5.0.1.patch new file mode 100644 index 0000000000..53294fbbc6 --- /dev/null +++ b/var/spack/repos/builtin/packages/mrnet/krell-5.0.1.patch @@ -0,0 +1,154 @@ +--- mrnet-3093918/include/mrnet/Types.h 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/include/mrnet/Types.h 2016-03-16 12:29:33.986132302 -0700 +@@ -23,7 +23,7 @@ + #ifndef MRNET_VERSION_MAJOR + # define MRNET_VERSION_MAJOR 5 + # define MRNET_VERSION_MINOR 0 +-# define MRNET_VERSION_REV 0 ++# define MRNET_VERSION_REV 1 + #endif + + namespace MRN +--- mrnet-3093918/include/mrnet_lightweight/Types.h 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/include/mrnet_lightweight/Types.h 2016-03-16 12:29:33.987132302 -0700 +@@ -30,7 +30,7 @@ + #ifndef MRNET_VERSION_MAJOR + #define MRNET_VERSION_MAJOR 5 + #define MRNET_VERSION_MINOR 0 +-#define MRNET_VERSION_REV 0 ++#define MRNET_VERSION_REV 1 + #endif + void get_Version(int* major, + int* minor, +--- mrnet-3093918/src/lightweight/SerialGraph.c 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/src/lightweight/SerialGraph.c 2016-03-16 12:29:33.995132302 -0700 +@@ -59,7 +59,7 @@ + + mrn_dbg_func_begin(); + +- sprintf(hoststr, "[%s:%hu:%u:", ihostname, iport, irank); ++ sprintf(hoststr, "[%s:%05hu:%u:", ihostname, iport, irank); + mrn_dbg(5, mrn_printf(FLF, stderr, "looking for SubTreeRoot: '%s'\n", hoststr)); + + byte_array = sg->byte_array; +@@ -110,7 +110,7 @@ + + mrn_dbg_func_begin(); + +- len = (size_t) sprintf(hoststr, "[%s:%hu:%u:0]", ihostname, iport, irank); ++ len = (size_t) sprintf(hoststr, "[%s:%05hu:%u:0]", ihostname, iport, irank); + mrn_dbg(5, mrn_printf(FLF, stderr, "adding sub tree leaf: %s\n", hoststr)); + + len += strlen(sg->byte_array) + 1; +@@ -139,7 +139,7 @@ + + mrn_dbg_func_begin(); + +- len = (size_t) sprintf(hoststr, "[%s:%hu:%u:1", ihostname, iport, irank); ++ len = (size_t) sprintf(hoststr, "[%s:%05hu:%u:1", ihostname, iport, irank); + mrn_dbg(5, mrn_printf(FLF, stderr, "adding sub tree root: %s\n", hoststr)); + + len += strlen(sg->byte_array) + 1; +@@ -360,8 +360,8 @@ + char old_hoststr[256]; + char new_hoststr[256]; + +- sprintf(old_hoststr, "[%s:%hu:%u:", hostname, UnknownPort, irank); +- sprintf(new_hoststr, "[%s:%hu:%u:", hostname, port, irank); ++ sprintf(old_hoststr, "[%s:%05hu:%u:", hostname, UnknownPort, irank); ++ sprintf(new_hoststr, "[%s:%05hu:%u:", hostname, port, irank); + + old_byte_array = sg->byte_array; + new_byte_array = (char*) malloc( strlen(old_byte_array) + 10 ); +--- mrnet-3093918/xplat/src/lightweight/SocketUtils.c 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/xplat/src/lightweight/SocketUtils.c 2016-03-16 12:29:34.006132303 -0700 +@@ -15,7 +15,7 @@ + #else + const XPlat_Socket InvalidSocket = INVALID_SOCKET; + #endif +-const XPlat_Port InvalidPort = (XPlat_Port)-1; ++const XPlat_Port InvalidPort = (XPlat_Port)0; + + static bool_t SetTcpNoDelay( XPlat_Socket sock ) + { +--- mrnet-3093918/conf/configure.in 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/conf/configure.in 2016-03-16 12:45:54.573196781 -0700 +@@ -107,6 +107,18 @@ + AC_SUBST(PURIFY) + + ++AC_ARG_WITH(expat, ++ [AS_HELP_STRING([--with-expat=PATH], ++ [Absolute path to installation of EXPAT libraries (note: specify the path to the directory containing "include" and "lib" sub-directories)])], ++ [EXPAT_DIR="${withval}"], ++ [EXPAT_DIR=""]) ++ ++if test "x$EXPAT_DIR" = "x" ; then ++ EXPAT_LIB="" ++else ++ EXPAT_LIB="-L$EXPAT_DIR/lib" ++fi ++ + dnl === Checks for header files. + AC_CHECK_HEADERS([assert.h errno.h fcntl.h limits.h netdb.h signal.h stddef.h stdlib.h stdio.h string.h unistd.h arpa/inet.h netinet/in.h sys/ioctl.h sys/socket.h sys/sockio.h sys/time.h]) + AC_HEADER_STDBOOL +@@ -432,7 +444,7 @@ + CRAYXT_ATH_LIBS_SO="$CRAYXT_ATH_LIBS -lalps" + CRAYXT_ATH_LIBS="$CRAYXT_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc -Wl,-Bdynamic" + CRAYXE_ATH_LIBS_SO="$CRAYXE_ATH_LIBS -lalps" +- CRAYXE_ATH_LIBS="$CRAYXE_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc-epi -lexpat -Wl,-Bdynamic" ++ CRAYXE_ATH_LIBS="$CRAYXE_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc-epi $EXPAT_LIB -lexpat -Wl,-Bdynamic" + + AC_CHECK_LIB( [alps], [alps_launch_tool_helper], + [HAVE_ATH_LIBS="yes"; EXTRA_LIBS="$CRAYXT_ATH_LIBS $EXTRA_LIBS"; EXTRA_LIBS_SO="$CRAYXT_ATH_LIBS_SO $EXTRA_LIBS_SO"], +--- mrnet-3093918/configure 2015-12-10 09:32:24.000000000 -0800 ++++ mrnet_top_of_tree/configure 2016-03-16 13:47:20.386439143 -0700 +@@ -742,6 +742,7 @@ + enable_debug + enable_ltwt_threadsafe + with_purify ++with_expat + ' + ac_precious_vars='build_alias + host_alias +@@ -1399,6 +1400,9 @@ + containing "include" and "lib" sub-directories) + --with-launchmon=PATH Absolute path to installation of LaunchMON + --with-purify Use purify for memory debugging ++ --with-expat=PATH Absolute path to installation of EXPAT libraries ++ (note: specify the path to the directory containing ++ "include" and "lib" sub-directories) + + Some influential environment variables: + CC C compiler command +@@ -3541,6 +3545,21 @@ + + + ++# Check whether --with-expat was given. ++if test "${with_expat+set}" = set; then : ++ withval=$with_expat; EXPAT_DIR="${withval}" ++else ++ EXPAT_DIR="" ++fi ++ ++ ++if test "x$EXPAT_DIR" = "x" ; then ++ EXPAT_LIB="" ++else ++ EXPAT_LIB="-L$EXPAT_DIR/lib" ++fi ++ ++ + ac_ext=cpp + ac_cpp='$CXXCPP $CPPFLAGS' + ac_compile='$CXX -c $CXXFLAGS $CPPFLAGS conftest.$ac_ext >&5' +@@ -5473,7 +5492,7 @@ + CRAYXT_ATH_LIBS_SO="$CRAYXT_ATH_LIBS -lalps" + CRAYXT_ATH_LIBS="$CRAYXT_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc -Wl,-Bdynamic" + CRAYXE_ATH_LIBS_SO="$CRAYXE_ATH_LIBS -lalps" +- CRAYXE_ATH_LIBS="$CRAYXE_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc-epi -lexpat -Wl,-Bdynamic" ++ CRAYXE_ATH_LIBS="$CRAYXE_ATH_LIBS -Wl,-Bstatic -lalps -lxmlrpc-epi $EXPAT_LIB -lexpat -Wl,-Bdynamic" + + { $as_echo "$as_me:${as_lineno-$LINENO}: checking for alps_launch_tool_helper in -lalps" >&5 + $as_echo_n "checking for alps_launch_tool_helper in -lalps... " >&6; } diff --git a/var/spack/repos/builtin/packages/mrnet/package.py b/var/spack/repos/builtin/packages/mrnet/package.py new file mode 100644 index 0000000000..a3abb71285 --- /dev/null +++ b/var/spack/repos/builtin/packages/mrnet/package.py @@ -0,0 +1,32 @@ +from spack import * + +class Mrnet(Package): + """The MRNet Multi-Cast Reduction Network.""" + homepage = "http://paradyn.org/mrnet" + url = "ftp://ftp.cs.wisc.edu/paradyn/mrnet/mrnet_5.0.1.tar.gz" + list_url = "http://ftp.cs.wisc.edu/paradyn/mrnet" + + version('5.0.1', '17f65738cf1b9f9b95647ff85f69ecdd') + version('4.1.0', '5a248298b395b329e2371bf25366115c') + version('4.0.0', 'd00301c078cba57ef68613be32ceea2f') + + # Add a patch that brings mrnet-5.0.1 up to date with the current development tree + # The development tree contains fixes needed for the krell based tools + variant('krellpatch', default=False, description="Build MRNet with krell openspeedshop based patch.") + patch('krell-5.0.1.patch', when='@5.0.1+krellpatch') + + variant('lwthreads', default=False, description="Also build the MRNet LW threadsafe libraries") + parallel = False + + depends_on("boost") + + def install(self, spec, prefix): + # Build the MRNet LW thread safe libraries when the krelloptions variant is present + if '+lwthreads' in spec: + configure("--prefix=%s" %prefix, "--enable-shared", "--enable-ltwt-threadsafe") + else: + configure("--prefix=%s" %prefix, "--enable-shared") + + make() + make("install") + diff --git a/var/spack/repos/builtin/packages/mumps/Makefile.inc b/var/spack/repos/builtin/packages/mumps/Makefile.inc new file mode 100644 index 0000000000..22d8f5518a --- /dev/null +++ b/var/spack/repos/builtin/packages/mumps/Makefile.inc @@ -0,0 +1,35 @@ +LPORDDIR = $(topdir)/PORD/lib/ +IPORD = -I$(topdir)/PORD/include/ +LPORD = -L$(LPORDDIR) -lpord + +ORDERINGSC = $(ORDERINGSF) +LORDERINGS = $(LMETIS) $(LPORD) $(LSCOTCH) +IORDERINGSF = $(ISCOTCH) +IORDERINGSC = $(IMETIS) $(IPORD) $(ISCOTCH) + +PLAT = +OUTC = -o +OUTF = -o +RM = /bin/rm -f + +INCSEQ = -I$(topdir)/libseq +LIBSEQ = -L$(topdir)/libseq -lmpiseq + +INCPAR = +LIBPAR = $(SCALAP) + +LIBOTHERS = -lpthread + +#Sequential: +ifeq ($(MUMPS_TYPE),seq) +INCS = $(INCSEQ) +LIBS = $(LIBSEQ) +LIBSEQNEEDED = libseqneeded +endif + +#Parallel: +ifeq ($(MUMPS_TYPE),par) +INCS = $(INCPAR) +LIBS = $(LIBPAR) +LIBSEQNEEDED = +endif diff --git a/var/spack/repos/builtin/packages/mumps/package.py b/var/spack/repos/builtin/packages/mumps/package.py new file mode 100644 index 0000000000..58f790ec32 --- /dev/null +++ b/var/spack/repos/builtin/packages/mumps/package.py @@ -0,0 +1,185 @@ +from spack import * +import os, sys, glob + +class Mumps(Package): + """MUMPS: a MUltifrontal Massively Parallel sparse direct Solver""" + + homepage = "http://mumps.enseeiht.fr" + url = "http://mumps.enseeiht.fr/MUMPS_5.0.1.tar.gz" + + version('5.0.1', 'b477573fdcc87babe861f62316833db0') + + variant('mpi', default=True, description='Activate the compilation of MUMPS with the MPI support') + variant('scotch', default=False, description='Activate Scotch as a possible ordering library') + variant('ptscotch', default=False, description='Activate PT-Scotch as a possible ordering library') + variant('metis', default=False, description='Activate Metis as a possible ordering library') + variant('parmetis', default=False, description='Activate Parmetis as a possible ordering library') + variant('double', default=True, description='Activate the compilation of dmumps') + variant('float', default=True, description='Activate the compilation of smumps') + variant('complex', default=True, description='Activate the compilation of cmumps and/or zmumps') + variant('idx64', default=False, description='Use int64_t/integer*8 as default index type') + variant('shared', default=True, description='Build shared libraries') + + + depends_on('scotch + esmumps', when='~ptscotch+scotch') + depends_on('scotch + esmumps + mpi', when='+ptscotch') + depends_on('metis@5:', when='+metis') + depends_on('parmetis', when="+parmetis") + depends_on('blas') + depends_on('lapack') + depends_on('scalapack', when='+mpi') + depends_on('mpi', when='+mpi') + + # this function is not a patch function because in case scalapack + # is needed it uses self.spec['scalapack'].fc_link set by the + # setup_dependent_environment in scalapck. This happen after patch + # end before install + # def patch(self): + def write_makefile_inc(self): + if ('+parmetis' in self.spec or '+ptscotch' in self.spec) and '+mpi' not in self.spec: + raise RuntimeError('You cannot use the variants parmetis or ptscotch without mpi') + + makefile_conf = ["LIBBLAS = -L%s -lblas" % self.spec['blas'].prefix.lib] + + orderings = ['-Dpord'] + + if '+ptscotch' in self.spec or '+scotch' in self.spec: + join_lib = ' -l%s' % ('pt' if '+ptscotch' in self.spec else '') + makefile_conf.extend( + ["ISCOTCH = -I%s" % self.spec['scotch'].prefix.include, + "LSCOTCH = -L%s %s%s" % (self.spec['scotch'].prefix.lib, + join_lib, + join_lib.join(['esmumps', 'scotch', 'scotcherr']))]) + orderings.append('-Dscotch') + if '+ptscotch' in self.spec: + orderings.append('-Dptscotch') + + if '+parmetis' in self.spec and '+metis' in self.spec: + libname = 'parmetis' if '+parmetis' in self.spec else 'metis' + makefile_conf.extend( + ["IMETIS = -I%s" % self.spec['parmetis'].prefix.include, + "LMETIS = -L%s -l%s -L%s -l%s" % (self.spec['parmetis'].prefix.lib, 'parmetis',self.spec['metis'].prefix.lib, 'metis')]) + + orderings.append('-Dparmetis') + elif '+metis' in self.spec: + makefile_conf.extend( + ["IMETIS = -I%s" % self.spec['metis'].prefix.include, + "LMETIS = -L%s -l%s" % (self.spec['metis'].prefix.lib, 'metis')]) + + orderings.append('-Dmetis') + + makefile_conf.append("ORDERINGSF = %s" % (' '.join(orderings))) + + # when building shared libs need -fPIC, otherwise + # /usr/bin/ld: graph.o: relocation R_X86_64_32 against `.rodata.str1.1' can not be used when making a shared object; recompile with -fPIC + fpic = '-fPIC' if '+shared' in self.spec else '' + # TODO: test this part, it needs a full blas, scalapack and + # partitionning environment with 64bit integers + if '+idx64' in self.spec: + makefile_conf.extend( + # the fortran compilation flags most probably are + # working only for intel and gnu compilers this is + # perhaps something the compiler should provide + ['OPTF = %s -O -DALLOW_NON_INIT %s' % (fpic,'-fdefault-integer-8' if self.compiler.name == "gcc" else '-i8'), + 'OPTL = %s -O ' % fpic, + 'OPTC = %s -O -DINTSIZE64' % fpic]) + else: + makefile_conf.extend( + ['OPTF = %s -O -DALLOW_NON_INIT' % fpic, + 'OPTL = %s -O ' % fpic, + 'OPTC = %s -O ' % fpic]) + + + if '+mpi' in self.spec: + makefile_conf.extend( + ["CC = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpicc'), + "FC = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpif90'), + "FL = %s" % join_path(self.spec['mpi'].prefix.bin, 'mpif90'), + "SCALAP = %s" % self.spec['scalapack'].fc_link, + "MUMPS_TYPE = par"]) + else: + makefile_conf.extend( + ["CC = cc", + "FC = fc", + "FL = fc", + "MUMPS_TYPE = seq"]) + + # TODO: change the value to the correct one according to the + # compiler possible values are -DAdd_, -DAdd__ and/or -DUPPER + makefile_conf.append("CDEFS = -DAdd_") + + if '+shared' in self.spec: + if sys.platform == 'darwin': + # Building dylibs with mpif90 causes segfaults on 10.8 and 10.10. Use gfortran. (Homebrew) + makefile_conf.extend([ + 'LIBEXT=.dylib', + 'AR=%s -dynamiclib -Wl,-install_name -Wl,%s/$(notdir $@) -undefined dynamic_lookup -o ' % (os.environ['FC'],prefix.lib), + 'RANLIB=echo' + ]) + else: + makefile_conf.extend([ + 'LIBEXT=.so', + 'AR=$(FL) -shared -Wl,-soname -Wl,%s/$(notdir $@) -o' % prefix.lib, + 'RANLIB=echo' + ]) + else: + makefile_conf.extend([ + 'LIBEXT = .a', + 'AR = ar vr', + 'RANLIB = ranlib' + ]) + + + makefile_inc_template = join_path(os.path.dirname(self.module.__file__), + 'Makefile.inc') + with open(makefile_inc_template, "r") as fh: + makefile_conf.extend(fh.read().split('\n')) + + with working_dir('.'): + with open("Makefile.inc", "w") as fh: + makefile_inc = '\n'.join(makefile_conf) + fh.write(makefile_inc) + + + + def install(self, spec, prefix): + make_libs = [] + + # the choice to compile ?examples is to have kind of a sanity + # check on the libraries generated. + if '+float' in spec: + make_libs.append('sexamples') + if '+complex' in spec: + make_libs.append('cexamples') + + if '+double' in spec: + make_libs.append('dexamples') + if '+complex' in spec: + make_libs.append('zexamples') + + self.write_makefile_inc() + + # Build fails in parallel + make(*make_libs, parallel=False) + + install_tree('lib', prefix.lib) + install_tree('include', prefix.include) + + if '~mpi' in spec: + lib_dsuffix = '.dylib' if sys.platform == 'darwin' else '.so' + lib_suffix = lib_dsuffix if '+shared' in spec else '.a' + install('libseq/libmpiseq%s' % lib_suffix, prefix.lib) + for f in glob.glob(join_path('libseq','*.h')): + install(f, prefix.include) + + # FIXME: extend the tests to mpirun -np 2 (or alike) when build with MPI + # FIXME: use something like numdiff to compare blessed output with the current + with working_dir('examples'): + if '+float' in spec: + os.system('./ssimpletest < input_simpletest_real') + if '+complex' in spec: + os.system('./csimpletest < input_simpletest_real') + if '+double' in spec: + os.system('./dsimpletest < input_simpletest_real') + if '+complex' in spec: + os.system('./zsimpletest < input_simpletest_cmplx') diff --git a/var/spack/packages/munge/package.py b/var/spack/repos/builtin/packages/munge/package.py index c737ca0354..c737ca0354 100644 --- a/var/spack/packages/munge/package.py +++ b/var/spack/repos/builtin/packages/munge/package.py diff --git a/var/spack/repos/builtin/packages/muparser/package.py b/var/spack/repos/builtin/packages/muparser/package.py new file mode 100644 index 0000000000..19ca8ce287 --- /dev/null +++ b/var/spack/repos/builtin/packages/muparser/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Muparser(Package): + """C++ math expression parser library.""" + homepage = "http://muparser.beltoforion.de/" + url = "https://github.com/beltoforion/muparser/archive/v2.2.5.tar.gz" + + version('2.2.5', '02dae671aa5ad955fdcbcd3fee313fb7') + + def install(self, spec, prefix): + options = ['--disable-debug', + '--disable-dependency-tracking', + '--prefix=%s' % prefix] + + configure(*options) + + make(parallel=False) + make("install") diff --git a/var/spack/packages/muster/package.py b/var/spack/repos/builtin/packages/muster/package.py index 722daf3d7f..0dc2e5e086 100644 --- a/var/spack/packages/muster/package.py +++ b/var/spack/repos/builtin/packages/muster/package.py @@ -7,8 +7,8 @@ class Muster(Package): for performance data analysis on systems with very large numbers of processes. """ - homepage = "https://github.com/scalability-llnl/muster" - url = "https://github.com/scalability-llnl/muster/archive/v1.0.tar.gz" + homepage = "https://github.com/llnl/muster" + url = "https://github.com/llnl/muster/archive/v1.0.tar.gz" version('1.0.1', 'd709787db7e080447afb6571ac17723c') version('1.0', '2eec6979a4a36d3a65a792d12969be16') diff --git a/var/spack/packages/mvapich2/ad_lustre_rwcontig_open_source.patch b/var/spack/repos/builtin/packages/mvapich2/ad_lustre_rwcontig_open_source.patch index ff85845cf8..ff85845cf8 100644 --- a/var/spack/packages/mvapich2/ad_lustre_rwcontig_open_source.patch +++ b/var/spack/repos/builtin/packages/mvapich2/ad_lustre_rwcontig_open_source.patch diff --git a/var/spack/repos/builtin/packages/mvapich2/package.py b/var/spack/repos/builtin/packages/mvapich2/package.py new file mode 100644 index 0000000000..3e60b517db --- /dev/null +++ b/var/spack/repos/builtin/packages/mvapich2/package.py @@ -0,0 +1,205 @@ +from spack import * +import os + +class Mvapich2(Package): + """MVAPICH2 is an MPI implementation for Infiniband networks.""" + homepage = "http://mvapich.cse.ohio-state.edu/" + url = "http://mvapich.cse.ohio-state.edu/download/mvapich/mv2/mvapich2-2.2b.tar.gz" + + version('2.2b', '5651e8b7a72d7c77ca68da48f3a5d108') + version('2.2a', 'b8ceb4fc5f5a97add9b3ff1b9cbe39d2') + version('2.0', '9fbb68a4111a8b6338e476dc657388b4') + version('1.9', '5dc58ed08fd3142c260b70fe297e127c') + + patch('ad_lustre_rwcontig_open_source.patch', when='@1.9') + + provides('mpi@:2.2', when='@1.9') # MVAPICH2-1.9 supports MPI 2.2 + provides('mpi@:3.0', when='@2.0:') # MVAPICH2-2.0 supports MPI 3.0 + + variant('debug', default=False, description='Enables debug information and error messages at run-time') + + ########## + # TODO : Process managers should be grouped into the same variant, as soon as variant capabilities will be extended + # See https://groups.google.com/forum/#!topic/spack/F8-f8B4_0so + SLURM = 'slurm' + HYDRA = 'hydra' + GFORKER = 'gforker' + REMSHELL = 'remshell' + SLURM_INCOMPATIBLE_PMS = (HYDRA, GFORKER, REMSHELL) + variant(SLURM, default=False, description='Sets slurm as the only process manager') + variant(HYDRA, default=False, description='Sets hydra as one of the process managers') + variant(GFORKER, default=False, description='Sets gforker as one of the process managers') + variant(REMSHELL, default=False, description='Sets remshell as one of the process managers') + ########## + + ########## + # TODO : Network types should be grouped into the same variant, as soon as variant capabilities will be extended + PSM = 'psm' + SOCK = 'sock' + NEMESISIBTCP = 'nemesisibtcp' + NEMESISIB = 'nemesisib' + NEMESIS = 'nemesis' + MRAIL = 'mrail' + SUPPORTED_NETWORKS = (PSM, SOCK, NEMESIS, NEMESISIB, NEMESISIBTCP) + variant(PSM, default=False, description='Configures a build for QLogic PSM-CH3') + variant(SOCK, default=False, description='Configures a build for TCP/IP-CH3') + variant(NEMESISIBTCP, default=False, description='Configures a build for both OFA-IB-Nemesis and TCP/IP-Nemesis') + variant(NEMESISIB, default=False, description='Configures a build for OFA-IB-Nemesis') + variant(NEMESIS, default=False, description='Configures a build for TCP/IP-Nemesis') + variant(MRAIL, default=False, description='Configures a build for OFA-IB-CH3') + ########## + + # FIXME : CUDA support is missing + + def url_for_version(self, version): + base_url = "http://mvapich.cse.ohio-state.edu/download" + if version < Version('2.0'): + return "%s/mvapich2/mv2/mvapich2-%s.tar.gz" % (base_url, version) + else: + return "%s/mvapich/mv2/mvapich2-%s.tar.gz" % (base_url, version) + + @staticmethod + def enabled(x): + """ + Given a variant name returns the string that means the variant is enabled + + :param x: variant name + :return: + """ + return '+' + x + + def set_build_type(self, spec, configure_args): + """ + Appends to configure_args the flags that depends only on the build type (i.e. release or debug) + + :param spec: spec + :param configure_args: list of current configure arguments + """ + if '+debug' in spec: + build_type_options = [ + "--disable-fast", + "--enable-error-checking=runtime", + "--enable-error-messages=all", + "--enable-g=dbg", "--enable-debuginfo" # Permits debugging with TotalView + ] + else: + build_type_options = ["--enable-fast=all"] + + configure_args.extend(build_type_options) + + def set_process_manager(self, spec, configure_args): + """ + Appends to configure_args the flags that will enable the appropriate process managers + + :param spec: spec + :param configure_args: list of current configure arguments + """ + # Check that slurm variant is not activated together with other pm variants + has_slurm_incompatible_variants = any(self.enabled(x) in spec for x in Mvapich2.SLURM_INCOMPATIBLE_PMS) + if self.enabled(Mvapich2.SLURM) in spec and has_slurm_incompatible_variants: + raise RuntimeError(" %s : 'slurm' cannot be activated together with other process managers" % self.name) + + process_manager_options = [] + if self.enabled(Mvapich2.SLURM) in spec: + process_manager_options = [ + "--with-pm=slurm" + ] + elif has_slurm_incompatible_variants: + pms = [] + # The variant name is equal to the process manager name in the configuration options + for x in Mvapich2.SLURM_INCOMPATIBLE_PMS: + if self.enabled(x) in spec: + pms.append(x) + process_manager_options = [ + "--with-pm=%s" % ':'.join(pms) + ] + configure_args.extend(process_manager_options) + + def set_network_type(self, spec, configure_args): + # Check that at most one variant has been activated + count = 0 + for x in Mvapich2.SUPPORTED_NETWORKS: + if self.enabled(x) in spec: + count += 1 + if count > 1: + raise RuntimeError('network variants are mutually exclusive (only one can be selected at a time)') + network_options = [] + # From here on I can suppose that only one variant has been selected + if self.enabled(Mvapich2.PSM) in spec: + network_options = ["--with-device=ch3:psm"] + elif self.enabled(Mvapich2.SOCK) in spec: + network_options = ["--with-device=ch3:sock"] + elif self.enabled(Mvapich2.NEMESISIBTCP) in spec: + network_options = ["--with-device=ch3:nemesis:ib,tcp"] + elif self.enabled(Mvapich2.NEMESISIB) in spec: + network_options = ["--with-device=ch3:nemesis:ib"] + elif self.enabled(Mvapich2.NEMESIS) in spec: + network_options = ["--with-device=ch3:nemesis"] + elif self.enabled(Mvapich2.MRAIL) in spec: + network_options = ["--with-device=ch3:mrail", "--with-rdma=gen2"] + + configure_args.extend(network_options) + + def setup_dependent_environment(self, spack_env, run_env, extension_spec): + spack_env.set('MPICH_CC', spack_cc) + spack_env.set('MPICH_CXX', spack_cxx) + spack_env.set('MPICH_F77', spack_f77) + spack_env.set('MPICH_F90', spack_fc) + spack_env.set('MPICH_FC', spack_fc) + + def install(self, spec, prefix): + # we'll set different configure flags depending on our environment + configure_args = [ + "--prefix=%s" % prefix, + "--enable-shared", + "--enable-romio", + "--disable-silent-rules", + ] + + if self.compiler.f77 and self.compiler.fc: + configure_args.append("--enable-fortran=all") + elif self.compiler.f77: + configure_args.append("--enable-fortran=f77") + elif self.compiler.fc: + configure_args.append("--enable-fortran=fc") + else: + configure_args.append("--enable-fortran=none") + + # Set the type of the build (debug, release) + self.set_build_type(spec, configure_args) + # Set the process manager + self.set_process_manager(spec, configure_args) + # Determine network type by variant + self.set_network_type(spec, configure_args) + + configure(*configure_args) + make() + make("install") + + self.filter_compilers() + + + def filter_compilers(self): + """Run after install to make the MPI compilers use the + compilers that Spack built the package with. + + If this isn't done, they'll have CC, CXX, F77, and FC set + to Spack's generic cc, c++, f77, and f90. We want them to + be bound to whatever compiler they were built with. + """ + bin = self.prefix.bin + mpicc = os.path.join(bin, 'mpicc') + mpicxx = os.path.join(bin, 'mpicxx') + mpif77 = os.path.join(bin, 'mpif77') + mpif90 = os.path.join(bin, 'mpif90') + + spack_cc = os.environ['CC'] + spack_cxx = os.environ['CXX'] + spack_f77 = os.environ['F77'] + spack_fc = os.environ['FC'] + + kwargs = { 'ignore_absent' : True, 'backup' : False, 'string' : True } + filter_file('CC="%s"' % spack_cc , 'CC="%s"' % self.compiler.cc, mpicc, **kwargs) + filter_file('CXX="%s"'% spack_cxx, 'CXX="%s"' % self.compiler.cxx, mpicxx, **kwargs) + filter_file('F77="%s"'% spack_f77, 'F77="%s"' % self.compiler.f77, mpif77, **kwargs) + filter_file('FC="%s"' % spack_fc , 'FC="%s"' % self.compiler.fc, mpif90, **kwargs) diff --git a/var/spack/packages/nasm/package.py b/var/spack/repos/builtin/packages/nasm/package.py index 933b6a62c5..933b6a62c5 100644 --- a/var/spack/packages/nasm/package.py +++ b/var/spack/repos/builtin/packages/nasm/package.py diff --git a/var/spack/packages/ncdu/package.py b/var/spack/repos/builtin/packages/ncdu/package.py index 234f9730d6..234f9730d6 100644 --- a/var/spack/packages/ncdu/package.py +++ b/var/spack/repos/builtin/packages/ncdu/package.py diff --git a/var/spack/repos/builtin/packages/ncurses/package.py b/var/spack/repos/builtin/packages/ncurses/package.py new file mode 100644 index 0000000000..219fbce226 --- /dev/null +++ b/var/spack/repos/builtin/packages/ncurses/package.py @@ -0,0 +1,29 @@ +from spack import * + +class Ncurses(Package): + """The ncurses (new curses) library is a free software emulation of curses + in System V Release 4.0, and more. It uses terminfo format, supports pads and + color and multiple highlights and forms characters and function-key mapping, + and has all the other SYSV-curses enhancements over BSD curses. + """ + + homepage = "http://invisible-island.net/ncurses/ncurses.html" + url = "http://ftp.gnu.org/pub/gnu/ncurses/ncurses-6.0.tar.gz" + + version('6.0', 'ee13d052e1ead260d7c28071f46eefb1') + version('5.9', '8cb9c412e5f2d96bc6f459aa8c6282a1') + + patch('patch_gcc_5.txt', when='%gcc@5.0:') + + def install(self, spec, prefix): + opts = [ + "--prefix=%s" % prefix, + "--with-shared", + "--with-cxx-shared", + "--enable-widec", + "--enable-overwrite", + "--disable-lib-suffixes", + "--without-ada"] + configure(*opts) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/ncurses/patch_gcc_5.txt b/var/spack/repos/builtin/packages/ncurses/patch_gcc_5.txt new file mode 100644 index 0000000000..f85e07cb8d --- /dev/null +++ b/var/spack/repos/builtin/packages/ncurses/patch_gcc_5.txt @@ -0,0 +1,12 @@ +diff -Naur ncurses-6.0/ncurses/Makefile.in ncurses-6.0-patched/ncurses/Makefile.in +--- ncurses-6.0/ncurses/Makefile.in 2015-08-06 01:15:41.000000000 +0200 ++++ ncurses-6.0-patched/ncurses/Makefile.in 2015-12-15 14:58:52.710199407 +0100 +@@ -219,7 +219,7 @@ + $(SHELL) -e $(tinfo)/MKfallback.sh $(TERMINFO) $(TERMINFO_SRC) $(TIC_PATH) $(FALLBACK_LIST) >$@ + + ./lib_gen.c : $(base)/MKlib_gen.sh ../include/curses.h +- $(SHELL) -e $(base)/MKlib_gen.sh "$(CPP) $(CPPFLAGS)" "$(AWK)" generated <../include/curses.h >$@ ++ $(SHELL) -e $(base)/MKlib_gen.sh "$(CPP) $(CPPFLAGS) -P" "$(AWK)" generated <../include/curses.h >$@ + + init_keytry.h: make_keys$(BUILD_EXEEXT) keys.list + ./make_keys$(BUILD_EXEEXT) keys.list > $@ diff --git a/var/spack/repos/builtin/packages/ndiff/package.py b/var/spack/repos/builtin/packages/ndiff/package.py new file mode 100644 index 0000000000..10e445c81e --- /dev/null +++ b/var/spack/repos/builtin/packages/ndiff/package.py @@ -0,0 +1,21 @@ +from spack import * + +class Ndiff(Package): + """The ndiff tool is a binary utility that compares putatively similar files + while ignoring small numeric differernces. This utility is most often used + to compare files containing a lot of floating-point numeric data that + may be slightly different due to numeric error.""" + + homepage = "http://ftp.math.utah.edu/pub/ndiff/" + url = "http://ftp.math.utah.edu/pub/ndiff/ndiff-2.00.tar.gz" + + version('2.00', '885548b4dc26e72c5455bebb5ba6c16d') + version('1.00', 'f41ffe5d12f36cd36b6311acf46eccdc') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + mkdirp(prefix.bin) + mkdirp('%s/lib' % prefix.share) + + make('install-exe', 'install-shrlib') diff --git a/var/spack/repos/builtin/packages/netcdf-cxx/package.py b/var/spack/repos/builtin/packages/netcdf-cxx/package.py new file mode 100644 index 0000000000..8aa1d8b236 --- /dev/null +++ b/var/spack/repos/builtin/packages/netcdf-cxx/package.py @@ -0,0 +1,19 @@ +from spack import * + +class NetcdfCxx(Package): + """Deprecated C++ compatibility bindings for NetCDF. + These do NOT read or write NetCDF-4 files, and are no longer + maintained by Unidata. Developers should migrate to current + NetCDF C++ bindings, in Spack package netcdf-cxx4.""" + + homepage = "http://www.unidata.ucar.edu/software/netcdf" + url = "http://www.unidata.ucar.edu/downloads/netcdf/ftp/netcdf-cxx-4.2.tar.gz" + + version('4.2', 'd32b20c00f144ae6565d9e98d9f6204c') + + depends_on('netcdf') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/netcdf-cxx4/package.py b/var/spack/repos/builtin/packages/netcdf-cxx4/package.py new file mode 100644 index 0000000000..b83e964b00 --- /dev/null +++ b/var/spack/repos/builtin/packages/netcdf-cxx4/package.py @@ -0,0 +1,15 @@ +from spack import * + +class NetcdfCxx4(Package): + """C++ interface for NetCDF4""" + homepage = "http://www.unidata.ucar.edu/software/netcdf" + url = "http://www.unidata.ucar.edu/downloads/netcdf/ftp/netcdf-cxx4-4.2.tar.gz" + + version('4.2', 'd019853802092cf686254aaba165fc81') + + depends_on('netcdf') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/netcdf-fortran/package.py b/var/spack/repos/builtin/packages/netcdf-fortran/package.py new file mode 100644 index 0000000000..e4e33445e5 --- /dev/null +++ b/var/spack/repos/builtin/packages/netcdf-fortran/package.py @@ -0,0 +1,16 @@ +from spack import * + +class NetcdfFortran(Package): + """Fortran interface for NetCDF4""" + + homepage = "http://www.unidata.ucar.edu/software/netcdf" + url = "http://www.unidata.ucar.edu/downloads/netcdf/ftp/netcdf-fortran-4.4.3.tar.gz" + + version('4.4.3', 'bfd4ae23a34635b273d3eb0d91cbde9e') + + depends_on('netcdf') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/netcdf/package.py b/var/spack/repos/builtin/packages/netcdf/package.py new file mode 100644 index 0000000000..b60a2c4e9a --- /dev/null +++ b/var/spack/repos/builtin/packages/netcdf/package.py @@ -0,0 +1,83 @@ +from spack import * + + +class Netcdf(Package): + """NetCDF is a set of software libraries and self-describing, machine-independent + data formats that support the creation, access, and sharing of array-oriented + scientific data.""" + + homepage = "http://www.unidata.ucar.edu/software/netcdf" + url = "ftp://ftp.unidata.ucar.edu/pub/netcdf/netcdf-4.3.3.tar.gz" + + version('4.4.0', 'cffda0cbd97fdb3a06e9274f7aef438e') + version('4.3.3', '5fbd0e108a54bd82cb5702a73f56d2ae') + + variant('mpi', default=True, description='Enables MPI parallelism') + variant('hdf4', default=False, description="Enable HDF4 support") + + # Dependencies: + depends_on("curl") # required for DAP support + depends_on("hdf", when='+hdf4') + depends_on("hdf5+mpi~cxx", when='+mpi') # required for NetCDF-4 support + depends_on("hdf5~mpi", when='~mpi') # required for NetCDF-4 support + depends_on("zlib") # required for NetCDF-4 support + + def install(self, spec, prefix): + # Environment variables + CPPFLAGS = [] + LDFLAGS = [] + LIBS = [] + + config_args = [ + "--prefix=%s" % prefix, + "--enable-fsync", + "--enable-v2", + "--enable-utilities", + "--enable-shared", + "--enable-static", + "--enable-largefile", + # necessary for HDF5 support + "--enable-netcdf-4", + "--enable-dynamic-loading", + # necessary for DAP support + "--enable-dap" + ] + + # Make sure Netcdf links against Spack's curl + # Otherwise it may pick up system's curl, which could lead to link errors: + # /usr/lib/x86_64-linux-gnu/libcurl.so: undefined reference to `SSL_CTX_use_certificate_chain_file@OPENSSL_1.0.0' + LIBS.append("-lcurl") + CPPFLAGS.append("-I%s" % spec['curl'].prefix.include) + LDFLAGS.append ("-L%s" % spec['curl'].prefix.lib) + + if '+mpi' in spec: + config_args.append('--enable-parallel4') + + CPPFLAGS.append("-I%s/include" % spec['hdf5'].prefix) + LDFLAGS.append( "-L%s/lib" % spec['hdf5'].prefix) + + # HDF4 support + # As of NetCDF 4.1.3, "--with-hdf4=..." is no longer a valid option + # You must use the environment variables CPPFLAGS and LDFLAGS + if '+hdf4' in spec: + config_args.append("--enable-hdf4") + CPPFLAGS.append("-I%s/include" % spec['hdf'].prefix) + LDFLAGS.append( "-L%s/lib" % spec['hdf'].prefix) + LIBS.append( "-l%s" % "jpeg") + + if 'szip' in spec: + CPPFLAGS.append("-I%s/include" % spec['szip'].prefix) + LDFLAGS.append( "-L%s/lib" % spec['szip'].prefix) + LIBS.append( "-l%s" % "sz") + + # Fortran support + # In version 4.2+, NetCDF-C and NetCDF-Fortran have split. + # Use the netcdf-fortran package to install Fortran support. + + config_args.append('CPPFLAGS=%s' % ' '.join(CPPFLAGS)) + config_args.append('LDFLAGS=%s' % ' '.join(LDFLAGS)) + config_args.append('LIBS=%s' % ' '.join(LIBS)) + + configure(*config_args) + make() + make("install") diff --git a/var/spack/packages/netgauge/package.py b/var/spack/repos/builtin/packages/netgauge/package.py index c2378b0718..0ea42175c6 100644 --- a/var/spack/packages/netgauge/package.py +++ b/var/spack/repos/builtin/packages/netgauge/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/netlib-lapack/package.py b/var/spack/repos/builtin/packages/netlib-lapack/package.py new file mode 100644 index 0000000000..f70e634347 --- /dev/null +++ b/var/spack/repos/builtin/packages/netlib-lapack/package.py @@ -0,0 +1,84 @@ +from spack import * + + +class NetlibLapack(Package): + """ + LAPACK version 3.X is a comprehensive FORTRAN library that does linear algebra operations including matrix + inversions, least squared solutions to linear sets of equations, eigenvector analysis, singular value + decomposition, etc. It is a very comprehensive and reputable package that has found extensive use in the + scientific community. + """ + homepage = "http://www.netlib.org/lapack/" + url = "http://www.netlib.org/lapack/lapack-3.5.0.tgz" + + version('3.6.0', 'f2f6c67134e851fe189bb3ca1fbb5101') + version('3.5.0', 'b1d3e3e425b2e44a06760ff173104bdf') + version('3.4.2', '61bf1a8a4469d4bdb7604f5897179478') + version('3.4.1', '44c3869c38c8335c2b9c2a8bb276eb55') + version('3.4.0', '02d5706ec03ba885fc246e5fa10d8c70') + version('3.3.1', 'd0d533ec9a5b74933c2a1e84eedc58b4') + + variant('debug', default=False, description='Activates the Debug build type') + variant('shared', default=True, description="Build shared library version") + variant('external-blas', default=False, description='Build lapack with an external blas') + + variant('lapacke', default=True, description='Activates the build of the LAPACKE C interface') + + # virtual dependency + provides('blas', when='~external-blas') + provides('lapack') + + depends_on('cmake') + depends_on('blas', when='+external-blas') + + + def patch(self): + # Fix cblas CMakeLists.txt -- has wrong case for subdirectory name. + if self.spec.satisfies('@3.6.0:'): + filter_file('${CMAKE_CURRENT_SOURCE_DIR}/CMAKE/', + '${CMAKE_CURRENT_SOURCE_DIR}/cmake/', 'CBLAS/CMakeLists.txt', string=True) + + def install_one(self, spec, prefix, shared): + cmake_args = ['-DBUILD_SHARED_LIBS:BOOL=%s' % ('ON' if shared else 'OFF'), + '-DCMAKE_BUILD_TYPE:STRING=%s' % ('Debug' if '+debug' in spec else 'Release'), + '-DLAPACKE:BOOL=%s' % ('ON' if '+lapacke' in spec else 'OFF')] + if spec.satisfies('@3.6.0:'): + cmake_args.extend(['-DCBLAS=ON']) # always build CBLAS + + if '+external-blas' in spec: + # TODO : the mechanism to specify the library should be more general, + # TODO : but this allows to have an hook to an external blas + cmake_args.extend([ + '-DUSE_OPTIMIZED_BLAS:BOOL=ON', + '-DBLAS_LIBRARIES:PATH=%s' % join_path(spec['blas'].prefix.lib, 'libblas.a') + ]) + + cmake_args.extend(std_cmake_args) + + build_dir = 'spack-build' + ('-shared' if shared else '-static') + with working_dir(build_dir, create=True): + cmake('..', *cmake_args) + make() + make("install") + + + def install(self, spec, prefix): + # Always build static libraries. + self.install_one(spec, prefix, False) + + # Build shared libraries if requested. + if '+shared' in spec: + self.install_one(spec, prefix, True) + + + def setup_dependent_package(self, module, dspec): + # This is WIP for a prototype interface for virtual packages. + # We can update this as more builds start depending on BLAS/LAPACK. + libdir = find_library_path('libblas.a', self.prefix.lib64, self.prefix.lib) + + self.spec.blas_static_lib = join_path(libdir, 'libblas.a') + self.spec.lapack_static_lib = join_path(libdir, 'liblapack.a') + + if '+shared' in self.spec: + self.spec.blas_shared_lib = join_path(libdir, 'libblas.%s' % dso_suffix) + self.spec.lapack_shared_lib = join_path(libdir, 'liblapack.%s' % dso_suffix) diff --git a/var/spack/repos/builtin/packages/netlib-scalapack/package.py b/var/spack/repos/builtin/packages/netlib-scalapack/package.py new file mode 100644 index 0000000000..276876d197 --- /dev/null +++ b/var/spack/repos/builtin/packages/netlib-scalapack/package.py @@ -0,0 +1,57 @@ +from spack import * +import sys + +class NetlibScalapack(Package): + """ScaLAPACK is a library of high-performance linear algebra routines for parallel distributed memory machines""" + + homepage = "http://www.netlib.org/scalapack/" + url = "http://www.netlib.org/scalapack/scalapack-2.0.2.tgz" + + version('2.0.2', '2f75e600a2ba155ed9ce974a1c4b536f') + version('2.0.1', '17b8cde589ea0423afe1ec43e7499161') + version('2.0.0', '9e76ae7b291be27faaad47cfc256cbfe') + # versions before 2.0.0 are not using cmake and requires blacs as + # a separated package + + variant('shared', default=True, description='Build the shared library version') + variant('fpic', default=False, description="Build with -fpic compiler option") + + provides('scalapack') + + depends_on('cmake') + depends_on('mpi') + depends_on('lapack') + + def install(self, spec, prefix): + options = [ + "-DBUILD_SHARED_LIBS:BOOL=%s" % ('ON' if '+shared' in spec else 'OFF'), + "-DBUILD_STATIC_LIBS:BOOL=%s" % ('OFF' if '+shared' in spec else 'ON'), + "-DUSE_OPTIMIZED_LAPACK_BLAS:BOOL=ON", # forces scalapack to use find_package(LAPACK) + ] + + if '+fpic' in spec: + options.extend([ + "-DCMAKE_C_FLAGS=-fPIC", + "-DCMAKE_Fortran_FLAGS=-fPIC" + ]) + + options.extend(std_cmake_args) + + with working_dir('spack-build', create=True): + cmake('..', *options) + make() + make("install") + + # The shared libraries are not installed correctly on Darwin; correct this + if (sys.platform == 'darwin') and ('+shared' in spec): + fix_darwin_install_name(prefix.lib) + + + def setup_dependent_package(self, module, dependent_spec): + spec = self.spec + lib_dsuffix = '.dylib' if sys.platform == 'darwin' else '.so' + lib_suffix = lib_dsuffix if '+shared' in spec else '.a' + + spec.fc_link = '-L%s -lscalapack' % spec.prefix.lib + spec.cc_link = spec.fc_link + spec.libraries = [join_path(spec.prefix.lib, 'libscalapack%s' % lib_suffix)] diff --git a/var/spack/packages/nettle/package.py b/var/spack/repos/builtin/packages/nettle/package.py index cd600b0b87..cd600b0b87 100644 --- a/var/spack/packages/nettle/package.py +++ b/var/spack/repos/builtin/packages/nettle/package.py diff --git a/var/spack/repos/builtin/packages/ninja/package.py b/var/spack/repos/builtin/packages/ninja/package.py new file mode 100644 index 0000000000..0722dd49a6 --- /dev/null +++ b/var/spack/repos/builtin/packages/ninja/package.py @@ -0,0 +1,22 @@ +from spack import * +import os + +class Ninja(Package): + """ A small, fast Make alternative """ + homepage = "https://martine.github.io/ninja/" + url = "https://github.com/martine/ninja/archive/v1.6.0.tar.gz" + + version('1.6.0', '254133059f2da79d8727f654d7198f43') + + extends('python') + + def install(self, spec, prefix): + sh = which('sh') + python('configure.py', '--bootstrap') + + cp = which('cp') + + bindir = os.path.join(prefix, 'bin/') + mkdir(bindir) + cp('-a', 'ninja', bindir) + cp('-a', 'misc', prefix) diff --git a/var/spack/repos/builtin/packages/numdiff/package.py b/var/spack/repos/builtin/packages/numdiff/package.py new file mode 100644 index 0000000000..e72c60fadb --- /dev/null +++ b/var/spack/repos/builtin/packages/numdiff/package.py @@ -0,0 +1,44 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * +import sys + +class Numdiff(Package): + """Numdiff is a little program that can be used to compare putatively + similar files line by line and field by field, ignoring small numeric + differences or/and different numeric formats.""" + + homepage = 'https://www.nongnu.org/numdiff' + url = 'http://nongnu.askapache.com/numdiff/numdiff-5.8.1.tar.gz' + + version('5.8.1', 'a295eb391f6cb1578209fc6b4f9d994e') + + depends_on('gettext', sys.platform=='darwin') + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix] + configure(*options) + make() + make('install') diff --git a/var/spack/repos/builtin/packages/oce/null.patch b/var/spack/repos/builtin/packages/oce/null.patch new file mode 100644 index 0000000000..42a3f0e44f --- /dev/null +++ b/var/spack/repos/builtin/packages/oce/null.patch @@ -0,0 +1,482 @@ +From 61cb965b9ffeca419005bc15e635e67589c421dd Mon Sep 17 00:00:00 2001 +From: Martin Siggel <martin.siggel@dlr.de> +Date: Thu, 28 Jan 2016 19:05:00 +0100 +Subject: [PATCH] Workaround clang optimizations for null references + +OCCT/OCE includes some evil code that uses NULL references, +which are normally not possible. Clang removes code in +branches like if(&myNullRef==NULL) as it assumes this can +never be true. This fix was inspired from the mantis issue +http://tracker.dev.opencascade.org/view.php?id=26042. This +code will be fixed in OCCT 7, but we might require the fix +for earlier releases as well. + +Fixes issue #576 +--- + inc/PLib.hxx | 2 +- + src/BSplCLib/BSplCLib.cxx | 16 ++++++------- + src/BSplCLib/BSplCLib_2.cxx | 6 ++--- + src/BSplCLib/BSplCLib_CurveComputation.gxx | 26 ++++++++++----------- + src/BSplSLib/BSplSLib.cxx | 36 +++++++++++++++--------------- + src/BSplSLib/BSplSLib_BzSyntaxes.cxx | 2 +- + src/PLib/PLib.cxx | 10 ++++----- + 7 files changed, 49 insertions(+), 49 deletions(-) + +diff --git a/inc/PLib.hxx b/inc/PLib.hxx +index 7513234..52b1f84 100644 +--- a/inc/PLib.hxx ++++ b/inc/PLib.hxx +@@ -343,6 +343,6 @@ friend class PLib_DoubleJacobiPolynomial; + + + +- ++#define IS_NULL_REF(ref) ((reinterpret_cast<size_t>(&ref) & 0xFFFFFF) == 0) + + #endif // _PLib_HeaderFile +diff --git a/src/BSplCLib/BSplCLib.cxx b/src/BSplCLib/BSplCLib.cxx +index 683e4ab..2a2d9ea 100644 +--- a/src/BSplCLib/BSplCLib.cxx ++++ b/src/BSplCLib/BSplCLib.cxx +@@ -298,7 +298,7 @@ void BSplCLib::LocateParameter + Standard_Real& NewU) + { + Standard_Integer first,last; +- if (&Mults) { ++ if (!IS_NULL_REF(Mults)) { + if (Periodic) { + first = Knots.Lower(); + last = Knots.Upper(); +@@ -1434,7 +1434,7 @@ void BSplCLib::BuildKnots(const Standard_Integer Degree, + const Standard_Real * pkn = &Knots(KLower); + pkn -= KLower; + Standard_Real *knot = &LK; +- if (&Mults == NULL) { ++ if (IS_NULL_REF(Mults)) { + switch (Degree) { + case 1 : { + Standard_Integer j = Index ; +@@ -1672,7 +1672,7 @@ Standard_Boolean BSplCLib::PrepareInsertKnots + const Standard_Real Tolerance, + const Standard_Boolean Add) + { +- Standard_Boolean addflat = &AddMults == NULL; ++ Standard_Boolean addflat = IS_NULL_REF(AddMults); + + Standard_Integer first,last; + if (Periodic) { +@@ -1856,7 +1856,7 @@ void BSplCLib::InsertKnots + const Standard_Real Tolerance, + const Standard_Boolean Add) + { +- Standard_Boolean addflat = &AddMults == NULL; ++ Standard_Boolean addflat = IS_NULL_REF(AddMults); + + Standard_Integer i,k,mult,firstmult; + Standard_Integer index,kn,curnk,curk; +@@ -3902,7 +3902,7 @@ void BSplCLib::Resolution( Standard_Real& Poles, + num_poles = FlatKnots.Length() - Deg1; + switch (ArrayDimension) { + case 2 : { +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + const Standard_Real * WG = &Weights(Weights.Lower()); + min_weights = WG[0]; + +@@ -3970,7 +3970,7 @@ void BSplCLib::Resolution( Standard_Real& Poles, + break; + } + case 3 : { +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + const Standard_Real * WG = &Weights(Weights.Lower()); + min_weights = WG[0]; + +@@ -4047,7 +4047,7 @@ void BSplCLib::Resolution( Standard_Real& Poles, + break; + } + case 4 : { +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + const Standard_Real * WG = &Weights(Weights.Lower()); + min_weights = WG[0]; + +@@ -4134,7 +4134,7 @@ void BSplCLib::Resolution( Standard_Real& Poles, + } + default : { + Standard_Integer kk; +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + const Standard_Real * WG = &Weights(Weights.Lower()); + min_weights = WG[0]; + +diff --git a/src/BSplCLib/BSplCLib_2.cxx b/src/BSplCLib/BSplCLib_2.cxx +index 35c4639..653b7cd 100644 +--- a/src/BSplCLib/BSplCLib_2.cxx ++++ b/src/BSplCLib/BSplCLib_2.cxx +@@ -70,7 +70,7 @@ void BSplCLib::BuildEval(const Standard_Integer Degree, + Standard_Integer i; + Standard_Integer ip = PLower + Index - 1; + Standard_Real w, *pole = &LP; +- if (&Weights == NULL) { ++ if (IS_NULL_REF(Weights)) { + + for (i = 0; i <= Degree; i++) { + ip++; +@@ -115,13 +115,13 @@ static void PrepareEval + + // make the knots + BSplCLib::BuildKnots(Degree,index,Periodic,Knots,Mults,*dc.knots); +- if (&Mults == NULL) ++ if (IS_NULL_REF(Mults)) + index -= Knots.Lower() + Degree; + else + index = BSplCLib::PoleIndex(Degree,index,Periodic,Mults); + + // check truly rational +- rational = (&Weights != NULL); ++ rational = (!IS_NULL_REF(Weights)); + if (rational) { + Standard_Integer WLower = Weights.Lower() + index; + rational = BSplCLib::IsRational(Weights, WLower, WLower + Degree); +diff --git a/src/BSplCLib/BSplCLib_CurveComputation.gxx b/src/BSplCLib/BSplCLib_CurveComputation.gxx +index e71b4e0..9d42643 100644 +--- a/src/BSplCLib/BSplCLib_CurveComputation.gxx ++++ b/src/BSplCLib/BSplCLib_CurveComputation.gxx +@@ -92,7 +92,7 @@ Standard_Boolean BSplCLib::RemoveKnot + TColStd_Array1OfInteger& NewMults, + const Standard_Real Tolerance) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim; + dim = Dimension_gen; + if (rational) dim++; +@@ -133,7 +133,7 @@ void BSplCLib::InsertKnots + const Standard_Real Epsilon, + const Standard_Boolean Add) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim; + dim = Dimension_gen; + if (rational) dim++; +@@ -222,7 +222,7 @@ void BSplCLib::IncreaseDegree + TColStd_Array1OfReal& NewKnots, + TColStd_Array1OfInteger& NewMults) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim; + dim = Dimension_gen; + if (rational) dim++; +@@ -256,7 +256,7 @@ void BSplCLib::Unperiodize + Array1OfPoints& NewPoles, + TColStd_Array1OfReal& NewWeights) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim; + dim = Dimension_gen; + if (rational) dim++; +@@ -292,7 +292,7 @@ void BSplCLib::Trimming(const Standard_Integer Degree, + Array1OfPoints& NewPoles, + TColStd_Array1OfReal& NewWeights) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim; + dim = Dimension_gen; + if (rational) dim++; +@@ -339,7 +339,7 @@ void BSplCLib::BuildEval(const Standard_Integer Degree, + Standard_Integer PUpper = Poles.Upper(); + Standard_Integer i; + Standard_Integer ip = PLower + Index - 1; +- if (&Weights == NULL) { ++ if (IS_NULL_REF(Weights)) { + for (i = 0; i <= Degree; i++) { + ip++; + if (ip > PUpper) ip = PLower; +@@ -384,13 +384,13 @@ static void PrepareEval + + // make the knots + BSplCLib::BuildKnots(Degree,index,Periodic,Knots,Mults,*dc.knots); +- if (&Mults == NULL) ++ if (IS_NULL_REF(Mults)) + index -= Knots.Lower() + Degree; + else + index = BSplCLib::PoleIndex(Degree,index,Periodic,Mults); + + // check truly rational +- rational = (&Weights != NULL); ++ rational = (!IS_NULL_REF(Weights)); + if (rational) { + Standard_Integer WLower = Weights.Lower() + index; + rational = BSplCLib::IsRational(Weights, WLower, WLower + Degree); +@@ -741,7 +741,7 @@ void BSplCLib::CacheD0(const Standard_Real Parameter, + Degree * Dimension_gen, + PArray[0], + myPoint[0]) ; +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + Standard_Real * + WArray = (Standard_Real *) &WeightsArray(WeightsArray.Lower()) ; + PLib::NoDerivativeEvalPolynomial(NewParameter, +@@ -798,7 +798,7 @@ void BSplCLib::CacheD1(const Standard_Real Parameter, + + ModifyCoords (LocalPDerivatives + Dimension_gen, /= SpanLenght); + +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + Standard_Real * + WArray = (Standard_Real *) &WeightsArray(WeightsArray.Lower()) ; + PLib::EvalPolynomial(NewParameter, +@@ -878,7 +878,7 @@ void BSplCLib::CacheD2(const Standard_Real Parameter, + Index += Dimension_gen; + } + +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + Standard_Real * + WArray = (Standard_Real *) &WeightsArray(WeightsArray.Lower()) ; + +@@ -971,7 +971,7 @@ void BSplCLib::CacheD3(const Standard_Real Parameter, + Index += Dimension_gen; + } + +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + Standard_Real * + WArray = (Standard_Real *) &WeightsArray(WeightsArray.Lower()) ; + +@@ -1081,7 +1081,7 @@ void BSplCLib::BuildCache + LocalValue *= SpanDomain / (Standard_Real) ii ; + } + +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + for (ii = 1 ; ii <= Degree + 1 ; ii++) + CacheWeights(ii) = 0.0e0 ; + CacheWeights(1) = 1.0e0 ; +diff --git a/src/BSplSLib/BSplSLib.cxx b/src/BSplSLib/BSplSLib.cxx +index 5ad633c..07040d5 100644 +--- a/src/BSplSLib/BSplSLib.cxx ++++ b/src/BSplSLib/BSplSLib.cxx +@@ -309,12 +309,12 @@ static Standard_Boolean PrepareEval (const Standard_Real U, + BSplCLib::BuildKnots(UDegree,uindex,UPer,UKnots,UMults,*dc.knots1); + BSplCLib::BuildKnots(VDegree,vindex,VPer,VKnots,VMults,*dc.knots2); + +- if (&UMults == NULL) ++ if (IS_NULL_REF(UMults)) + uindex -= UKLower + UDegree; + else + uindex = BSplCLib::PoleIndex(UDegree,uindex,UPer,UMults); + +- if (&VMults == NULL) ++ if (IS_NULL_REF(VMults)) + vindex -= VKLower + VDegree; + else + vindex = BSplCLib::PoleIndex(VDegree,vindex,VPer,VMults); +@@ -460,12 +460,12 @@ static Standard_Boolean PrepareEval (const Standard_Real U, + BSplCLib::BuildKnots(UDegree,uindex,UPer,UKnots,UMults,*dc.knots2); + BSplCLib::BuildKnots(VDegree,vindex,VPer,VKnots,VMults,*dc.knots1); + +- if (&UMults == NULL) ++ if (IS_NULL_REF(UMults)) + uindex -= UKLower + UDegree; + else + uindex = BSplCLib::PoleIndex(UDegree,uindex,UPer,UMults); + +- if (&VMults == NULL) ++ if (IS_NULL_REF(VMults)) + vindex -= VKLower + VDegree; + else + vindex = BSplCLib::PoleIndex(VDegree,vindex,VPer,VMults); +@@ -1299,7 +1299,7 @@ void BSplSLib::Iso(const Standard_Real Param, + { + Standard_Integer index = 0; + Standard_Real u = Param; +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim = rational ? 4 : 3; + + // compute local knots +@@ -1307,7 +1307,7 @@ void BSplSLib::Iso(const Standard_Real Param, + NCollection_LocalArray<Standard_Real> locknots1 (2*Degree); + BSplCLib::LocateParameter(Degree,Knots,Mults,u,Periodic,index,u); + BSplCLib::BuildKnots(Degree,index,Periodic,Knots,Mults,*locknots1); +- if (&Mults == NULL) ++ if (IS_NULL_REF(Mults)) + index -= Knots.Lower() + Degree; + else + index = BSplCLib::PoleIndex(Degree,index,Periodic,Mults); +@@ -1381,7 +1381,7 @@ void BSplSLib::Iso(const Standard_Real Param, + } + + // if the input is not rational but weights are wanted +- if (!rational && (&CWeights != NULL)) { ++ if (!rational && (!IS_NULL_REF(CWeights))) { + + for (i = CWeights.Lower(); i <= CWeights.Upper(); i++) + CWeights(i) = 1.; +@@ -1741,7 +1741,7 @@ void BSplSLib::InsertKnots(const Standard_Boolean UDirection, + const Standard_Real Epsilon, + const Standard_Boolean Add ) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim = 3; + if (rational) dim++; + +@@ -1787,7 +1787,7 @@ Standard_Boolean BSplSLib::RemoveKnot + TColStd_Array1OfInteger& NewMults, + const Standard_Real Tolerance) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim = 3; + if (rational) dim++; + +@@ -1834,7 +1834,7 @@ void BSplSLib::IncreaseDegree + TColStd_Array1OfReal& NewKnots, + TColStd_Array1OfInteger& NewMults) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim = 3; + if (rational) dim++; + +@@ -1876,7 +1876,7 @@ void BSplSLib::Unperiodize + TColgp_Array2OfPnt& NewPoles, + TColStd_Array2OfReal& NewWeights) + { +- Standard_Boolean rational = &Weights != NULL; ++ Standard_Boolean rational = !IS_NULL_REF(Weights); + Standard_Integer dim = 3; + if (rational) dim++; + +@@ -1929,7 +1929,7 @@ void BSplSLib::BuildCache + Standard_Boolean rational,rational_u,rational_v,flag_u_or_v; + Standard_Integer kk,d1,d1p1,d2,d2p1,ii,jj,iii,jjj,Index; + Standard_Real u1,min_degree_domain,max_degree_domain,f,factor[2],u2; +- if (&Weights != NULL) ++ if (!IS_NULL_REF(Weights)) + rational_u = rational_v = Standard_True; + else + rational_u = rational_v = Standard_False; +@@ -2025,7 +2025,7 @@ void BSplSLib::BuildCache + } + factor[0] *= max_degree_domain / (Standard_Real) (iii) ; + } +- if (&Weights != NULL) { ++ if (!IS_NULL_REF(Weights)) { + // + // means that PrepareEval did found out that the surface was + // locally polynomial but since the surface is constructed +@@ -2110,7 +2110,7 @@ void BSplSLib::CacheD0(const Standard_Real UParameter, + (min_degree << 1) + min_degree, + locpoles[0], + myPoint[0]) ; +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + dimension = min_degree + 1 ; + Standard_Real * + WArray = (Standard_Real *) +@@ -2190,7 +2190,7 @@ void BSplSLib::CacheD1(const Standard_Real UParameter, + // the coefficients + // + // +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + + local_poles_array [0][0][0] = 0.0e0 ; + local_poles_array [0][0][1] = 0.0e0 ; +@@ -2275,7 +2275,7 @@ void BSplSLib::CacheD1(const Standard_Real UParameter, + locpoles[dimension], + local_poles_array[1][0][0]) ; + +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + dimension = min_degree + 1 ; + Standard_Real * + WArray = (Standard_Real *) +@@ -2435,7 +2435,7 @@ void BSplSLib::CacheD2(const Standard_Real UParameter, + // the coefficients + // + // +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + + local_poles_and_weights_array[0][0][0] = 0.0e0 ; + local_poles_and_weights_array[0][0][1] = 0.0e0 ; +@@ -2564,7 +2564,7 @@ void BSplSLib::CacheD2(const Standard_Real UParameter, + locpoles[dimension + dimension], + local_poles_array[2][0][0]) ; + +- if (&WeightsArray != NULL) { ++ if (!IS_NULL_REF(WeightsArray)) { + dimension = min_degree + 1 ; + Standard_Real * + WArray = (Standard_Real *) +diff --git a/src/BSplSLib/BSplSLib_BzSyntaxes.cxx b/src/BSplSLib/BSplSLib_BzSyntaxes.cxx +index 0faf6b6..f2c0f74 100644 +--- a/src/BSplSLib/BSplSLib_BzSyntaxes.cxx ++++ b/src/BSplSLib/BSplSLib_BzSyntaxes.cxx +@@ -68,7 +68,7 @@ void BSplSLib::PolesCoefficients (const TColgp_Array2OfPnt& Poles, + biduflatknots,bidvflatknots, + Poles,Weights, + CPoles,CWeights); +- if (&Weights == NULL) { ++ if (IS_NULL_REF(Weights)) { + + for (ii = 1; ii <= uclas; ii++) { + +diff --git a/src/PLib/PLib.cxx b/src/PLib/PLib.cxx +index 23fa302..7ee231f 100644 +--- a/src/PLib/PLib.cxx ++++ b/src/PLib/PLib.cxx +@@ -2427,7 +2427,7 @@ void PLib::CoefficientsPoles (const Standard_Integer dim, + TColStd_Array1OfReal& Poles, + TColStd_Array1OfReal& Weights) + { +- Standard_Boolean rat = &WCoefs != NULL; ++ Standard_Boolean rat = !IS_NULL_REF(WCoefs); + Standard_Integer loc = Coefs.Lower(); + Standard_Integer lop = Poles.Lower(); + Standard_Integer lowc=0; +@@ -2550,7 +2550,7 @@ void PLib::Trimming(const Standard_Real U1, + Standard_Integer indc, indw=0; + Standard_Integer upc = Coefs.Upper() - dim + 1, upw=0; + Standard_Integer len = Coefs.Length()/dim; +- Standard_Boolean rat = &WCoefs != NULL; ++ Standard_Boolean rat = !IS_NULL_REF(WCoefs); + + if (rat) { + if(len != WCoefs.Length()) +@@ -2607,7 +2607,7 @@ void PLib::CoefficientsPoles (const TColgp_Array2OfPnt& Coefs, + TColgp_Array2OfPnt& Poles, + TColStd_Array2OfReal& Weights) + { +- Standard_Boolean rat = (&WCoefs != NULL); ++ Standard_Boolean rat = (!IS_NULL_REF(WCoefs)); + Standard_Integer LowerRow = Poles.LowerRow(); + Standard_Integer UpperRow = Poles.UpperRow(); + Standard_Integer LowerCol = Poles.LowerCol(); +@@ -2701,7 +2701,7 @@ void PLib::UTrimming(const Standard_Real U1, + TColgp_Array2OfPnt& Coeffs, + TColStd_Array2OfReal& WCoeffs) + { +- Standard_Boolean rat = &WCoeffs != NULL; ++ Standard_Boolean rat = !IS_NULL_REF(WCoeffs); + Standard_Integer lr = Coeffs.LowerRow(); + Standard_Integer ur = Coeffs.UpperRow(); + Standard_Integer lc = Coeffs.LowerCol(); +@@ -2735,7 +2735,7 @@ void PLib::VTrimming(const Standard_Real V1, + TColgp_Array2OfPnt& Coeffs, + TColStd_Array2OfReal& WCoeffs) + { +- Standard_Boolean rat = &WCoeffs != NULL; ++ Standard_Boolean rat = !IS_NULL_REF(WCoeffs); + Standard_Integer lr = Coeffs.LowerRow(); + Standard_Integer ur = Coeffs.UpperRow(); + Standard_Integer lc = Coeffs.LowerCol();
\ No newline at end of file diff --git a/var/spack/repos/builtin/packages/oce/package.py b/var/spack/repos/builtin/packages/oce/package.py new file mode 100644 index 0000000000..3fe6638e66 --- /dev/null +++ b/var/spack/repos/builtin/packages/oce/package.py @@ -0,0 +1,67 @@ +from spack import * +import platform, sys + +class Oce(Package): + """ + Open CASCADE Community Edition: + patches/improvements/experiments contributed by users over the official Open CASCADE library. + """ + homepage = "https://github.com/tpaviot/oce" + url = "https://github.com/tpaviot/oce/archive/OCE-0.17.tar.gz" + + version('0.17.1', '36c67b87093c675698b483454258af91') + version('0.17' , 'f1a89395c4b0d199bea3db62b85f818d') + version('0.16.1', '4d591b240c9293e879f50d86a0cb2bb3') + version('0.16' , '7a4b4df5a104d75a537e25e7dd387eca') + + variant('tbb', default=True, description='Build with Intel Threading Building Blocks') + + depends_on('cmake@2.8:') + depends_on('tbb', when='+tbb') + + # There is a bug in OCE which appears with Clang (version?) or GCC 6.0 + # and has to do with compiler optimization, see + # https://github.com/tpaviot/oce/issues/576 + # http://tracker.dev.opencascade.org/view.php?id=26042 + # https://github.com/tpaviot/oce/issues/605 + # https://github.com/tpaviot/oce/commit/61cb965b9ffeca419005bc15e635e67589c421dd.patch + patch('null.patch',when='@0.16:0.17.1') + + + def install(self, spec, prefix): + options = [] + options.extend(std_cmake_args) + options.extend([ + '-DOCE_INSTALL_PREFIX=%s' % prefix, + '-DOCE_BUILD_SHARED_LIB:BOOL=ON', + '-DCMAKE_BUILD_TYPE:STRING=Release', + '-DOCE_DATAEXCHANGE:BOOL=ON', + '-DOCE_DISABLE_X11:BOOL=ON', + '-DOCE_DRAW:BOOL=OFF', + '-DOCE_MODEL:BOOL=ON', + '-DOCE_MULTITHREAD_LIBRARY:STRING=%s' % ('TBB' if '+tbb' in spec else 'NONE'), + '-DOCE_OCAF:BOOL=ON', + '-DOCE_USE_TCL_TEST_FRAMEWORK:BOOL=OFF', + '-DOCE_VISUALISATION:BOOL=OFF', + '-DOCE_WITH_FREEIMAGE:BOOL=OFF', + '-DOCE_WITH_GL2PS:BOOL=OFF', + '-DOCE_WITH_OPENCL:BOOL=OFF' + ]) + + if platform.system() == 'Darwin': + options.extend([ + '-DOCE_OSX_USE_COCOA:BOOL=ON', + ]) + + cmake('.', *options) + + make("install/strip") + + # OCE tests build is brocken at least on Darwin. + # Unit tests are linked against libTKernel.10.dylib isntead of /full/path/libTKernel.10.dylib + # see https://github.com/tpaviot/oce/issues/612 + # make("test") + + # The shared libraries are not installed correctly on Darwin; correct this + if (sys.platform == 'darwin'): + fix_darwin_install_name(prefix.lib) diff --git a/var/spack/repos/builtin/packages/octave/package.py b/var/spack/repos/builtin/packages/octave/package.py new file mode 100644 index 0000000000..6e99c23652 --- /dev/null +++ b/var/spack/repos/builtin/packages/octave/package.py @@ -0,0 +1,183 @@ +from spack import * + +class Octave(Package): + """GNU Octave is a high-level language, primarily intended for numerical + computations. It provides a convenient command line interface for solving + linear and nonlinear problems numerically, and for performing other + numerical experiments using a language that is mostly compatible with + Matlab. It may also be used as a batch-oriented language.""" + + homepage = "https://www.gnu.org/software/octave/" + url = "ftp://ftp.gnu.org/gnu/octave/octave-4.0.0.tar.gz" + + version('4.0.0' , 'a69f8320a4f20a8480c1b278b1adb799') + + # Variants + variant('readline', default=True) + variant('arpack', default=False) + variant('curl', default=False) + variant('fftw', default=False) + variant('fltk', default=False) + variant('fontconfig', default=False) + variant('freetype', default=False) + variant('glpk', default=False) + variant('gl2ps', default=False) + variant('gnuplot', default=False) + variant('magick', default=False) + variant('hdf5', default=False) + variant('jdk', default=False) + variant('llvm', default=False) + variant('opengl', default=False) + variant('qhull', default=False) + variant('qrupdate', default=False) + variant('qscintilla', default=False) + variant('qt', default=False) + variant('suiteparse', default=False) + variant('zlib', default=False) + + # Required dependencies + depends_on('blas') + depends_on('lapack') + depends_on('pcre') + + # Strongly recommended dependencies + depends_on('readline', when='+readline') + + # Optional dependencies + depends_on('arpack', when='+arpack') + depends_on('curl', when='+curl') + depends_on('fftw', when='+fftw') + depends_on('fltk', when='+fltk') + depends_on('fontconfig', when='+fontconfig') + depends_on('freetype', when='+freetype') + depends_on('glpk', when='+glpk') + depends_on('gl2ps', when='+gl2ps') + depends_on('gnuplot', when='+gnuplot') + depends_on('ImageMagick', when='+magick') + depends_on('hdf5', when='+hdf5') + depends_on('jdk', when='+jdk') + depends_on('llvm', when='+llvm') + #depends_on('opengl', when='+opengl') # TODO: add package + depends_on('qhull', when='+qhull') + depends_on('qrupdate', when='+qrupdate') + #depends_on('qscintilla', when='+qscintilla) # TODO: add package + depends_on('qt', when='+qt') + depends_on('suite-sparse',when='+suitesparse') + depends_on('zlib', when='+zlib') + + + def install(self, spec, prefix): + config_args = [ + "--prefix=%s" % prefix + ] + + # Required dependencies + config_args.extend([ + "--with-blas=%s" % spec['blas'].prefix.lib, + "--with-lapack=%s" % spec['lapack'].prefix.lib + ]) + + # Strongly recommended dependencies + if '+readline' in spec: + config_args.append('--enable-readline') + else: + config_args.append('--disable-readline') + + # Optional dependencies + if '+arpack' in spec: + config_args.extend([ + "--with-arpack-includedir=%s" % spec['arpack'].prefix.include, + "--with-arpack-libdir=%s" % spec['arpack'].prefix.lib + ]) + else: + config_args.append("--without-arpack") + + if '+curl' in spec: + config_args.extend([ + "--with-curl-includedir=%s" % spec['curl'].prefix.include, + "--with-curl-libdir=%s" % spec['curl'].prefix.lib + ]) + else: + config_args.append("--without-curl") + + if '+fftw' in spec: + config_args.extend([ + "--with-fftw3-includedir=%s" % spec['fftw'].prefix.include, + "--with-fftw3-libdir=%s" % spec['fftw'].prefix.lib, + "--with-fftw3f-includedir=%s" % spec['fftw'].prefix.include, + "--with-fftw3f-libdir=%s" % spec['fftw'].prefix.lib + ]) + else: + config_args.extend([ + "--without-fftw3", + "--without-fftw3f" + ]) + + if '+fltk' in spec: + config_args.extend([ + "--with-fltk-prefix=%s" % spec['fltk'].prefix, + "--with-fltk-exec-prefix=%s" % spec['fltk'].prefix + ]) + else: + config_args.append("--without-fltk") + + if '+glpk' in spec: + config_args.extend([ + "--with-glpk-includedir=%s" % spec['glpk'].prefix.include, + "--with-glpk-libdir=%s" % spec['glpk'].prefix.lib + ]) + else: + config_args.append("--without-glpk") + + if '+magick' in spec: + config_args.append("--with-magick=%s" % spec['ImageMagick'].prefix.lib) + + if '+hdf5' in spec: + config_args.extend([ + "--with-hdf5-includedir=%s" % spec['hdf5'].prefix.include, + "--with-hdf5-libdir=%s" % spec['hdf5'].prefix.lib + ]) + else: + config_args.append("--without-hdf5") + + if '+jdk' in spec: + config_args.extend([ + "--with-java-homedir=%s" % spec['jdk'].prefix, + "--with-java-includedir=%s" % spec['jdk'].prefix.include, + "--with-java-libdir=%s" % spec['jdk'].prefix.lib + ]) + + if '~opengl' in spec: + config_args.extend([ + "--without-opengl", + "--without-framework-opengl" + ]) + + if '+qhull' in spec: + config_args.extend([ + "--with-qhull-includedir=%s" % spec['qhull'].prefix.include, + "--with-qhull-libdir=%s" % spec['qhull'].prefix.lib + ]) + else: + config_args.append("--without-qhull") + + if '+qrupdate' in spec: + config_args.extend([ + "--with-qrupdate-includedir=%s" % spec['qrupdate'].prefix.include, + "--with-qrupdate-libdir=%s" % spec['qrupdate'].prefix.lib + ]) + else: + config_args.append("--without-qrupdate") + + if '+zlib' in spec: + config_args.extend([ + "--with-z-includedir=%s" % spec['zlib'].prefix.include, + "--with-z-libdir=%s" % spec['zlib'].prefix.lib + ]) + else: + config_args.append("--without-z") + + configure(*config_args) + + make() + make("install") diff --git a/var/spack/packages/ompss/package.py b/var/spack/repos/builtin/packages/ompss/package.py index e09e0a624f..e09e0a624f 100644 --- a/var/spack/packages/ompss/package.py +++ b/var/spack/repos/builtin/packages/ompss/package.py diff --git a/var/spack/packages/ompt-openmp/package.py b/var/spack/repos/builtin/packages/ompt-openmp/package.py index 5d380ebd77..e5bcfb51f0 100644 --- a/var/spack/packages/ompt-openmp/package.py +++ b/var/spack/repos/builtin/packages/ompt-openmp/package.py @@ -3,9 +3,9 @@ from spack import * class OmptOpenmp(Package): """LLVM/Clang OpenMP runtime with OMPT support. This is a fork of the OpenMPToolsInterface/LLVM-openmp fork of the official LLVM OpenMP mirror. This library provides a drop-in replacement of the OpenMP runtimes for GCC, Intel and LLVM/Clang.""" homepage = "https://github.com/OpenMPToolsInterface/LLVM-openmp" - url = "http://github.com/khuck/LLVM-openmp/archive/v0.1-spack.tar.gz" + url = "http://github.com/khuck/LLVM-openmp/archive/v0.1.tar.gz" - version('spack', '35227b2726e377faa433fc841226e036') + version('0.1', '2334e6a84b52da41b27afd9831ed5370') # depends_on("foo") diff --git a/var/spack/repos/builtin/packages/opari2/package.py b/var/spack/repos/builtin/packages/opari2/package.py new file mode 100644 index 0000000000..c68978f5c0 --- /dev/null +++ b/var/spack/repos/builtin/packages/opari2/package.py @@ -0,0 +1,48 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + +class Opari2(Package): + """ + OPARI2 is a source-to-source instrumentation tool for OpenMP and hybrid codes. It surrounds OpenMP directives and + runtime library calls with calls to the POMP2 measurement interface. OPARI2 will provide you with a new + initialization method that allows for multi-directory and parallel builds as well as the usage of pre-instrumented + libraries. Furthermore, an efficient way of tracking parent-child relationships was added. Additionally, we extended + OPARI2 to support instrumentation of OpenMP 3.0 tied tasks. + """ + + homepage = "http://www.vi-hps.org/projects/score-p" + url = "http://www.vi-hps.org/upload/packages/opari2/opari2-1.1.2.tar.gz" + + version('1.1.4', '245d3d11147a06de77909b0805f530c0', + url='http://www.vi-hps.org/upload/packages/opari2/opari2-1.1.4.tar.gz') + version('1.1.2', '9a262c7ca05ff0ab5f7775ae96f3539e') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix, + "--enable-shared") + make() + make("install") diff --git a/var/spack/repos/builtin/packages/openblas/package.py b/var/spack/repos/builtin/packages/openblas/package.py new file mode 100644 index 0000000000..4522130ccc --- /dev/null +++ b/var/spack/repos/builtin/packages/openblas/package.py @@ -0,0 +1,78 @@ +from spack import * +import sys +import os + +class Openblas(Package): + """OpenBLAS: An optimized BLAS library""" + homepage = "http://www.openblas.net" + url = "http://github.com/xianyi/OpenBLAS/archive/v0.2.15.tar.gz" + + version('0.2.17', '664a12807f2a2a7cda4781e3ab2ae0e1') + version('0.2.16', 'fef46ab92463bdbb1479dcec594ef6dc') + version('0.2.15', 'b1190f3d3471685f17cfd1ec1d252ac9') + + variant('shared', default=True, description="Build shared libraries as well as static libs.") + variant('openmp', default=True, description="Enable OpenMP support.") + + # virtual dependency + provides('blas') + provides('lapack') + + + def install(self, spec, prefix): + # Openblas is picky about compilers. Configure fails with + # FC=/abs/path/to/f77, whereas FC=f77 works fine. + # To circumvent this, provide basename only: + make_defs = ['CC=%s' % os.path.basename(spack_cc), + 'FC=%s' % os.path.basename(spack_f77)] + + make_targets = ['libs', 'netlib'] + + # Build shared if variant is set. + if '+shared' in spec: + make_targets += ['shared'] + else: + make_defs += ['NO_SHARED=1'] + + # fix missing _dggsvd_ and _sggsvd_ + if spec.satisfies('@0.2.16'): + make_defs += ['BUILD_LAPACK_DEPRECATED=1'] + + # Add support for OpenMP + # Note: Make sure your compiler supports OpenMP + if '+openmp' in spec: + make_defs += ['USE_OPENMP=1'] + + make_args = make_defs + make_targets + make(*make_args) + + make("tests", *make_defs) + + # no quotes around prefix (spack doesn't use a shell) + make('install', "PREFIX=%s" % prefix, *make_defs) + + # Blas virtual package should provide blas.a and libblas.a + with working_dir(prefix.lib): + symlink('libopenblas.a', 'blas.a') + symlink('libopenblas.a', 'libblas.a') + if '+shared' in spec: + symlink('libopenblas.%s' % dso_suffix, 'libblas.%s' % dso_suffix) + + # Lapack virtual package should provide liblapack.a + with working_dir(prefix.lib): + symlink('libopenblas.a', 'liblapack.a') + if '+shared' in spec: + symlink('libopenblas.%s' % dso_suffix, 'liblapack.%s' % dso_suffix) + + + def setup_dependent_package(self, module, dspec): + # This is WIP for a prototype interface for virtual packages. + # We can update this as more builds start depending on BLAS/LAPACK. + libdir = find_library_path('libopenblas.a', self.prefix.lib64, self.prefix.lib) + + self.spec.blas_static_lib = join_path(libdir, 'libopenblas.a') + self.spec.lapack_static_lib = self.spec.blas_static_lib + + if '+shared' in self.spec: + self.spec.blas_shared_lib = join_path(libdir, 'libopenblas.%s' % dso_suffix) + self.spec.lapack_shared_lib = self.spec.blas_shared_lib diff --git a/var/spack/repos/builtin/packages/opencv/package.py b/var/spack/repos/builtin/packages/opencv/package.py new file mode 100644 index 0000000000..99b555323f --- /dev/null +++ b/var/spack/repos/builtin/packages/opencv/package.py @@ -0,0 +1,50 @@ +from spack import * + + +class Opencv(Package): + """ + OpenCV is released under a BSD license and hence it's free for both academic and commercial use. It has C++, C, + Python and Java interfaces and supports Windows, Linux, Mac OS, iOS and Android. OpenCV was designed for + computational efficiency and with a strong focus on real-time applications. Written in optimized C/C++, the library + can take advantage of multi-core processing. Enabled with OpenCL, it can take advantage of the hardware + acceleration of the underlying heterogeneous compute platform. Adopted all around the world, OpenCV has more than + 47 thousand people of user community and estimated number of downloads exceeding 9 million. Usage ranges from + interactive art, to mines inspection, stitching maps on the web or through advanced robotics. + """ + homepage = 'http://opencv.org/' + url = 'https://github.com/Itseez/opencv/archive/3.1.0.tar.gz' + + version('3.1.0', '70e1dd07f0aa06606f1bc0e3fa15abd3') + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds a debug version of the libraries') + + variant('eigen', default=True, description='Activates support for eigen') + variant('ipp', default=True, description='Activates support for IPP') + + depends_on('zlib') + depends_on('libpng') + depends_on('libjpeg-turbo') + depends_on('libtiff') + + depends_on('python') + depends_on('py-numpy') + + depends_on('eigen', when='+eigen') + + # FIXME : GUI extensions missing + # FIXME : CUDA extensions still missing + + def install(self, spec, prefix): + cmake_options = [] + cmake_options.extend(std_cmake_args) + + cmake_options.extend(['-DCMAKE_BUILD_TYPE:STRING=%s' % ('Debug' if '+debug' in spec else 'Release'), + '-DBUILD_SHARED_LIBS:BOOL=%s' % ('ON' if '+shared' in spec else 'OFF'), + '-DENABLE_PRECOMPILED_HEADERS:BOOL=OFF', + '-DWITH_IPP:BOOL=%s' % ('ON' if '+ipp' in spec else 'OFF')]) + + with working_dir('spack_build', create=True): + cmake('..', *cmake_options) + make('VERBOSE=1') + make("install") diff --git a/var/spack/repos/builtin/packages/openjpeg/package.py b/var/spack/repos/builtin/packages/openjpeg/package.py new file mode 100644 index 0000000000..afec197d11 --- /dev/null +++ b/var/spack/repos/builtin/packages/openjpeg/package.py @@ -0,0 +1,26 @@ +from spack import * + +class Openjpeg(Package): + """ + OpenJPEG is an open-source JPEG 2000 codec written in C language. + It has been developed in order to promote the use of JPEG 2000, a + still-image compression standard from the Joint Photographic + Experts Group (JPEG). + Since April 2015, it is officially recognized by ISO/IEC and + ITU-T as a JPEG 2000 Reference Software. + """ + homepage = "https://github.com/uclouvain/openjpeg" + url = "https://github.com/uclouvain/openjpeg/archive/version.2.1.tar.gz" + + version('2.1' , '3e1c451c087f8462955426da38aa3b3d') + version('2.0.1', '105876ed43ff7dbb2f90b41b5a43cfa5') + version('2.0' , 'cdf266530fee8af87454f15feb619609') + version('1.5.2', '545f98923430369a6b046ef3632ef95c') + version('1.5.1', 'd774e4b5a0db5f0f171c4fc0aabfa14e') + + + def install(self, spec, prefix): + cmake('.', *std_cmake_args) + + make() + make("install") diff --git a/var/spack/packages/openmpi/ad_lustre_rwcontig_open_source.patch b/var/spack/repos/builtin/packages/openmpi/ad_lustre_rwcontig_open_source.patch index daa825ccbe..daa825ccbe 100644 --- a/var/spack/packages/openmpi/ad_lustre_rwcontig_open_source.patch +++ b/var/spack/repos/builtin/packages/openmpi/ad_lustre_rwcontig_open_source.patch diff --git a/var/spack/repos/builtin/packages/openmpi/configure.patch b/var/spack/repos/builtin/packages/openmpi/configure.patch new file mode 100644 index 0000000000..18fb42c1d1 --- /dev/null +++ b/var/spack/repos/builtin/packages/openmpi/configure.patch @@ -0,0 +1,31 @@ +This patch addresses <https://github.com/open-mpi/ompi/issues/576>. +--- a/configure ++++ b/configure +@@ -301130,10 +301130,11 @@ + case ${prev}${p} in + + -L* | -R* | -l*) +- # Some compilers place space between "-{L,R}" and the path. ++ # Some compilers place space between "-{L,R,l}" and the path. + # Remove the space. + if test $p = "-L" || +- test $p = "-R"; then ++ test $p = "-R" || ++ test $p = "-l"; then + prev=$p + continue + fi +@@ -303036,10 +303037,11 @@ + case ${prev}${p} in + + -L* | -R* | -l*) +- # Some compilers place space between "-{L,R}" and the path. ++ # Some compilers place space between "-{L,R,l}" and the path. + # Remove the space. + if test $p = "-L" || +- test $p = "-R"; then ++ test $p = "-R" || ++ test $p = "-l"; then + prev=$p + continue + fi diff --git a/var/spack/packages/openmpi/llnl-platforms.patch b/var/spack/repos/builtin/packages/openmpi/llnl-platforms.patch index f515743c4d..f515743c4d 100644 --- a/var/spack/packages/openmpi/llnl-platforms.patch +++ b/var/spack/repos/builtin/packages/openmpi/llnl-platforms.patch diff --git a/var/spack/packages/openmpi/package.py b/var/spack/repos/builtin/packages/openmpi/package.py index 5e429dedf5..9a127f1812 100644 --- a/var/spack/packages/openmpi/package.py +++ b/var/spack/repos/builtin/packages/openmpi/package.py @@ -13,32 +13,62 @@ class Openmpi(Package): """ homepage = "http://www.open-mpi.org" + url = "http://www.open-mpi.org/software/ompi/v1.10/downloads/openmpi-1.10.1.tar.bz2" + list_url = "http://www.open-mpi.org/software/ompi/" + list_depth = 3 - version('1.10.0', '280cf952de68369cebaca886c5ce0304', - url = "http://www.open-mpi.org/software/ompi/v1.10/downloads/openmpi-1.10.0.tar.bz2") - version('1.8.8', '0dab8e602372da1425e9242ae37faf8c', - url = 'http://www.open-mpi.org/software/ompi/v1.8/downloads/openmpi-1.8.8.tar.bz2') - version('1.6.5', '03aed2a4aa4d0b27196962a2a65fc475', - url = "http://www.open-mpi.org/software/ompi/v1.6/downloads/openmpi-1.6.5.tar.bz2") + version('1.10.2', 'b2f43d9635d2d52826e5ef9feb97fd4c') + version('1.10.1', 'f0fcd77ed345b7eafb431968124ba16e') + version('1.10.0', '280cf952de68369cebaca886c5ce0304') + version('1.8.8', '0dab8e602372da1425e9242ae37faf8c') + version('1.6.5', '03aed2a4aa4d0b27196962a2a65fc475') patch('ad_lustre_rwcontig_open_source.patch', when="@1.6.5") patch('llnl-platforms.patch', when="@1.6.5") + patch('configure.patch', when="@1.10.0:1.10.1") - provides('mpi@:2.2', when='@1.6.5') # Open MPI 1.6.5 supports MPI-2.2 - provides('mpi@:3.0', when='@1.8.8') # Open MPI 1.8.8 supports MPI-3.0 - provides('mpi@:3.0', when='@1.10.0') # Open MPI 1.10.0 supports MPI-3.0 + variant('psm', default=False, description='Build support for the PSM library.') + variant('verbs', default=False, description='Build support for OpenFabrics verbs.') + # TODO : variant support for other schedulers is missing + variant('tm', default=False, description='Build TM (Torque, PBSPro, and compatible) support') - def setup_dependent_environment(self, module, spec, dep_spec): - """For dependencies, make mpicc's use spack wrapper.""" - os.environ['OMPI_CC'] = 'cc' - os.environ['OMPI_CXX'] = 'c++' - os.environ['OMPI_FC'] = 'f90' - os.environ['OMPI_F77'] = 'f77' + provides('mpi@:2.2', when='@1.6.5') + provides('mpi@:3.0', when='@1.7.5:') + + depends_on('hwloc') + + def url_for_version(self, version): + return "http://www.open-mpi.org/software/ompi/v%s/downloads/openmpi-%s.tar.bz2" % (version.up_to(2), version) + + + def setup_dependent_environment(self, spack_env, run_env, dependent_spec): + spack_env.set('OMPI_CC', spack_cc) + spack_env.set('OMPI_CXX', spack_cxx) + spack_env.set('OMPI_FC', spack_fc) + spack_env.set('OMPI_F77', spack_f77) def install(self, spec, prefix): - config_args = ["--prefix=%s" % prefix] + config_args = ["--prefix=%s" % prefix, + "--with-hwloc=%s" % spec['hwloc'].prefix, + "--enable-shared", + "--enable-static"] + + # Variants + if '+tm' in spec: + config_args.append("--with-tm") # necessary for Torque support + + if '+psm' in spec: + config_args.append("--with-psm") + + if '+verbs' in spec: + # Up through version 1.6, this option was previously named --with-openib + if spec.satisfies('@:1.6'): + config_args.append("--with-openib") + # In version 1.7, it was renamed to be --with-verbs + elif spec.satisfies('@1.7:'): + config_args.append("--with-verbs") # TODO: use variants for this, e.g. +lanl, +llnl, etc. # use this for LANL builds, but for LLNL builds, we need: @@ -58,7 +88,6 @@ class Openmpi(Package): self.filter_compilers() - def filter_compilers(self): """Run after install to make the MPI compilers use the compilers that Spack built the package with. @@ -67,7 +96,7 @@ class Openmpi(Package): to Spack's generic cc, c++ and f90. We want them to be bound to whatever compiler they were built with. """ - kwargs = { 'ignore_absent' : True, 'backup' : False, 'string' : False } + kwargs = {'ignore_absent': True, 'backup': False, 'string': False} dir = os.path.join(self.prefix, 'share/openmpi/') cc_wrappers = ['mpicc-vt-wrapper-data.txt', 'mpicc-wrapper-data.txt', @@ -105,5 +134,3 @@ class Openmpi(Package): if not os.path.islink(path): filter_file('compiler=.*', 'compiler=%s' % self.compiler.fc, path, **kwargs) - - diff --git a/var/spack/repos/builtin/packages/openspeedshop/package.py b/var/spack/repos/builtin/packages/openspeedshop/package.py new file mode 100644 index 0000000000..8c71bcb7c3 --- /dev/null +++ b/var/spack/repos/builtin/packages/openspeedshop/package.py @@ -0,0 +1,216 @@ +################################################################################ +# Copyright (c) 2015 Krell Institute. All Rights Reserved. +# +# This program is free software; you can redistribute it and/or modify it under +# the terms of the GNU General Public License as published by the Free Software +# Foundation; either version 2 of the License, or (at your option) any later +# version. +# +# This program is distributed in the hope that it will be useful, but WITHOUT +# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS +# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more +# details. +# +# You should have received a copy of the GNU General Public License along with +# this program; if not, write to the Free Software Foundation, Inc., 59 Temple +# Place, Suite 330, Boston, MA 02111-1307 USA +################################################################################ + +from spack import * + +class Openspeedshop(Package): + """OpenSpeedShop is a community effort by The Krell Institute with current direct funding from DOEs NNSA. + It builds on top of a broad list of community infrastructures, most notably Dyninst and MRNet from UW, + libmonitor from Rice, and PAPI from UTK. OpenSpeedShop is an open source multi platform Linux performance + tool which is targeted to support performance analysis of applications running on both single node and + large scale IA64, IA32, EM64T, AMD64, PPC, ARM, Blue Gene and Cray platforms. OpenSpeedShop development + is hosted by the Krell Institute. The infrastructure and base components of OpenSpeedShop are released + as open source code primarily under LGPL. + """ + + + homepage = "http://www.openspeedshop.org" + url = "http://sourceforge.net/projects/openss/files/openss/openspeedshop-2.2/openspeedshop-2.2.tar.gz/download" + version('2.2', '16cb051179c2038de4e8a845edf1d573') + + #homepage = "http://www.openspeedshop.org" + #url = "http://sourceforge.net/projects/openss/files/openss/openspeedshop-2.1/openspeedshop-2.1.tar.gz/download" + #version('2.1', 'bdaa57c1a0db9d0c3e0303fd8496c507') + + # optional mirror template + #url = "file:/g/g24/jeg/openspeedshop-2.1.tar.gz" + #version('2.1', '64ee17166519838c7b94a1adc138e94f') + + + + parallel = False + + variant('offline', default=True, description="build with offline instrumentor enabled.") + variant('cbtf', default=False, description="build with cbtf instrumentor enabled.") + variant('runtime', default=False, description="build only the runtime libraries and collectors.") + variant('frontend', default=False, description="build only the front-end tool using the runtime_dir to point to the target build.") + variant('cuda', default=False, description="build with cuda packages included.") + variant('ptgf', default=False, description="build with the PTGF based gui package enabled.") + variant('intelmic', default=False, description="build for the Intel MIC platform.") + variant('cray', default=False, description="build for Cray platforms.") + variant('bluegene', default=False, description="build for Cray platforms.") + variant('rtfe', default=False, description="build for generic cluster platforms that have different processors on the fe and be nodes.") + + # Dependencies for openspeedshop that are common to all the variants of the OpenSpeedShop build + depends_on("bison") + depends_on("flex") + depends_on("binutils@2.24+krellpatch") + depends_on("libelf") + depends_on("libdwarf") + depends_on("sqlite") + depends_on("boost@1.50.0") + depends_on("dyninst@8.2.1") + depends_on("python") + depends_on("qt@3.3.8b+krellpatch") + + # Dependencies only for the openspeedshop offline package. + depends_on("libunwind", when='+offline') + depends_on("papi", when='+offline') + depends_on("libmonitor+krellpatch", when='+offline') + #depends_on("openmpi+krelloptions", when='+offline') + #depends_on("openmpi", when='+offline') + #depends_on("mpich", when='+offline') + + # Dependencies only for the openspeedshop cbtf package. + depends_on("cbtf", when='+cbtf') + depends_on("cbtf-krell", when='+cbtf') + depends_on("cbtf-argonavis", when='+cbtf') + depends_on("mrnet@4.1.0:+lwthreads", when='+cbtf') + + def install(self, spec, prefix): + + #openmpi_prefix_path = "/opt/openmpi-1.8.2" + #mvapich_prefix_path = "/usr/local/tools/mvapich-gnu" + #'-DOPENMPI_DIR=%s' % spec['openmpi'].prefix, + #'-DOPENMPI_DIR=%s' % openmpi_prefix_path, + #'-DMVAPICH_DIR=%s' % mvapich_prefix_path, + + # FIXME: How do we make this dynamic in spack? That is, can we specify the paths to cuda dynamically? + # WAITING for external package support. + #if '+cuda' in spec: + # cuda_prefix_path = "/usr/local/cuda-6.0" + # cupti_prefix_path = "/usr/local/cuda-6.0/extras/CUPTI" + + if '+offline' in spec: + instrumentor_setting = "offline" + if '+runtime' in spec: + with working_dir('build_runtime', create=True): + cmake('..', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + '-DINSTRUMENTOR=%s' % instrumentor_setting, + '-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix, + '-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix, + '-DPAPI_DIR=%s' % spec['papi'].prefix, + *std_cmake_args) + make("clean") + make() + make("install") + else: + cmake_prefix_path = join_path(spec['dyninst'].prefix) + with working_dir('build', create=True): + #python_vers=join_path(spec['python'].version[:2]) + #'-DOPENMPI_DIR=%s' % openmpi_prefix_path, + #'-DMVAPICH_DIR=%s' % mvapich_prefix_path, + python_vers='%d.%d' % spec['python'].version[:2] + cmake('..', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + '-DINSTRUMENTOR=%s' % instrumentor_setting, + '-DBINUTILS_DIR=%s' % spec['binutils'].prefix, + '-DLIBELF_DIR=%s' % spec['libelf'].prefix, + '-DLIBDWARF_DIR=%s' % spec['libdwarf'].prefix, + '-DLIBMONITOR_DIR=%s' % spec['libmonitor'].prefix, + '-DLIBUNWIND_DIR=%s' % spec['libunwind'].prefix, + '-DPAPI_DIR=%s' % spec['papi'].prefix, + '-DSQLITE3_DIR=%s' % spec['sqlite'].prefix, + '-DQTLIB_DIR=%s' % spec['qt'].prefix, + '-DPYTHON_EXECUTABLE=%s' % join_path(spec['python'].prefix + '/bin/python'), + '-DPYTHON_INCLUDE_DIR=%s' % join_path(spec['python'].prefix.include) + '/python' + python_vers, + '-DPYTHON_LIBRARY=%s' % join_path(spec['python'].prefix.lib) + '/libpython' + python_vers + '.so', + '-DBoost_NO_SYSTEM_PATHS=TRUE', + '-DBOOST_ROOT=%s' % spec['boost'].prefix, + '-DDYNINST_DIR=%s' % spec['dyninst'].prefix, + *std_cmake_args) + make("clean") + make() + make("install") + + elif '+cbtf' in spec: + instrumentor_setting = "cbtf" + cmake_prefix_path = join_path(spec['cbtf'].prefix) + ':' + join_path(spec['cbtf-krell'].prefix) + ':' + join_path(spec['dyninst'].prefix) + if '+runtime' in spec: + with working_dir('build_cbtf_runtime', create=True): + python_vers='%d.%d' % spec['python'].version[:2] + cmake('..', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + '-DINSTRUMENTOR=%s' % instrumentor_setting, + '-DBINUTILS_DIR=%s' % spec['binutils'].prefix, + '-DLIBELF_DIR=%s' % spec['libelf'].prefix, + '-DLIBDWARF_DIR=%s' % spec['libdwarf'].prefix, + '-DCBTF_DIR=%s' % spec['cbtf'].prefix, + '-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix, + '-DPYTHON_EXECUTABLE=%s' % join_path(spec['python'].prefix + '/bin/python'), + '-DPYTHON_INCLUDE_DIR=%s' % join_path(spec['python'].prefix.include) + '/python' + python_vers, + '-DPYTHON_LIBRARY=%s' % join_path(spec['python'].prefix.lib) + '/libpython' + python_vers + '.so', + '-DBoost_NO_SYSTEM_PATHS=TRUE', + '-DBOOST_ROOT=%s' % spec['boost'].prefix, + '-DDYNINST_DIR=%s' % spec['dyninst'].prefix, + '-DMRNET_DIR=%s' % spec['mrnet'].prefix, + *std_cmake_args) + make("clean") + make() + make("install") + + else: + with working_dir('build_cbtf', create=True): + python_vers='%d.%d' % spec['python'].version[:2] + #python_vers=join_path(spec['python'].version[:2]) + cmake('..', + '-DCMAKE_INSTALL_PREFIX=%s' % prefix, + '-DCMAKE_LIBRARY_PATH=%s' % prefix.lib64, + '-DCMAKE_PREFIX_PATH=%s' % cmake_prefix_path, + '-DINSTRUMENTOR=%s' % instrumentor_setting, + '-DBINUTILS_DIR=%s' % spec['binutils'].prefix, + '-DLIBELF_DIR=%s' % spec['libelf'].prefix, + '-DLIBDWARF_DIR=%s' % spec['libdwarf'].prefix, + '-DSQLITE3_DIR=%s' % spec['sqlite'].prefix, + '-DCBTF_DIR=%s' % spec['cbtf'].prefix, + '-DCBTF_KRELL_DIR=%s' % spec['cbtf-krell'].prefix, + '-DQTLIB_DIR=%s' % spec['qt'].prefix, + '-DPYTHON_EXECUTABLE=%s' % join_path(spec['python'].prefix + '/bin/python'), + '-DPYTHON_INCLUDE_DIR=%s' % join_path(spec['python'].prefix.include) + '/python' + python_vers, + '-DPYTHON_LIBRARY=%s' % join_path(spec['python'].prefix.lib) + '/libpython' + python_vers + '.so', + '-DBoost_NO_SYSTEM_PATHS=TRUE', + '-DBOOST_ROOT=%s' % spec['boost'].prefix, + '-DDYNINST_DIR=%s' % spec['dyninst'].prefix, + '-DMRNET_DIR=%s' % spec['mrnet'].prefix, + *std_cmake_args) + make("clean") + make() + make("install") + + #if '+frontend' in spec: + # with working_dir('build_frontend', create=True): + # tbd + + + #if '+intelmic' in spec: + # with working_dir('build_intelmic_compute', create=True): + # tbd + # with working_dir('build_intelmic_frontend', create=True): + # tbd + + #if '+cray' in spec: + # with working_dir('build_cray_compute', create=True): + # tbd + # with working_dir('build_cray_frontend', create=True): + # tbd diff --git a/var/spack/repos/builtin/packages/openssl/package.py b/var/spack/repos/builtin/packages/openssl/package.py new file mode 100644 index 0000000000..70afaf4038 --- /dev/null +++ b/var/spack/repos/builtin/packages/openssl/package.py @@ -0,0 +1,82 @@ +import urllib +import llnl.util.tty as tty + +from spack import * + +class Openssl(Package): + """The OpenSSL Project is a collaborative effort to develop a + robust, commercial-grade, full-featured, and Open Source + toolkit implementing the Secure Sockets Layer (SSL v2/v3) and + Transport Layer Security (TLS v1) protocols as well as a + full-strength general purpose cryptography library.""" + homepage = "http://www.openssl.org" + url = "http://www.openssl.org/source/openssl-1.0.1h.tar.gz" + + version('1.0.1h', '8d6d684a9430d5cc98a62a5d8fbda8cf') + version('1.0.1r', '1abd905e079542ccae948af37e393d28') + version('1.0.2d', '38dd619b2e77cbac69b99f52a053d25a') + version('1.0.2e', '5262bfa25b60ed9de9f28d5d52d77fc5') + version('1.0.2f', 'b3bf73f507172be9292ea2a8c28b659d') + version('1.0.2g', 'f3c710c045cdee5fd114feb69feba7aa') + + depends_on("zlib") + parallel = False + + def url_for_version(self, version): + # This URL is computed pinging the place where the latest version is stored. To avoid slowdown + # due to repeated pinging, we store the URL in a private class attribute to do the job only once per version + openssl_urls = getattr(Openssl, '_openssl_url', {}) + openssl_url = openssl_urls.get(version, None) + # Same idea, but just to avoid issuing the same message multiple times + warnings_given_to_user = getattr(Openssl, '_warnings_given', {}) + if openssl_url is None: + latest = 'http://www.openssl.org/source/openssl-{version}.tar.gz' + older = 'http://www.openssl.org/source/old/{version_number}/openssl-{version_full}.tar.gz' + # Try to use the url where the latest tarballs are stored. If the url does not exist (404), then + # return the url for older format + version_number = '.'.join([str(x) for x in version[:-1]]) + older_url = older.format(version_number=version_number, version_full=version) + latest_url = latest.format(version=version) + response = urllib.urlopen(latest.format(version=version)) + if response.getcode() == 404: + openssl_url = older_url + # Checks if we already warned the user for this particular version of OpenSSL. + # If not we display a warning message and mark this version + if not warnings_given_to_user.get(version, False): + tty.warn('This installation depends on an old version of OpenSSL, which may have known security issues. ') + tty.warn('Consider updating to the latest version of this package.') + tty.warn('More details at {homepage}'.format(homepage=Openssl.homepage)) + warnings_given_to_user[version] = True + else: + openssl_url = latest_url + # Store the computed URL + openssl_urls[version] = openssl_url + # Store the updated dictionary of URLS + Openssl._openssl_url = openssl_urls + # Store the updated dictionary of warnings + Openssl._warnings_given = warnings_given_to_user + + return openssl_url + + def install(self, spec, prefix): + # OpenSSL uses a variable APPS in its Makefile. If it happens to be set + # in the environment, then this will override what is set in the + # Makefile, leading to build errors. + env.pop('APPS', None) + if spec.satisfies("=darwin-x86_64") or spec.satisfies("=ppc64"): + # This needs to be done for all 64-bit architectures (except Linux, + # where it happens automatically?) + env['KERNEL_BITS'] = '64' + config = Executable("./config") + config("--prefix=%s" % prefix, + "--openssldir=%s" % join_path(prefix, 'etc', 'openssl'), + "zlib", + "no-krb5", + "shared") + # Remove non-standard compiler options if present. These options are + # present e.g. on Darwin. They are non-standard, i.e. most compilers + # (e.g. gcc) will not accept them. + filter_file(r'-arch x86_64', '', 'Makefile') + + make() + make("install") diff --git a/var/spack/packages/otf/package.py b/var/spack/repos/builtin/packages/otf/package.py index 52893dd265..52893dd265 100644 --- a/var/spack/packages/otf/package.py +++ b/var/spack/repos/builtin/packages/otf/package.py diff --git a/var/spack/repos/builtin/packages/otf2/package.py b/var/spack/repos/builtin/packages/otf2/package.py new file mode 100644 index 0000000000..c3d61bc228 --- /dev/null +++ b/var/spack/repos/builtin/packages/otf2/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Otf2(Package): + """ + The Open Trace Format 2 is a highly scalable, memory efficient event trace data format plus support library. + """ + + homepage = "http://www.vi-hps.org/score-p" + url = "http://www.vi-hps.org/upload/packages/otf2/otf2-1.4.tar.gz" + + version('2.0', '5b546188b25bc1c4e285e06dddf75dfc', + url="http://www.vi-hps.org/upload/packages/otf2/otf2-2.0.tar.gz") + version('1.5.1', '16a9df46e0da78e374f5d12c8cdc1109', + url='http://www.vi-hps.org/upload/packages/otf2/otf2-1.5.1.tar.gz') + version('1.4', 'a23c42e936eb9209c4e08b61c3cf5092', + url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.4.tar.gz") + version('1.3.1', 'd0ffc4e858455ace4f596f910e68c9f2', + url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.3.1.tar.gz") + version('1.2.1', '8fb3e11fb7489896596ae2c7c83d7fc8', + url="http://www.vi-hps.org/upload/packages/otf2/otf2-1.2.1.tar.gz") + + def install(self, spec, prefix): + configure_args=["--prefix=%s" % prefix, + "--enable-shared", + "CFLAGS=-fPIC", + "CXXFLAGS=-fPIC"] + configure(*configure_args) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/p4est/package.py b/var/spack/repos/builtin/packages/p4est/package.py new file mode 100644 index 0000000000..1e2969fe64 --- /dev/null +++ b/var/spack/repos/builtin/packages/p4est/package.py @@ -0,0 +1,34 @@ +from spack import * + +class P4est(Package): + """Dynamic management of a collection (a forest) of adaptive octrees in parallel""" + homepage = "http://www.p4est.org" + url = "http://p4est.github.io/release/p4est-1.1.tar.gz" + + version('1.1', '37ba7f4410958cfb38a2140339dbf64f') + + # disable by default to make it work on frontend of clusters + variant('tests', default=False, description='Run small tests') + + depends_on('mpi') + + def install(self, spec, prefix): + options = ['--enable-mpi', + '--enable-shared', + '--disable-vtk-binary', + '--without-blas', + 'CPPFLAGS=-DSC_LOG_PRIORITY=SC_LP_ESSENTIAL', + 'CFLAGS=-O2', + 'CC=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpicc'), # TODO: use ENV variables or MPI class wrappers + 'CXX=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpic++'), + 'FC=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpif90'), + 'F77=%s' % join_path(self.spec['mpi'].prefix.bin, 'mpif77'), + ] + + configure('--prefix=%s' % prefix, *options) + + make() + if '+tests' in self.spec: + make("check") + + make("install") diff --git a/var/spack/packages/pango/package.py b/var/spack/repos/builtin/packages/pango/package.py index df43625bf5..79dad3a3d2 100644 --- a/var/spack/packages/pango/package.py +++ b/var/spack/repos/builtin/packages/pango/package.py @@ -16,4 +16,4 @@ class Pango(Package): def install(self, spec, prefix): configure("--prefix=%s" % prefix) make() - make("install") + make("install", parallel=False) diff --git a/var/spack/repos/builtin/packages/papi/package.py b/var/spack/repos/builtin/packages/papi/package.py new file mode 100644 index 0000000000..74b3ea9ef9 --- /dev/null +++ b/var/spack/repos/builtin/packages/papi/package.py @@ -0,0 +1,47 @@ +from spack import * +import glob +import os +import sys +from llnl.util.filesystem import fix_darwin_install_name + +class Papi(Package): + """PAPI provides the tool designer and application engineer with a + consistent interface and methodology for use of the performance + counter hardware found in most major microprocessors. PAPI + enables software engineers to see, in near real time, the + relation between software performance and processor events. In + addition Component PAPI provides access to a collection of + components that expose performance measurement opportunites + across the hardware and software stack.""" + homepage = "http://icl.cs.utk.edu/papi/index.html" + + url = "http://icl.cs.utk.edu/projects/papi/downloads/papi-5.4.1.tar.gz" + version('5.4.3', '3211b5a5bb389fe692370f5cf4cc2412') + version('5.4.1', '9134a99219c79767a11463a76b0b01a2') + version('5.3.0', '367961dd0ab426e5ae367c2713924ffb') + + def install(self, spec, prefix): + with working_dir("src"): + + configure_args=["--prefix=%s" % prefix] + + # PAPI uses MPI if MPI is present; since we don't require + # an MPI package, we ensure that all attempts to use MPI + # fail, so that PAPI does not get confused + configure_args.append('MPICC=:') + + configure(*configure_args) + + # Don't use <malloc.h> + for level in [".", "*", "*/*"]: + files = glob.iglob(join_path(level, "*.[ch]")) + filter_file(r"\<malloc\.h\>", "<stdlib.h>", *files) + + make() + make("install") + + # The shared library is not installed correctly on Darwin + if sys.platform == 'darwin': + os.rename(join_path(prefix.lib, 'libpapi.so'), + join_path(prefix.lib, 'libpapi.dylib')) + fix_darwin_install_name(prefix.lib) diff --git a/var/spack/repos/builtin/packages/parallel-netcdf/package.py b/var/spack/repos/builtin/packages/parallel-netcdf/package.py new file mode 100644 index 0000000000..e6f8cf026b --- /dev/null +++ b/var/spack/repos/builtin/packages/parallel-netcdf/package.py @@ -0,0 +1,21 @@ +from spack import * + +class ParallelNetcdf(Package): + """Parallel netCDF (PnetCDF) is a library providing high-performance + parallel I/O while still maintaining file-format compatibility with + Unidata's NetCDF.""" + + homepage = "https://trac.mcs.anl.gov/projects/parallel-netcdf" + url = "http://cucis.ece.northwestern.edu/projects/PnetCDF/Release/parallel-netcdf-1.6.1.tar.gz" + + version('1.7.0', '267eab7b6f9dc78c4d0e6def2def3aea4bc7c9f0') + version('1.6.1', '62a094eb952f9d1e15f07d56e535052604f1ac34') + + depends_on("m4") + depends_on("mpi") + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix, + "--with-mpi=%s" % spec['mpi'].prefix) + make() + make("install") diff --git a/var/spack/packages/paraver/package.py b/var/spack/repos/builtin/packages/paraver/package.py index 5f8a153d4c..5f8a153d4c 100644 --- a/var/spack/packages/paraver/package.py +++ b/var/spack/repos/builtin/packages/paraver/package.py diff --git a/var/spack/packages/paraview/package.py b/var/spack/repos/builtin/packages/paraview/package.py index a0ff812ca2..60f8d3c243 100644 --- a/var/spack/packages/paraview/package.py +++ b/var/spack/repos/builtin/packages/paraview/package.py @@ -2,13 +2,13 @@ from spack import * class Paraview(Package): homepage = 'http://www.paraview.org' - url = 'http://www.paraview.org/files/v4.4/ParaView-v4.4.0-source.tar.gz' + url = 'http://www.paraview.org/files/v5.0/ParaView-v' + _url_str = 'http://www.paraview.org/files/v%s/ParaView-v%s-source.tar.gz' - version('4.4.0', 'fa1569857dd680ebb4d7ff89c2227378', url='http://www.paraview.org/files/v4.4/ParaView-v4.4.0-source.tar.gz') + version('4.4.0', 'fa1569857dd680ebb4d7ff89c2227378') + version('5.0.0', '4598f0b421460c8bbc635c9a1c3bdbee') variant('python', default=False, description='Enable Python support') - variant('matplotlib', default=False, description='Enable Matplotlib support') - variant('numpy', default=False, description='Enable NumPy support') variant('tcl', default=False, description='Enable TCL support') @@ -16,26 +16,34 @@ class Paraview(Package): variant('osmesa', default=False, description='Enable OSMesa support') variant('qt', default=False, description='Enable Qt support') + variant('opengl2', default=False, description='Enable OpenGL2 backend') - depends_on('python', when='+python') - depends_on('py-numpy', when='+python+numpy') - depends_on('py-matplotlib', when='+python+matplotlib') + depends_on('python@2:2.7', when='+python') + depends_on('py-numpy', when='+python') + depends_on('py-matplotlib', when='+python') depends_on('tcl', when='+tcl') depends_on('mpi', when='+mpi') - depends_on('qt', when='+qt') + depends_on('qt@:4', when='+qt') depends_on('bzip2') depends_on('freetype') - depends_on('hdf5') # drags in mpi + #depends_on('hdf5+mpi', when='+mpi') + #depends_on('hdf5~mpi', when='~mpi') depends_on('jpeg') depends_on('libpng') depends_on('libtiff') - #depends_on('libxml2') # drags in python - depends_on('netcdf') + depends_on('libxml2') + #depends_on('netcdf') + #depends_on('netcdf-cxx') #depends_on('protobuf') # version mismatches? #depends_on('sqlite') # external version not supported depends_on('zlib') + def url_for_version(self, version): + """Handle ParaView version-based custom URLs.""" + return self._url_str % (version.up_to(2), version) + + def install(self, spec, prefix): with working_dir('spack-build', create=True): def feature_to_bool(feature, on='ON', off='OFF'): @@ -49,7 +57,11 @@ class Paraview(Package): feature_args = std_cmake_args[:] feature_args.append('-DPARAVIEW_BUILD_QT_GUI:BOOL=%s' % feature_to_bool('+qt')) feature_args.append('-DPARAVIEW_ENABLE_PYTHON:BOOL=%s' % feature_to_bool('+python')) + if '+python' in spec: + feature_args.append('-DPYTHON_EXECUTABLE:FILEPATH=%s/bin/python' % spec['python'].prefix) feature_args.append('-DPARAVIEW_USE_MPI:BOOL=%s' % feature_to_bool('+mpi')) + if '+mpi' in spec: + feature_args.append('-DMPIEXEC:FILEPATH=%s/bin/mpiexec' % spec['mpi'].prefix) feature_args.append('-DVTK_ENABLE_TCL_WRAPPING:BOOL=%s' % feature_to_bool('+tcl')) feature_args.append('-DVTK_OPENGL_HAS_OSMESA:BOOL=%s' % feature_to_bool('+osmesa')) feature_args.append('-DVTK_USE_X:BOOL=%s' % nfeature_to_bool('+osmesa')) @@ -57,16 +69,20 @@ class Paraview(Package): feature_args.extend(std_cmake_args) + if 'darwin' in self.spec.architecture: + feature_args.append('-DVTK_USE_X:BOOL=OFF') + feature_args.append('-DPARAVIEW_DO_UNIX_STYLE_INSTALLS:BOOL=ON') + cmake('..', '-DCMAKE_INSTALL_PREFIX:PATH=%s' % prefix, '-DBUILD_TESTING:BOOL=OFF', - '-DVTK_USER_SYSTEM_FREETYPE:BOOL=ON', - '-DVTK_USER_SYSTEM_HDF5:BOOL=ON', - '-DVTK_USER_SYSTEM_JPEG:BOOL=ON', - #'-DVTK_USER_SYSTEM_LIBXML2:BOOL=ON', - '-DVTK_USER_SYSTEM_NETCDF:BOOL=ON', - '-DVTK_USER_SYSTEM_TIFF:BOOL=ON', - '-DVTK_USER_SYSTEM_ZLIB:BOOL=ON', + '-DVTK_USE_SYSTEM_FREETYPE:BOOL=ON', + '-DVTK_USE_SYSTEM_HDF5:BOOL=OFF', + '-DVTK_USE_SYSTEM_JPEG:BOOL=ON', + '-DVTK_USE_SYSTEM_LIBXML2:BOOL=ON', + '-DVTK_USE_SYSTEM_NETCDF:BOOL=OFF', + '-DVTK_USE_SYSTEM_TIFF:BOOL=ON', + '-DVTK_USE_SYSTEM_ZLIB:BOOL=ON', *feature_args) make() make('install') diff --git a/var/spack/repos/builtin/packages/parmetis/enable_external_metis.patch b/var/spack/repos/builtin/packages/parmetis/enable_external_metis.patch new file mode 100644 index 0000000000..e4f2729483 --- /dev/null +++ b/var/spack/repos/builtin/packages/parmetis/enable_external_metis.patch @@ -0,0 +1,71 @@ +diff --git a/CMakeLists.txt b/CMakeLists.txt +index ca945dd..aff8b5f 100644 +--- a/CMakeLists.txt ++++ b/CMakeLists.txt +@@ -23,7 +23,7 @@ else() + set(ParMETIS_LIBRARY_TYPE STATIC) + endif() + +-include(${GKLIB_PATH}/GKlibSystem.cmake) ++include_directories(${GKLIB_PATH}) + + # List of paths that the compiler will search for header files. + # i.e., the -I equivalent +@@ -33,7 +33,7 @@ include_directories(${GKLIB_PATH}) + include_directories(${METIS_PATH}/include) + + # List of directories that cmake will look for CMakeLists.txt +-add_subdirectory(${METIS_PATH}/libmetis ${CMAKE_BINARY_DIR}/libmetis) ++find_library(METIS_LIBRARY metis PATHS ${METIS_PATH}/lib) + add_subdirectory(include) + add_subdirectory(libparmetis) + add_subdirectory(programs) +diff --git a/libparmetis/CMakeLists.txt b/libparmetis/CMakeLists.txt +index 9cfc8a7..e0c4de7 100644 +--- a/libparmetis/CMakeLists.txt ++++ b/libparmetis/CMakeLists.txt +@@ -5,7 +5,10 @@ file(GLOB parmetis_sources *.c) + # Create libparmetis + add_library(parmetis ${ParMETIS_LIBRARY_TYPE} ${parmetis_sources}) + # Link with metis and MPI libraries. +-target_link_libraries(parmetis metis ${MPI_LIBRARIES}) ++target_link_libraries(parmetis ${METIS_LIBRARY} ${MPI_LIBRARIES}) ++if(UNIX) ++ target_link_libraries(parmetis m) ++endif() + set_target_properties(parmetis PROPERTIES LINK_FLAGS "${MPI_LINK_FLAGS}") + + install(TARGETS parmetis +diff --git a/libparmetis/parmetislib.h b/libparmetis/parmetislib.h +index c1daeeb..07511f6 100644 +--- a/libparmetis/parmetislib.h ++++ b/libparmetis/parmetislib.h +@@ -20,13 +20,12 @@ + + #include <parmetis.h> + +-#include "../metis/libmetis/gklib_defs.h" ++#include <gklib_defs.h> + +-#include <mpi.h> ++#include <mpi.h> + + #include <rename.h> + #include <defs.h> + #include <struct.h> + #include <macros.h> + #include <proto.h> +- +diff --git a/programs/parmetisbin.h b/programs/parmetisbin.h +index e26cd2d..d156480 100644 +--- a/programs/parmetisbin.h ++++ b/programs/parmetisbin.h +@@ -19,7 +19,7 @@ + #include <GKlib.h> + #include <parmetis.h> + +-#include "../metis/libmetis/gklib_defs.h" ++#include <gklib_defs.h> + #include "../libparmetis/rename.h" + #include "../libparmetis/defs.h" + #include "../libparmetis/struct.h" diff --git a/var/spack/repos/builtin/packages/parmetis/package.py b/var/spack/repos/builtin/packages/parmetis/package.py new file mode 100644 index 0000000000..b49f8dae00 --- /dev/null +++ b/var/spack/repos/builtin/packages/parmetis/package.py @@ -0,0 +1,89 @@ +############################################################################## +# Copyright (c) 2013-2015, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * +import sys + +class Parmetis(Package): + """ + ParMETIS is an MPI-based parallel library that implements a variety of algorithms for partitioning unstructured + graphs, meshes, and for computing fill-reducing orderings of sparse matrices. + """ + homepage = 'http://glaros.dtc.umn.edu/gkhome/metis/parmetis/overview' + url = 'http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis/parmetis-4.0.3.tar.gz' + + version('4.0.3', 'f69c479586bf6bb7aff6a9bc0c739628') + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds the library in debug mode') + variant('gdb', default=False, description='Enables gdb support') + + depends_on('cmake @2.8:') # build dependency + depends_on('mpi') + + patch('enable_external_metis.patch') + depends_on('metis@5:') + + # bug fixes from PETSc developers + # https://bitbucket.org/petsc/pkg-parmetis/commits/1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b/raw/ + patch('pkg-parmetis-1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b.patch') + # https://bitbucket.org/petsc/pkg-parmetis/commits/82409d68aa1d6cbc70740d0f35024aae17f7d5cb/raw/ + patch('pkg-parmetis-82409d68aa1d6cbc70740d0f35024aae17f7d5cb.patch') + + depends_on('gdb', when='+gdb') + + def install(self, spec, prefix): + options = [] + options.extend(std_cmake_args) + + build_directory = join_path(self.stage.path, 'spack-build') + source_directory = self.stage.source_path + metis_source = join_path(source_directory, 'metis') + + # FIXME : Once a contract is defined, MPI compilers should be retrieved indirectly via spec['mpi'] in case + # FIXME : they use a non-standard name + options.extend(['-DGKLIB_PATH:PATH={metis_source}/GKlib'.format(metis_source=spec['metis'].prefix.include), + '-DMETIS_PATH:PATH={metis_source}'.format(metis_source=spec['metis'].prefix), + '-DCMAKE_C_COMPILER:STRING=mpicc', + '-DCMAKE_CXX_COMPILER:STRING=mpicxx']) + + if '+shared' in spec: + options.append('-DSHARED:BOOL=ON') + + if '+debug' in spec: + options.extend(['-DDEBUG:BOOL=ON', + '-DCMAKE_BUILD_TYPE:STRING=Debug']) + + if '+gdb' in spec: + options.append('-DGDB:BOOL=ON') + + with working_dir(build_directory, create=True): + cmake(source_directory, *options) + make() + make("install") + + # The shared library is not installed correctly on Darwin; correct this + if (sys.platform == 'darwin') and ('+shared' in spec): + fix_darwin_install_name(prefix.lib) diff --git a/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b.patch b/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b.patch new file mode 100644 index 0000000000..e6b8056c21 --- /dev/null +++ b/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b.patch @@ -0,0 +1,77 @@ +From 1c1a9fd0f408dc4d42c57f5c3ee6ace411eb222b Mon Sep 17 00:00:00 2001 +From: Jed Brown <jed@59A2.org> +Date: Fri, 12 Oct 2012 15:45:10 -0500 +Subject: [PATCH] ParMetis bug fixes reported by John Fettig [petsc-maint + #133631] + +''' +I have also reported to to Karypis but have received zero +response and he hasn't released any updates to the original release +either. At least he approved my forum posting so that other people +can see the bug and the fix. +http://glaros.dtc.umn.edu/gkhome/node/837 +''' + +Hg-commit: 1c2b9fe39201d404b493885093b5992028b9b8d4 +--- + libparmetis/xyzpart.c | 12 ++++++------ + 1 file changed, 6 insertions(+), 6 deletions(-) + +diff --git a/libparmetis/xyzpart.c b/libparmetis/xyzpart.c +index 3a2c289..63abfcb 100644 +--- a/libparmetis/xyzpart.c ++++ b/libparmetis/xyzpart.c +@@ -104,7 +104,7 @@ void IRBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + + for (i=0; i<nbins; i++) + emarkers[i] = gmin + (gmax-gmin)*i/nbins; +- emarkers[nbins] = gmax*(1.0+2.0*REAL_EPSILON); ++ emarkers[nbins] = gmax*(1.0+copysign(1.0,gmax)*2.0*REAL_EPSILON); + + /* get into a iterative backet boundary refinement */ + for (l=0; l<5; l++) { +@@ -152,7 +152,7 @@ void IRBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + } + } + nemarkers[0] = gmin; +- nemarkers[nbins] = gmax*(1.0+2.0*REAL_EPSILON); ++ nemarkers[nbins] = gmax*(1.0+copysign(1.0,gmax)*2.0*REAL_EPSILON); + rcopy(nbins+1, nemarkers, emarkers); + } + +@@ -218,7 +218,7 @@ void RBBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + + emarkers[0] = gmin; + emarkers[1] = gsum/gnvtxs; +- emarkers[2] = gmax*(1.0+2.0*REAL_EPSILON); ++ emarkers[2] = gmax*(1.0+(gmax < 0 ? -1. : 1.)*2.0*REAL_EPSILON); + cnbins = 2; + + /* get into a iterative backet boundary refinement */ +@@ -227,7 +227,7 @@ void RBBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + iset(cnbins, 0, lcounts); + rset(cnbins, 0, lsums); + for (j=0, i=0; i<nvtxs;) { +- if (cand[i].key < emarkers[j+1]) { ++ if (cand[i].key <= emarkers[j+1]) { + lcounts[j]++; + lsums[j] += cand[i].key; + i++; +@@ -272,12 +272,12 @@ void RBBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + + rsorti(cnbins, nemarkers); + rcopy(cnbins, nemarkers, emarkers); +- emarkers[cnbins] = gmax*(1.0+2.0*REAL_EPSILON); ++ emarkers[cnbins] = gmax*(1.0+(gmax < 0 ? -1. : 1.)*2.0*REAL_EPSILON); + } + + /* assign the coordinate to the appropriate bin */ + for (j=0, i=0; i<nvtxs;) { +- if (cand[i].key < emarkers[j+1]) { ++ if (cand[i].key <= emarkers[j+1]) { + bxyz[cand[i].val*ndims+k] = j; + i++; + } +-- +2.1.1.1.g1fb337f + diff --git a/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-82409d68aa1d6cbc70740d0f35024aae17f7d5cb.patch b/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-82409d68aa1d6cbc70740d0f35024aae17f7d5cb.patch new file mode 100644 index 0000000000..9651d55347 --- /dev/null +++ b/var/spack/repos/builtin/packages/parmetis/pkg-parmetis-82409d68aa1d6cbc70740d0f35024aae17f7d5cb.patch @@ -0,0 +1,35 @@ +From 82409d68aa1d6cbc70740d0f35024aae17f7d5cb Mon Sep 17 00:00:00 2001 +From: Sean Farley <sean@mcs.anl.gov> +Date: Tue, 20 Mar 2012 11:59:44 -0500 +Subject: [PATCH] parmetis: fix bug reported by jfettig; '<' to '<=' in xyzpart + +Hg-commit: 2dd2eae596acaabbc80e0ef875182616f868dbc2 +--- + libparmetis/xyzpart.c | 4 ++-- + 1 file changed, 2 insertions(+), 2 deletions(-) + +diff --git a/libparmetis/xyzpart.c b/libparmetis/xyzpart.c +index 307aed9..3a2c289 100644 +--- a/libparmetis/xyzpart.c ++++ b/libparmetis/xyzpart.c +@@ -111,7 +111,7 @@ void IRBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + /* determine bucket counts */ + iset(nbins, 0, lcounts); + for (j=0, i=0; i<nvtxs;) { +- if (cand[i].key < emarkers[j+1]) { ++ if (cand[i].key <= emarkers[j+1]) { + lcounts[j]++; + i++; + } +@@ -158,7 +158,7 @@ void IRBinCoordinates(ctrl_t *ctrl, graph_t *graph, idx_t ndims, real_t *xyz, + + /* assign the coordinate to the appropriate bin */ + for (j=0, i=0; i<nvtxs;) { +- if (cand[i].key < emarkers[j+1]) { ++ if (cand[i].key <= emarkers[j+1]) { + bxyz[cand[i].val*ndims+k] = j; + i++; + } +-- +2.1.1.1.g1fb337f + diff --git a/var/spack/packages/parpack/package.py b/var/spack/repos/builtin/packages/parpack/package.py index 622aceca04..622aceca04 100644 --- a/var/spack/packages/parpack/package.py +++ b/var/spack/repos/builtin/packages/parpack/package.py diff --git a/var/spack/repos/builtin/packages/patchelf/package.py b/var/spack/repos/builtin/packages/patchelf/package.py new file mode 100644 index 0000000000..036dc6bd17 --- /dev/null +++ b/var/spack/repos/builtin/packages/patchelf/package.py @@ -0,0 +1,16 @@ +from spack import * + +class Patchelf(Package): + """PatchELF is a small utility to modify the dynamic linker and RPATH of ELF executables.""" + + homepage = "https://nixos.org/patchelf.html" + url = "http://nixos.org/releases/patchelf/patchelf-0.8/patchelf-0.8.tar.gz" + list_url = "http://nixos.org/releases/patchelf/" + list_depth = 2 + + version('0.8', '407b229e6a681ffb0e2cdd5915cb2d01') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/pcre/package.py b/var/spack/repos/builtin/packages/pcre/package.py index 3424048a6c..e38d337e3d 100644 --- a/var/spack/packages/pcre/package.py +++ b/var/spack/repos/builtin/packages/pcre/package.py @@ -8,6 +8,7 @@ class Pcre(Package): url = "ftp://ftp.csx.cam.ac.uk/pub/software/programming/pcre/pcre-8.36.tar.bz2" version('8.36', 'b767bc9af0c20bc9c1fe403b0d41ad97') + version('8.38', '00aabbfe56d5a48b270f999b508c5ad2') def install(self, spec, prefix): configure("--prefix=%s" % prefix) diff --git a/var/spack/repos/builtin/packages/pcre2/package.py b/var/spack/repos/builtin/packages/pcre2/package.py new file mode 100644 index 0000000000..6a0244a15e --- /dev/null +++ b/var/spack/repos/builtin/packages/pcre2/package.py @@ -0,0 +1,15 @@ +from spack import * + +class Pcre2(Package): + """The PCRE2 package contains Perl Compatible Regular Expression + libraries. These are useful for implementing regular expression + pattern matching using the same syntax and semantics as Perl 5.""" + homepage = "http://www.pcre.org""" + url = "ftp://ftp.csx.cam.ac.uk/pub/software/programming/pcre/pcre2-10.20.tar.bz2" + + version('10.20', 'dcd027c57ecfdc8a6c3af9d0acf5e3f7') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/pdt/package.py b/var/spack/repos/builtin/packages/pdt/package.py new file mode 100644 index 0000000000..ce3b793e30 --- /dev/null +++ b/var/spack/repos/builtin/packages/pdt/package.py @@ -0,0 +1,45 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Pdt(Package): + """ + Program Database Toolkit (PDT) is a framework for analyzing source code written in several programming languages + and for making rich program knowledge accessible to developers of static and dynamic analysis tools. PDT implements + a standard program representation, the program database (PDB), that can be accessed in a uniform way through a + class library supporting common PDB operations. + """ + homepage = "https://www.cs.uoregon.edu/research/pdt/home.php" + url = "https://www.cs.uoregon.edu/research/tau/pdt_releases/pdt-3.21.tar.gz" + + version('3.21', '8df94298b71703decf680709a4ddf68f') + version('3.19', 'ba5591994998771fdab216699e362228') + + def install(self, spec, prefix): + configure('-prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/petsc/package.py b/var/spack/repos/builtin/packages/petsc/package.py new file mode 100644 index 0000000000..1161dd7d67 --- /dev/null +++ b/var/spack/repos/builtin/packages/petsc/package.py @@ -0,0 +1,119 @@ +import os +from spack import * + + +class Petsc(Package): + """ + PETSc is a suite of data structures and routines for the scalable (parallel) solution of scientific applications + modeled by partial differential equations. + """ + + homepage = "http://www.mcs.anl.gov/petsc/index.html" + url = "http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/petsc-3.5.3.tar.gz" + + version('3.6.3', '91dd3522de5a5ef039ff8f50800db606') + version('3.5.3', 'd4fd2734661e89f18ac6014b5dd1ef2f') + version('3.5.2', 'ad170802b3b058b5deb9cd1f968e7e13') + version('3.5.1', 'a557e029711ebf425544e117ffa44d8f') + version('3.4.4', '7edbc68aa6d8d6a3295dd5f6c2f6979d') + + variant('shared', default=True, description='Enables the build of shared libraries') + variant('mpi', default=True, description='Activates MPI support') + variant('double', default=True, description='Switches between single and double precision') + variant('complex', default=False, description='Build with complex numbers') + variant('debug', default=False, description='Compile in debug mode') + + variant('metis', default=True, description='Activates support for metis and parmetis') + variant('hdf5', default=True, description='Activates support for HDF5 (only parallel)') + variant('boost', default=True, description='Activates support for Boost') + variant('hypre', default=True, description='Activates support for Hypre (only parallel)') + variant('mumps', default=True, description='Activates support for MUMPS (only parallel)') + variant('superlu-dist', default=True, description='Activates support for SuperluDist (only parallel)') + + # Virtual dependencies + depends_on('blas') + depends_on('lapack') + depends_on('mpi', when='+mpi') + + # Build dependencies + depends_on('python @2.6:2.7') + + # Other dependencies + depends_on('boost', when='+boost') + depends_on('metis@5:', when='+metis') + + depends_on('hdf5+mpi', when='+hdf5+mpi') + depends_on('parmetis', when='+metis+mpi') + # Hypre does not support complex numbers. + # Also PETSc prefer to build it without internal superlu, likely due to conflict in headers + # see https://bitbucket.org/petsc/petsc/src/90564b43f6b05485163c147b464b5d6d28cde3ef/config/BuildSystem/config/packages/hypre.py + depends_on('hypre~internal-superlu', when='+hypre+mpi~complex') + depends_on('superlu-dist', when='+superlu-dist+mpi') + depends_on('mumps+mpi', when='+mumps+mpi') + depends_on('scalapack', when='+mumps+mpi') + + def mpi_dependent_options(self): + if '~mpi' in self.spec: + compiler_opts = [ + '--with-cc=%s' % os.environ['CC'], + '--with-cxx=%s' % (os.environ['CXX'] if self.compiler.cxx is not None else '0'), + '--with-fc=%s' % (os.environ['FC'] if self.compiler.fc is not None else '0'), + '--with-mpi=0' + ] + error_message_fmt = '\t{library} support requires "+mpi" to be activated' + + # If mpi is disabled (~mpi), it's an error to have any of these enabled. + # This generates a list of any such errors. + errors = [error_message_fmt.format(library=x) + for x in ('hdf5', 'hypre', 'parmetis','mumps','superlu-dist') + if ('+'+x) in self.spec] + if errors: + errors = ['incompatible variants given'] + errors + raise RuntimeError('\n'.join(errors)) + else: + compiler_opts = [ + '--with-mpi=1', + '--with-mpi-dir=%s' % self.spec['mpi'].prefix, + ] + return compiler_opts + + def install(self, spec, prefix): + options = ['--with-ssl=0'] + options.extend(self.mpi_dependent_options()) + options.extend([ + '--with-precision=%s' % ('double' if '+double' in spec else 'single'), + '--with-scalar-type=%s' % ('complex' if '+complex' in spec else 'real'), + '--with-shared-libraries=%s' % ('1' if '+shared' in spec else '0'), + '--with-debugging=%s' % ('1' if '+debug' in spec else '0'), + '--with-blas-lapack-dir=%s' % spec['lapack'].prefix + ]) + # Activates library support if needed + for library in ('metis', 'boost', 'hdf5', 'hypre', 'parmetis','mumps','scalapack'): + options.append( + '--with-{library}={value}'.format(library=library, value=('1' if library in spec else '0')) + ) + if library in spec: + options.append( + '--with-{library}-dir={path}'.format(library=library, path=spec[library].prefix) + ) + # PETSc does not pick up SuperluDist from the dir as they look for superlu_dist_4.1.a + if 'superlu-dist' in spec: + options.extend([ + '--with-superlu_dist-include=%s' % spec['superlu-dist'].prefix.include, + '--with-superlu_dist-lib=%s' % join_path(spec['superlu-dist'].prefix.lib, 'libsuperlu_dist.a'), + '--with-superlu_dist=1' + ]) + else: + options.append( + '--with-superlu_dist=0' + ) + + configure('--prefix=%s' % prefix, *options) + + # PETSc has its own way of doing parallel make. + make('MAKE_NP=%s' % make_jobs, parallel=False) + make("install") + + def setup_dependent_environment(self, spack_env, run_env, dependent_spec): + # set up PETSC_DIR for everyone using PETSc package + spack_env.set('PETSC_DIR', self.prefix) diff --git a/var/spack/packages/pidx/package.py b/var/spack/repos/builtin/packages/pidx/package.py index 81aed62fb1..81aed62fb1 100644 --- a/var/spack/packages/pidx/package.py +++ b/var/spack/repos/builtin/packages/pidx/package.py diff --git a/var/spack/packages/pixman/package.py b/var/spack/repos/builtin/packages/pixman/package.py index 895cbdbca5..895cbdbca5 100644 --- a/var/spack/packages/pixman/package.py +++ b/var/spack/repos/builtin/packages/pixman/package.py diff --git a/var/spack/packages/pkg-config/package.py b/var/spack/repos/builtin/packages/pkg-config/package.py index 9964c6ce34..a803bc3f9b 100644 --- a/var/spack/packages/pkg-config/package.py +++ b/var/spack/repos/builtin/packages/pkg-config/package.py @@ -10,7 +10,12 @@ class PkgConfig(Package): parallel = False def install(self, spec, prefix): - configure("--prefix=%s" %prefix, "--enable-shared") + configure("--prefix=%s" %prefix, + "--enable-shared", + "--with-internal-glib") # There's a bootstrapping problem here; + # glib uses pkg-config as well, so + # break the cycle by using the internal + # glib. make() make("install") diff --git a/var/spack/packages/pmgr_collective/package.py b/var/spack/repos/builtin/packages/pmgr_collective/package.py index 5d9b02acc3..1fc47c658f 100644 --- a/var/spack/packages/pmgr_collective/package.py +++ b/var/spack/repos/builtin/packages/pmgr_collective/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/packages/postgresql/package.py b/var/spack/repos/builtin/packages/postgresql/package.py index 46922b7b71..46922b7b71 100644 --- a/var/spack/packages/postgresql/package.py +++ b/var/spack/repos/builtin/packages/postgresql/package.py diff --git a/var/spack/packages/ppl/package.py b/var/spack/repos/builtin/packages/ppl/package.py index 018d5c523d..018d5c523d 100644 --- a/var/spack/packages/ppl/package.py +++ b/var/spack/repos/builtin/packages/ppl/package.py diff --git a/var/spack/repos/builtin/packages/proj/package.py b/var/spack/repos/builtin/packages/proj/package.py new file mode 100644 index 0000000000..797772f4f6 --- /dev/null +++ b/var/spack/repos/builtin/packages/proj/package.py @@ -0,0 +1,20 @@ +from spack import * + +class Proj(Package): + """Cartographic Projections""" + homepage = "https://github.com/OSGeo/proj.4/wiki" + url = "http://download.osgeo.org/proj/proj-4.9.2.tar.gz" + + version('4.9.2', '9843131676e31bbd903d60ae7dc76cf9') + version('4.9.1', '3cbb2a964fd19a496f5f4265a717d31c') + version('4.8.0', 'd815838c92a29179298c126effbb1537') + version('4.7.0', '927d34623b52e0209ba2bfcca18fe8cd') + version('4.6.1', '7dbaab8431ad50c25669fd3fb28dc493') + + # No dependencies + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/packages/protobuf/package.py b/var/spack/repos/builtin/packages/protobuf/package.py index 34085c7ce9..34085c7ce9 100644 --- a/var/spack/packages/protobuf/package.py +++ b/var/spack/repos/builtin/packages/protobuf/package.py diff --git a/var/spack/repos/builtin/packages/py-astropy/package.py b/var/spack/repos/builtin/packages/py-astropy/package.py new file mode 100644 index 0000000000..d138a514f6 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-astropy/package.py @@ -0,0 +1,28 @@ +from spack import * + +class PyAstropy(Package): + """ + The Astropy Project is a community effort to develop a single core + package for Astronomy in Python and foster interoperability between + Python astronomy packages. + """ + homepage = 'http://www.astropy.org/' + + version('1.1.post1', 'b52919f657a37d45cc45f5cb0f58c44d') + + def url_for_version(self, version): + return 'https://pypi.python.org/packages/source/a/astropy/astropy-{0}.tar.gz'.format(version) + + extends('python') + + depends_on('cfitsio') + depends_on('expat') + depends_on('py-h5py') + depends_on('py-numpy') + depends_on('py-scipy') + + def install(self, spec, prefix): + python('setup.py', 'build', '--use-system-cfitsio', + '--use-system-expat') + python('setup.py', 'install', '--prefix=' + prefix) + diff --git a/var/spack/packages/py-basemap/package.py b/var/spack/repos/builtin/packages/py-basemap/package.py index 45f1085ba1..8dfc99b28d 100644 --- a/var/spack/packages/py-basemap/package.py +++ b/var/spack/repos/builtin/packages/py-basemap/package.py @@ -11,8 +11,8 @@ class PyBasemap(Package): extends('python') depends_on('py-setuptools') depends_on('py-numpy') - depends_on('py-matplotlib') - depends_on('py-pil') + depends_on('py-matplotlib+gui') + depends_on('py-pillow') depends_on("geos") def install(self, spec, prefix): diff --git a/var/spack/packages/py-biopython/package.py b/var/spack/repos/builtin/packages/py-biopython/package.py index 8ecaf48626..8ecaf48626 100644 --- a/var/spack/packages/py-biopython/package.py +++ b/var/spack/repos/builtin/packages/py-biopython/package.py diff --git a/var/spack/repos/builtin/packages/py-blessings/package.py b/var/spack/repos/builtin/packages/py-blessings/package.py new file mode 100644 index 0000000000..f2475a0efd --- /dev/null +++ b/var/spack/repos/builtin/packages/py-blessings/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyBlessings(Package): + """A nicer, kinder way to write to the terminal """ + homepage = "https://github.com/erikrose/blessings" + url = "https://pypi.python.org/packages/source/b/blessings/blessings-1.6.tar.gz" + + version('1.6', '4f552a8ebcd4982693c92571beb99394') + + depends_on('py-setuptools') + + extends("python") + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-bottleneck/package.py b/var/spack/repos/builtin/packages/py-bottleneck/package.py new file mode 100644 index 0000000000..0aa4208b4d --- /dev/null +++ b/var/spack/repos/builtin/packages/py-bottleneck/package.py @@ -0,0 +1,14 @@ +from spack import * + +class PyBottleneck(Package): + """Bottleneck is a collection of fast NumPy array functions written in Cython.""" + homepage = "https://pypi.python.org/pypi/Bottleneck/1.0.0" + url = "https://pypi.python.org/packages/source/B/Bottleneck/Bottleneck-1.0.0.tar.gz" + + version('1.0.0', '380fa6f275bd24f27e7cf0e0d752f5d2') + + extends('python', ignore=r'bin/f2py$') + depends_on('py-numpy') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-cffi/package.py b/var/spack/repos/builtin/packages/py-cffi/package.py index a4d37483fe..909049a67c 100644 --- a/var/spack/packages/py-cffi/package.py +++ b/var/spack/repos/builtin/packages/py-cffi/package.py @@ -4,7 +4,7 @@ class PyCffi(Package): """Foreign Function Interface for Python calling C code""" homepage = "http://cffi.readthedocs.org/en/latest/" # base https://pypi.python.org/pypi/cffi - url = "https://pypi.python.org/packages/source/c/cffi/cffi-1.1.2.tar.gz#md5=" + url = "https://pypi.python.org/packages/source/c/cffi/cffi-1.1.2.tar.gz" version('1.1.2', 'ca6e6c45b45caa87aee9adc7c796eaea') diff --git a/var/spack/repos/builtin/packages/py-coverage/package.py b/var/spack/repos/builtin/packages/py-coverage/package.py new file mode 100644 index 0000000000..39b2ac3b01 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-coverage/package.py @@ -0,0 +1,16 @@ +from spack import * + +class PyCoverage(Package): + """ Testing coverage checker for python """ + # FIXME: add a proper url for your package's homepage here. + homepage = "http://nedbatchelder.com/code/coverage/" + url = "https://pypi.python.org/packages/source/c/coverage/coverage-4.0a6.tar.gz" + + version('4.0a6', '1bb4058062646148965bef0796b61efc') + + depends_on('py-setuptools') + + extends('python') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-cython/package.py b/var/spack/repos/builtin/packages/py-cython/package.py index 68eb735ad9..072355026e 100644 --- a/var/spack/packages/py-cython/package.py +++ b/var/spack/repos/builtin/packages/py-cython/package.py @@ -3,10 +3,14 @@ from spack import * class PyCython(Package): """The Cython compiler for writing C extensions for the Python language.""" homepage = "https://pypi.python.org/pypi/cython" - url = "https://pypi.python.org/packages/source/C/Cython/cython-0.22.tar.gz" + url = "https://pypi.python.org/packages/source/C/Cython/Cython-0.22.tar.gz" - version('0.21.2', 'd21adb870c75680dc857cd05d41046a4') + version('0.23.5', '66b62989a67c55af016c916da36e7514') + version('0.23.4', '157df1f69bcec6b56fd97e0f2e057f6e') + + # These versions contain illegal Python3 code... version('0.22', '1ae25add4ef7b63ee9b4af697300d6b6') + version('0.21.2', 'd21adb870c75680dc857cd05d41046a4') extends('python') diff --git a/var/spack/repos/builtin/packages/py-dask/package.py b/var/spack/repos/builtin/packages/py-dask/package.py new file mode 100644 index 0000000000..cf0a16f21e --- /dev/null +++ b/var/spack/repos/builtin/packages/py-dask/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyDask(Package): + """Minimal task scheduling abstraction""" + homepage = "https://github.com/dask/dask/" + url = "https://pypi.python.org/packages/source/d/dask/dask-0.8.1.tar.gz" + + version('0.8.1', '5dd8e3a3823b3bc62c9a6d192e2cb5b4') + + extends('python') + + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-dateutil/package.py b/var/spack/repos/builtin/packages/py-dateutil/package.py index 0a17f2f2d2..b67e91ace6 100644 --- a/var/spack/packages/py-dateutil/package.py +++ b/var/spack/repos/builtin/packages/py-dateutil/package.py @@ -7,6 +7,7 @@ class PyDateutil(Package): version('2.4.0', '75714163bb96bedd07685cdb2071b8bc') version('2.4.2', '4ef68e1c485b09e9f034e10473e5add2') + version('2.5.2', 'eafe168e8f404bf384514f5116eedbb6') extends('python') depends_on('py-setuptools') diff --git a/var/spack/repos/builtin/packages/py-decorator/package.py b/var/spack/repos/builtin/packages/py-decorator/package.py new file mode 100644 index 0000000000..abbd9f43d1 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-decorator/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyDecorator(Package): + """The aim of the decorator module it to simplify the usage of decorators for the average programmer, and to popularize decorators by showing various non-trivial examples.""" + homepage = "https://github.com/micheles/decorator" + url = "https://pypi.python.org/packages/source/d/decorator/decorator-4.0.9.tar.gz" + + version('4.0.9', 'f12c5651ccd707e12a0abaa4f76cd69a') + + extends('python') + + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-epydoc/package.py b/var/spack/repos/builtin/packages/py-epydoc/package.py index af05510504..af05510504 100644 --- a/var/spack/packages/py-epydoc/package.py +++ b/var/spack/repos/builtin/packages/py-epydoc/package.py diff --git a/var/spack/repos/builtin/packages/py-funcsigs/package.py b/var/spack/repos/builtin/packages/py-funcsigs/package.py new file mode 100644 index 0000000000..a428890288 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-funcsigs/package.py @@ -0,0 +1,19 @@ +from spack import * +import os + +class PyFuncsigs(Package): + """Python function signatures from PEP362 for Python 2.6, 2.7 and 3.2.""" + homepage = "https://pypi.python.org/pypi/funcsigs" + url = "https://pypi.python.org/packages/source/f/funcsigs/funcsigs-0.4.tar.gz" + + version('0.4', 'fb1d031f284233e09701f6db1281c2a5') + + extends('python') + + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) + + + diff --git a/var/spack/packages/py-genders/package.py b/var/spack/repos/builtin/packages/py-genders/package.py index c49c8fd5b2..c49c8fd5b2 100644 --- a/var/spack/packages/py-genders/package.py +++ b/var/spack/repos/builtin/packages/py-genders/package.py diff --git a/var/spack/packages/py-gnuplot/package.py b/var/spack/repos/builtin/packages/py-gnuplot/package.py index ede4472c03..ede4472c03 100644 --- a/var/spack/packages/py-gnuplot/package.py +++ b/var/spack/repos/builtin/packages/py-gnuplot/package.py diff --git a/var/spack/packages/py-h5py/package.py b/var/spack/repos/builtin/packages/py-h5py/package.py index 6293da5407..6293da5407 100644 --- a/var/spack/packages/py-h5py/package.py +++ b/var/spack/repos/builtin/packages/py-h5py/package.py diff --git a/var/spack/packages/py-ipython/package.py b/var/spack/repos/builtin/packages/py-ipython/package.py index 8d0e64a07f..8d0e64a07f 100644 --- a/var/spack/packages/py-ipython/package.py +++ b/var/spack/repos/builtin/packages/py-ipython/package.py diff --git a/var/spack/packages/py-lockfile/package.py b/var/spack/repos/builtin/packages/py-lockfile/package.py index 8722914d94..8722914d94 100644 --- a/var/spack/packages/py-lockfile/package.py +++ b/var/spack/repos/builtin/packages/py-lockfile/package.py diff --git a/var/spack/packages/py-mako/package.py b/var/spack/repos/builtin/packages/py-mako/package.py index 3e91ffd8e5..3e91ffd8e5 100644 --- a/var/spack/packages/py-mako/package.py +++ b/var/spack/repos/builtin/packages/py-mako/package.py diff --git a/var/spack/packages/py-matplotlib/package.py b/var/spack/repos/builtin/packages/py-matplotlib/package.py index e7ce3dfd24..19194c942e 100644 --- a/var/spack/packages/py-matplotlib/package.py +++ b/var/spack/repos/builtin/packages/py-matplotlib/package.py @@ -9,21 +9,29 @@ class PyMatplotlib(Package): version('1.4.2', '7d22efb6cce475025733c50487bd8898') version('1.4.3', '86af2e3e3c61849ac7576a6f5ca44267') - extends('python', ignore=r'bin/nosetests.*$') + variant('gui', default=False, description='Enable GUI') + variant('ipython', default=False, description='Enable ipython support') - depends_on('py-pyside') - depends_on('py-ipython') + extends('python', ignore=r'bin/nosetests.*$|bin/pbr$|bin/f2py$') + + depends_on('py-pyside', when='+gui') + depends_on('py-ipython', when='+ipython') depends_on('py-pyparsing') depends_on('py-six') depends_on('py-dateutil') depends_on('py-pytz') depends_on('py-nose') depends_on('py-numpy') + depends_on('py-mock') + depends_on('py-pbr') + depends_on('py-funcsigs') - depends_on('qt') + depends_on('pkg-config') + depends_on('freetype') + depends_on('qt', when='+gui') depends_on('bzip2') - depends_on('tcl') - depends_on('tk') + depends_on('tcl', when='+gui') + depends_on('tk', when='+gui') depends_on('qhull') def install(self, spec, prefix): diff --git a/var/spack/packages/py-mock/package.py b/var/spack/repos/builtin/packages/py-mock/package.py index 3b08428ba0..e89af8802a 100644 --- a/var/spack/packages/py-mock/package.py +++ b/var/spack/repos/builtin/packages/py-mock/package.py @@ -11,6 +11,7 @@ class PyMock(Package): version('1.3.0', '73ee8a4afb3ff4da1b4afa287f39fdeb') extends('python') + depends_on('py-pbr') depends_on('py-setuptools@17.1:') def install(self, spec, prefix): diff --git a/var/spack/packages/py-mpi4py/package.py b/var/spack/repos/builtin/packages/py-mpi4py/package.py index 8001689a18..f599205644 100644 --- a/var/spack/packages/py-mpi4py/package.py +++ b/var/spack/repos/builtin/packages/py-mpi4py/package.py @@ -5,7 +5,9 @@ class PyMpi4py(Package): homepage = "https://pypi.python.org/pypi/mpi4py" url = "https://pypi.python.org/packages/source/m/mpi4py/mpi4py-1.3.1.tar.gz" + version('2.0.0', '4f7d8126d7367c239fd67615680990e3') version('1.3.1', 'dbe9d22bdc8ed965c23a7ceb6f32fc3c') + extends('python') depends_on('py-setuptools') depends_on('mpi') diff --git a/var/spack/repos/builtin/packages/py-mpmath/package.py b/var/spack/repos/builtin/packages/py-mpmath/package.py new file mode 100644 index 0000000000..4d3261ae8f --- /dev/null +++ b/var/spack/repos/builtin/packages/py-mpmath/package.py @@ -0,0 +1,13 @@ +from spack import * + +class PyMpmath(Package): + """A Python library for arbitrary-precision floating-point arithmetic.""" + homepage = "http://mpmath.org" + url = "https://pypi.python.org/packages/source/m/mpmath/mpmath-all-0.19.tar.gz" + + version('0.19', 'd1b7e19dd6830d0d7b5e1bc93d46c02c') + + extends('python') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-mx/package.py b/var/spack/repos/builtin/packages/py-mx/package.py index 717ee0562b..717ee0562b 100644 --- a/var/spack/packages/py-mx/package.py +++ b/var/spack/repos/builtin/packages/py-mx/package.py diff --git a/var/spack/repos/builtin/packages/py-mysqldb1/package.py b/var/spack/repos/builtin/packages/py-mysqldb1/package.py new file mode 100644 index 0000000000..fda02b4982 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-mysqldb1/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyMysqldb1(Package): + """Legacy mysql bindings for python""" + homepage = "https://github.com/farcepest/MySQLdb1" + url = "https://github.com/farcepest/MySQLdb1/archive/MySQLdb-1.2.5.tar.gz" + + version('1.2.5', '332c8f4955b6bc0c79ea15170bf7321b') + + extends('python') + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) + diff --git a/var/spack/repos/builtin/packages/py-netcdf/package.py b/var/spack/repos/builtin/packages/py-netcdf/package.py new file mode 100644 index 0000000000..7faa15ad25 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-netcdf/package.py @@ -0,0 +1,16 @@ +from spack import * + +class PyNetcdf(Package): + """Python interface to the netCDF Library.""" + homepage = "http://unidata.github.io/netcdf4-python" + url = "https://github.com/Unidata/netcdf4-python/tarball/v1.2.3.1rel" + + version('1.2.3.1', '4fc4320d4f2a77b894ebf8da1c9895af') + + extends('python') + depends_on('py-numpy') + depends_on('py-cython') + depends_on('netcdf') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-networkx/package.py b/var/spack/repos/builtin/packages/py-networkx/package.py new file mode 100644 index 0000000000..893146ec3e --- /dev/null +++ b/var/spack/repos/builtin/packages/py-networkx/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyNetworkx(Package): + """NetworkX is a Python package for the creation, manipulation, and study of the structure, dynamics, and functions of complex networks.""" + homepage = "http://networkx.github.io/" + url = "https://pypi.python.org/packages/source/n/networkx/networkx-1.11.tar.gz" + + version('1.11', '6ef584a879e9163013e9a762e1cf7cd1') + + extends('python') + + depends_on('py-decorator') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-nose/package.py b/var/spack/repos/builtin/packages/py-nose/package.py index e7c6cf0264..c2c2b52e03 100644 --- a/var/spack/packages/py-nose/package.py +++ b/var/spack/repos/builtin/packages/py-nose/package.py @@ -1,14 +1,16 @@ from spack import * + class PyNose(Package): """nose extends the test loading and running features of unittest, making it easier to write, find and run tests.""" homepage = "https://pypi.python.org/pypi/nose" - url = "https://pypi.python.org/packages/source/n/nose/nose-1.3.4.tar.gz" + url = "https://pypi.python.org/packages/source/n/nose/nose-1.3.4.tar.gz" version('1.3.4', '6ed7169887580ddc9a8e16048d38274d') version('1.3.6', '0ca546d81ca8309080fc80cb389e7a16') + version('1.3.7', '4d3ad0ff07b61373d2cefc89c5d0b20b') extends('python', ignore=r'bin/nosetests.*$') depends_on('py-setuptools') diff --git a/var/spack/repos/builtin/packages/py-numexpr/package.py b/var/spack/repos/builtin/packages/py-numexpr/package.py new file mode 100644 index 0000000000..081a79dec6 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-numexpr/package.py @@ -0,0 +1,16 @@ +from spack import * +import re + +class PyNumexpr(Package): + """Fast numerical expression evaluator for NumPy""" + homepage = "https://pypi.python.org/pypi/numexpr" + url = "https://pypi.python.org/packages/source/n/numexpr/numexpr-2.4.6.tar.gz" + + version('2.4.6', '17ac6fafc9ea1ce3eb970b9abccb4fbd') + version('2.5', '84f66cced45ba3e30dcf77a937763aaa') + + extends('python', ignore=r'bin/f2py$') + depends_on('py-numpy') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-numpy/package.py b/var/spack/repos/builtin/packages/py-numpy/package.py new file mode 100644 index 0000000000..40988fb44a --- /dev/null +++ b/var/spack/repos/builtin/packages/py-numpy/package.py @@ -0,0 +1,44 @@ +from spack import * + +class PyNumpy(Package): + """NumPy is the fundamental package for scientific computing with Python. + It contains among other things: a powerful N-dimensional array object, + sophisticated (broadcasting) functions, tools for integrating C/C++ and + Fortran code, and useful linear algebra, Fourier transform, and random + number capabilities""" + homepage = "http://www.numpy.org/" + url = "https://pypi.python.org/packages/source/n/numpy/numpy-1.9.1.tar.gz" + + version('1.11.0', 'bc56fb9fc2895aa4961802ffbdb31d0b') + version('1.10.4', 'aed294de0aa1ac7bd3f9745f4f1968ad') + version('1.9.2', 'a1ed53432dbcd256398898d35bc8e645') + version('1.9.1', '78842b73560ec378142665e712ae4ad9') + + + variant('blas', default=True) + variant('lapack', default=True) + + extends('python') + depends_on('py-nose') + depends_on('blas', when='+blas') + depends_on('lapack', when='+lapack') + + def install(self, spec, prefix): + libraries = [] + library_dirs = [] + + if '+blas' in spec: + libraries.append('blas') + library_dirs.append(spec['blas'].prefix.lib) + if '+lapack' in spec: + libraries.append('lapack') + library_dirs.append(spec['lapack'].prefix.lib) + + if '+blas' in spec or '+lapack' in spec: + with open('site.cfg', 'w') as f: + f.write('[DEFAULT]\n') + f.write('libraries=%s\n' % ','.join(libraries)) + f.write('library_dirs=%s\n' % ':'.join(library_dirs)) + + python('setup.py', 'install', '--prefix=%s' % prefix) + diff --git a/var/spack/packages/py-pandas/package.py b/var/spack/repos/builtin/packages/py-pandas/package.py index 5b9997faa9..2320b1f92f 100644 --- a/var/spack/packages/py-pandas/package.py +++ b/var/spack/repos/builtin/packages/py-pandas/package.py @@ -8,18 +8,15 @@ class PyPandas(Package): version('0.16.0', 'bfe311f05dc0c351f8955fbd1e296e73') version('0.16.1', 'fac4f25748f9610a3e00e765474bdea8') + version('0.18.0', 'f143762cd7a59815e348adf4308d2cf6') - extends('python') + extends('python', ignore=r'bin/f2py$') depends_on('py-dateutil') depends_on('py-numpy') - depends_on('py-matplotlib') - depends_on('py-scipy') depends_on('py-setuptools') depends_on('py-pytz') - depends_on('libdrm') - depends_on('libpciaccess') - depends_on('llvm') - depends_on('mesa') + depends_on('py-numexpr') + depends_on('py-bottleneck') def install(self, spec, prefix): python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-pbr/package.py b/var/spack/repos/builtin/packages/py-pbr/package.py new file mode 100644 index 0000000000..02957483d4 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-pbr/package.py @@ -0,0 +1,18 @@ +from spack import * +import os + +class PyPbr(Package): + """PBR is a library that injects some useful and sensible default behaviors into your setuptools run.""" + homepage = "https://pypi.python.org/pypi/pbr" + url = "https://pypi.python.org/packages/source/p/pbr/pbr-1.8.1.tar.gz" + + version('1.8.1', 'c8f9285e1a4ca6f9654c529b158baa3a') + + extends('python') + + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) + + diff --git a/var/spack/repos/builtin/packages/py-periodictable/package.py b/var/spack/repos/builtin/packages/py-periodictable/package.py new file mode 100644 index 0000000000..6a495a1cc8 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-periodictable/package.py @@ -0,0 +1,17 @@ +from spack import * + +class PyPeriodictable(Package): + """nose extends the test loading and running features of unittest, + making it easier to write, find and run tests.""" + + homepage = "https://pypi.python.org/pypi/periodictable" + url = "https://pypi.python.org/packages/source/p/periodictable/periodictable-1.4.1.tar.gz" + + version('1.4.1', '7246b63cc0b6b1be6e86b6616f9e866e') + + depends_on('py-numpy') + depends_on('py-pyparsing') + extends('python') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-pexpect/package.py b/var/spack/repos/builtin/packages/py-pexpect/package.py index ff5fac84e0..ff5fac84e0 100644 --- a/var/spack/packages/py-pexpect/package.py +++ b/var/spack/repos/builtin/packages/py-pexpect/package.py diff --git a/var/spack/repos/builtin/packages/py-phonopy/package.py b/var/spack/repos/builtin/packages/py-phonopy/package.py new file mode 100644 index 0000000000..6d10fea74f --- /dev/null +++ b/var/spack/repos/builtin/packages/py-phonopy/package.py @@ -0,0 +1,18 @@ +from spack import * + +class PyPhonopy(Package): + """Phonopy is an open source package for phonon + calculations at harmonic and quasi-harmonic levels.""" + homepage = "http://atztogo.github.io/phonopy/index.html" + url = "http://sourceforge.net/projects/phonopy/files/phonopy/phonopy-1.10/phonopy-1.10.0.tar.gz" + + version('1.10.0', '973ed1bcea46e21b9bf747aab9061ff6') + + extends('python') + depends_on('py-numpy') + depends_on('py-scipy') + depends_on('py-matplotlib') + depends_on('py-pyyaml') + + def install(self, spec, prefix): + python('setup.py', 'install', '--home=%s' % prefix) diff --git a/var/spack/packages/py-pil/package.py b/var/spack/repos/builtin/packages/py-pil/package.py index 743b761981..743b761981 100644 --- a/var/spack/packages/py-pil/package.py +++ b/var/spack/repos/builtin/packages/py-pil/package.py diff --git a/var/spack/repos/builtin/packages/py-pillow/package.py b/var/spack/repos/builtin/packages/py-pillow/package.py new file mode 100644 index 0000000000..66d9bb4382 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-pillow/package.py @@ -0,0 +1,75 @@ +from spack import * +import os + +class PyPillow(Package): + """Pillow is the friendly PIL fork by Alex Clark and Contributors. PIL is the Python Imaging Library by Fredrik Lundh and Contributors. The Python Imaging Library (PIL) adds image processing capabilities to your Python interpreter. This library supports many file formats, and provides powerful image processing and graphics capabilities.""" + + homepage = "https://python-pillow.github.io/" + url = "https://pypi.python.org/packages/source/P/Pillow/Pillow-3.0.0.tar.gz" + + version('3.0.0', 'fc8ac44e93da09678eac7e30c9b7377d') + provides('PIL') + + # These defaults correspond to Pillow defaults + variant('jpeg', default=True, description='Provide JPEG functionality') + variant('zlib', default=True, description='Access to compressed PNGs') + variant('tiff', default=False, description='Access to TIFF files') + variant('freetype', default=False, description='Font related services') + variant('tk', default=False, description='Support for tkinter bitmap and photo images') + variant('lcms', default=False, description='Color management') + + # Spack does not (yet) support these modes of building + # variant('webp', default=False, description='') + # variant('webpmux', default=False, description='') + # variant('jpeg2000', default=False, description='') + + extends('python') + depends_on('binutils') + depends_on('py-setuptools') + + depends_on('jpeg', when='+jpeg') # BUG: It will use the system libjpeg anyway + depends_on('zlib', when='+zlib') + depends_on('tiff', when='+tiff') + depends_on('freetype', when='+freetype') + depends_on('lcms', when='+lcms') + depends_on('tcl', when='+tk') + depends_on('tk', when='+tk') + + def install(self, spec, prefix): + libpath=[] + + if '+jpeg' in spec: + libpath.append(join_path(spec['jpeg'].prefix, 'lib')) + if '+zlib' in spec: + libpath.append(join_path(spec['zlib'].prefix, 'lib')) + if '+tiff' in spec: + libpath.append(join_path(spec['tiff'].prefix, 'lib')) + if '+freetype' in spec: + libpath.append(join_path(spec['freetype'].prefix, 'lib')) + if '+lcms' in spec: + libpath.append(join_path(spec['lcms'].prefix, 'lib')) + + # This has not been tested, and likely needs some other treatment. + #if '+tk' in spec: + # libpath.append(join_path(spec['tcl'].prefix, 'lib')) + # libpath.append(join_path(spec['tk'].prefix, 'lib')) + + # -------- Building + cmd = ['build_ext', + '--%s-jpeg' % ('enable' if '+jpeg' in spec else 'disable'), + '--%s-zlib' % ('enable' if '+zlib' in spec else 'disable'), + '--%s-tiff' % ('enable' if '+tiff' in spec else 'disable'), + '--%s-freetype' % ('enable' if '+freetype' in spec else 'disable'), + '--%s-lcms' % ('enable' if '+lcms' in spec else 'disable'), + '-L'+':'.join(libpath) # NOTE: This does not make it find libjpeg + ] + + #if '+tk' in spec: + # cmd.extend(['--enable-tcl', '--enable-tk']) + #else: + # cmd.extend(['--disable-tcl', '--disable-tk']) + + # --------- Installation + cmd.extend(['install', '--prefix=%s' % prefix]) + + python('setup.py', *cmd) diff --git a/var/spack/packages/py-pmw/package.py b/var/spack/repos/builtin/packages/py-pmw/package.py index 56131811e9..56131811e9 100644 --- a/var/spack/packages/py-pmw/package.py +++ b/var/spack/repos/builtin/packages/py-pmw/package.py diff --git a/var/spack/packages/py-pychecker/package.py b/var/spack/repos/builtin/packages/py-pychecker/package.py index bda5a746aa..bda5a746aa 100644 --- a/var/spack/packages/py-pychecker/package.py +++ b/var/spack/repos/builtin/packages/py-pychecker/package.py diff --git a/var/spack/packages/py-pycparser/package.py b/var/spack/repos/builtin/packages/py-pycparser/package.py index f2bb679d25..f2bb679d25 100644 --- a/var/spack/packages/py-pycparser/package.py +++ b/var/spack/repos/builtin/packages/py-pycparser/package.py diff --git a/var/spack/packages/py-pyelftools/package.py b/var/spack/repos/builtin/packages/py-pyelftools/package.py index d5ad32e624..d5ad32e624 100644 --- a/var/spack/packages/py-pyelftools/package.py +++ b/var/spack/repos/builtin/packages/py-pyelftools/package.py diff --git a/var/spack/packages/py-pygments/package.py b/var/spack/repos/builtin/packages/py-pygments/package.py index 7e07bf6869..7e07bf6869 100644 --- a/var/spack/packages/py-pygments/package.py +++ b/var/spack/repos/builtin/packages/py-pygments/package.py diff --git a/var/spack/packages/py-pylint/package.py b/var/spack/repos/builtin/packages/py-pylint/package.py index 9579708c29..9579708c29 100644 --- a/var/spack/packages/py-pylint/package.py +++ b/var/spack/repos/builtin/packages/py-pylint/package.py diff --git a/var/spack/packages/py-pypar/package.py b/var/spack/repos/builtin/packages/py-pypar/package.py index af9c76ccd8..af9c76ccd8 100644 --- a/var/spack/packages/py-pypar/package.py +++ b/var/spack/repos/builtin/packages/py-pypar/package.py diff --git a/var/spack/packages/py-pyparsing/package.py b/var/spack/repos/builtin/packages/py-pyparsing/package.py index a6e50ad139..a6e50ad139 100644 --- a/var/spack/packages/py-pyparsing/package.py +++ b/var/spack/repos/builtin/packages/py-pyparsing/package.py diff --git a/var/spack/packages/py-pyqt/package.py b/var/spack/repos/builtin/packages/py-pyqt/package.py index 8edca105bb..8edca105bb 100644 --- a/var/spack/packages/py-pyqt/package.py +++ b/var/spack/repos/builtin/packages/py-pyqt/package.py diff --git a/var/spack/packages/py-pyside/package.py b/var/spack/repos/builtin/packages/py-pyside/package.py index bb5da44d02..ffa433e18e 100644 --- a/var/spack/packages/py-pyside/package.py +++ b/var/spack/repos/builtin/packages/py-pyside/package.py @@ -2,7 +2,7 @@ from spack import * import os class PyPyside(Package): - """array processing for numbers, strings, records, and objects.""" + """Python bindings for Qt.""" homepage = "https://pypi.python.org/pypi/pyside" url = "https://pypi.python.org/packages/source/P/PySide/PySide-1.2.2.tar.gz" diff --git a/var/spack/repos/builtin/packages/py-pytables/package.py b/var/spack/repos/builtin/packages/py-pytables/package.py new file mode 100644 index 0000000000..a5b1e78ab3 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-pytables/package.py @@ -0,0 +1,19 @@ +from spack import * +import re + +class PyPytables(Package): + """PyTables is a package for managing hierarchical datasets and designed to efficiently and easily cope with extremely large amounts of data.""" + homepage = "http://www.pytables.org/" + url = "https://github.com/PyTables/PyTables/archive/v.3.2.2.tar.gz" + + version('3.2.2', '7cbb0972e4d6580f629996a5bed92441') + + extends('python') + depends_on('hdf5') + depends_on('py-numpy') + depends_on('py-numexpr') + depends_on('py-cython') + + def install(self, spec, prefix): + env["HDF5_DIR"] = spec['hdf5'].prefix + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-python-daemon/package.py b/var/spack/repos/builtin/packages/py-python-daemon/package.py index 12cbe9101c..12cbe9101c 100644 --- a/var/spack/packages/py-python-daemon/package.py +++ b/var/spack/repos/builtin/packages/py-python-daemon/package.py diff --git a/var/spack/packages/py-pytz/package.py b/var/spack/repos/builtin/packages/py-pytz/package.py index da6311a784..060cf0cde4 100644 --- a/var/spack/packages/py-pytz/package.py +++ b/var/spack/repos/builtin/packages/py-pytz/package.py @@ -7,6 +7,7 @@ class PyPytz(Package): version('2014.10', 'eb1cb941a20c5b751352c52486aa1dd7') version('2015.4', '417a47b1c432d90333e42084a605d3d8') + version('2016.3', 'abae92c3301b27bd8a9f56b14f52cb29') extends('python') diff --git a/var/spack/repos/builtin/packages/py-pyyaml/package.py b/var/spack/repos/builtin/packages/py-pyyaml/package.py new file mode 100644 index 0000000000..cae42f6e59 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-pyyaml/package.py @@ -0,0 +1,13 @@ +from spack import * + +class PyPyyaml(Package): + """PyYAML is a YAML parser and emitter for Python.""" + homepage = "http://pyyaml.org/wiki/PyYAML" + url = "http://pyyaml.org/download/pyyaml/PyYAML-3.11.tar.gz" + + version('3.11', 'f50e08ef0fe55178479d3a618efe21db') + + extends('python') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-rpy2/package.py b/var/spack/repos/builtin/packages/py-rpy2/package.py index a0b03d03e3..a0b03d03e3 100644 --- a/var/spack/packages/py-rpy2/package.py +++ b/var/spack/repos/builtin/packages/py-rpy2/package.py diff --git a/var/spack/packages/py-scientificpython/package.py b/var/spack/repos/builtin/packages/py-scientificpython/package.py index df2c86caac..df2c86caac 100644 --- a/var/spack/packages/py-scientificpython/package.py +++ b/var/spack/repos/builtin/packages/py-scientificpython/package.py diff --git a/var/spack/repos/builtin/packages/py-scikit-image/package.py b/var/spack/repos/builtin/packages/py-scikit-image/package.py new file mode 100644 index 0000000000..22ce1f8374 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-scikit-image/package.py @@ -0,0 +1,20 @@ +from spack import * + +class PyScikitImage(Package): + """Image processing algorithms for SciPy, including IO, morphology, filtering, warping, color manipulation, object detection, etc.""" + homepage = "http://scikit-image.org/" + url = "https://pypi.python.org/packages/source/s/scikit-image/scikit-image-0.12.3.tar.gz" + + version('0.12.3', '04ea833383e0b6ad5f65da21292c25e1') + + extends('python', ignore=r'bin/.*\.py$|bin/f2py$') + + depends_on('py-dask') + depends_on('py-pillow') + depends_on('py-networkx') + depends_on('py-six') + depends_on('py-scipy') + depends_on('py-matplotlib') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-scikit-learn/package.py b/var/spack/repos/builtin/packages/py-scikit-learn/package.py index 5b078ce901..2d7985b98c 100644 --- a/var/spack/packages/py-scikit-learn/package.py +++ b/var/spack/repos/builtin/packages/py-scikit-learn/package.py @@ -7,8 +7,13 @@ class PyScikitLearn(Package): version('0.15.2', 'd9822ad0238e17b382a3c756ea94fe0d') version('0.16.1', '363ddda501e3b6b61726aa40b8dbdb7e') + version('0.17.1', 'a2f8b877e6d99b1ed737144f5a478dfc') extends('python') + depends_on('py-setuptools') + depends_on('py-numpy') + depends_on('py-scipy') + def install(self, spec, prefix): python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-scipy/package.py b/var/spack/repos/builtin/packages/py-scipy/package.py new file mode 100644 index 0000000000..4d47c641ee --- /dev/null +++ b/var/spack/repos/builtin/packages/py-scipy/package.py @@ -0,0 +1,25 @@ +from spack import * + +class PyScipy(Package): + """Scientific Library for Python.""" + homepage = "http://www.scipy.org/" + url = "https://pypi.python.org/packages/source/s/scipy/scipy-0.15.0.tar.gz" + + version('0.17.0', '5ff2971e1ce90e762c59d2cd84837224') + version('0.15.1', 'be56cd8e60591d6332aac792a5880110') + version('0.15.0', '639112f077f0aeb6d80718dc5019dc7a') + + extends('python') + depends_on('py-nose') + depends_on('py-numpy+blas+lapack') + + def install(self, spec, prefix): + if 'atlas' in spec: + # libatlas.so actually isn't always installed, but this + # seems to make the build autodetect things correctly. + env['ATLAS'] = join_path(spec['atlas'].prefix.lib, 'libatlas.' + dso_suffix) + else: + env['BLAS'] = spec['blas'].blas_shared_lib + env['LAPACK'] = spec['lapack'].lapack_shared_lib + + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-setuptools/package.py b/var/spack/repos/builtin/packages/py-setuptools/package.py index 760ad4d6db..1368711978 100644 --- a/var/spack/packages/py-setuptools/package.py +++ b/var/spack/repos/builtin/packages/py-setuptools/package.py @@ -5,9 +5,13 @@ class PySetuptools(Package): homepage = "https://pypi.python.org/pypi/setuptools" url = "https://pypi.python.org/packages/source/s/setuptools/setuptools-11.3.tar.gz" - version('11.3.1', '01f69212e019a2420c1693fb43593930') - version('16.0', '0ace0b96233516fc5f7c857d086aa3ad') + version('20.7.0', '5d12b39bf3e75e80fdce54e44b255615') + version('20.6.7', '45d6110f3ec14924e44c33411db64fe6') + version('20.5', 'fadc1e1123ddbe31006e5e43e927362b') + version('19.2', '78353b1f80375ca5e088f4b4627ffe03') version('18.1', 'f72e87f34fbf07f299f6cb46256a0b06') + version('16.0', '0ace0b96233516fc5f7c857d086aa3ad') + version('11.3.1', '01f69212e019a2420c1693fb43593930') extends('python') diff --git a/var/spack/packages/py-shiboken/package.py b/var/spack/repos/builtin/packages/py-shiboken/package.py index e4bf4ce07e..e4bf4ce07e 100644 --- a/var/spack/packages/py-shiboken/package.py +++ b/var/spack/repos/builtin/packages/py-shiboken/package.py diff --git a/var/spack/packages/py-sip/package.py b/var/spack/repos/builtin/packages/py-sip/package.py index e4a6fb6961..e4a6fb6961 100644 --- a/var/spack/packages/py-sip/package.py +++ b/var/spack/repos/builtin/packages/py-sip/package.py diff --git a/var/spack/packages/py-six/package.py b/var/spack/repos/builtin/packages/py-six/package.py index 05c5bd00a9..df277100f7 100644 --- a/var/spack/packages/py-six/package.py +++ b/var/spack/repos/builtin/packages/py-six/package.py @@ -6,6 +6,7 @@ class PySix(Package): url = "https://pypi.python.org/packages/source/s/six/six-1.9.0.tar.gz" version('1.9.0', '476881ef4012262dfc8adc645ee786c4') + version('1.10.0', '34eed507548117b2ab523ab14b2f8b55') extends('python') depends_on('py-setuptools') diff --git a/var/spack/packages/py-sphinx/package.py b/var/spack/repos/builtin/packages/py-sphinx/package.py index ec2e89a098..ec2e89a098 100644 --- a/var/spack/packages/py-sphinx/package.py +++ b/var/spack/repos/builtin/packages/py-sphinx/package.py diff --git a/var/spack/packages/py-sympy/package.py b/var/spack/repos/builtin/packages/py-sympy/package.py index c17e35b95f..bbce8c74e3 100644 --- a/var/spack/packages/py-sympy/package.py +++ b/var/spack/repos/builtin/packages/py-sympy/package.py @@ -6,8 +6,10 @@ class PySympy(Package): url = "https://pypi.python.org/packages/source/s/sympy/sympy-0.7.6.tar.gz" version('0.7.6', '3d04753974306d8a13830008e17babca') + version('1.0', '43e797de799f00f9e8fd2307dba9fab1') extends('python') + depends_on('py-mpmath', when='@1.0:') def install(self, spec, prefix): python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-tappy/package.py b/var/spack/repos/builtin/packages/py-tappy/package.py new file mode 100644 index 0000000000..df61a909da --- /dev/null +++ b/var/spack/repos/builtin/packages/py-tappy/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyTappy(Package): + """Python TAP interface module for unit tests""" + homepage = "https://github.com/mblayman/tappy" + # base https://pypi.python.org/pypi/cffi + url = "https://pypi.python.org/packages/source/t/tap.py/tap.py-1.6.tar.gz" + + version('1.6', 'c8bdb93ad66e05f939905172a301bedf') + + extends('python') + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-tuiview/package.py b/var/spack/repos/builtin/packages/py-tuiview/package.py new file mode 100644 index 0000000000..984b4196b1 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-tuiview/package.py @@ -0,0 +1,19 @@ +from spack import * + +class PyTuiview(Package): + """ + TuiView is a lightweight raster GIS with powerful raster attribute + table manipulation abilities. + """ + homepage = "https://bitbucket.org/chchrsc/tuiview" + url = "https://bitbucket.org/chchrsc/tuiview/get/tuiview-1.1.7.tar.gz" + + version('1.1.7', '4b3b38a820cc239c8ab4a181ac5d4c30') + + extends("python") + depends_on("py-pyqt") + depends_on("py-numpy") + depends_on("gdal") + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-twisted/package.py b/var/spack/repos/builtin/packages/py-twisted/package.py new file mode 100644 index 0000000000..2fdebb6cb9 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-twisted/package.py @@ -0,0 +1,16 @@ +from spack import * + +class PyTwisted(Package): + """An asynchronous networking framework written in Python""" + homepage = "https://twistedmatrix.com/" + url = "https://pypi.python.org/packages/source/T/Twisted/Twisted-15.3.0.tar.bz2" + + version('15.4.0', '5337ffb6aeeff3790981a2cd56db9655') + version('15.3.0', 'b58e83da2f00b3352afad74d0c5c4599') + + depends_on('py-setuptools') + + extends('python') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/repos/builtin/packages/py-urwid/package.py b/var/spack/repos/builtin/packages/py-urwid/package.py new file mode 100644 index 0000000000..aaa11c681d --- /dev/null +++ b/var/spack/repos/builtin/packages/py-urwid/package.py @@ -0,0 +1,16 @@ +from spack import * + +class PyUrwid(Package): + """A full-featured console UI library""" + homepage = "http://urwid.org/" + url = "https://pypi.python.org/packages/source/u/urwid/urwid-1.3.0.tar.gz" + + version('1.3.0', 'a989acd54f4ff1a554add464803a9175') + + depends_on('py-setuptools') + + extends("python") + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) + diff --git a/var/spack/packages/py-virtualenv/package.py b/var/spack/repos/builtin/packages/py-virtualenv/package.py index 037a6fc59f..09303d37b4 100644 --- a/var/spack/packages/py-virtualenv/package.py +++ b/var/spack/repos/builtin/packages/py-virtualenv/package.py @@ -8,6 +8,7 @@ class PyVirtualenv(Package): version('1.11.6', 'f61cdd983d2c4e6aeabb70b1060d6f49') version('13.0.1', '1ffc011bde6667f0e37ecd976f4934db') + version('15.0.1', '28d76a0d9cbd5dc42046dd14e76a6ecc') extends('python') depends_on('py-setuptools') diff --git a/var/spack/repos/builtin/packages/py-wheel/package.py b/var/spack/repos/builtin/packages/py-wheel/package.py new file mode 100644 index 0000000000..3118e74519 --- /dev/null +++ b/var/spack/repos/builtin/packages/py-wheel/package.py @@ -0,0 +1,15 @@ +from spack import * + +class PyWheel(Package): + """A built-package format for Python.""" + + homepage = "https://pypi.python.org/pypi/wheel" + url = "https://pypi.python.org/packages/source/w/wheel/wheel-0.26.0.tar.gz" + + version('0.26.0', '4cfc6e7e3dc7377d0164914623922a10') + + extends('python') + depends_on('py-setuptools') + + def install(self, spec, prefix): + python('setup.py', 'install', '--prefix=%s' % prefix) diff --git a/var/spack/packages/py-yapf/package.py b/var/spack/repos/builtin/packages/py-yapf/package.py index 12ef191515..12ef191515 100644 --- a/var/spack/packages/py-yapf/package.py +++ b/var/spack/repos/builtin/packages/py-yapf/package.py diff --git a/var/spack/packages/python/package.py b/var/spack/repos/builtin/packages/python/package.py index 000881a846..f5237c3b57 100644 --- a/var/spack/packages/python/package.py +++ b/var/spack/repos/builtin/packages/python/package.py @@ -1,39 +1,78 @@ +import functools +import glob +import inspect import os import re from contextlib import closing -from llnl.util.lang import match_predicate -from spack import * import spack +from llnl.util.lang import match_predicate +from spack import * +from spack.util.environment import * class Python(Package): """The Python programming language.""" homepage = "http://www.python.org" - url = "http://www.python.org/ftp/python/2.7.8/Python-2.7.8.tar.xz" + url = "http://www.python.org/ftp/python/2.7.8/Python-2.7.8.tgz" extendable = True - version('2.7.8', 'd235bdfa75b8396942e360a70487ee00') - version('2.7.10', 'c685ef0b8e9f27b5e3db5db12b268ac6') + version('3.5.1', 'be78e48cdfc1a7ad90efff146dce6cfe') + version('3.5.0', 'a56c0c0b45d75a0ec9c6dee933c41c36') + version('2.7.11', '6b6076ec9e93f05dd63e47eb9c15728b', preferred=True) + version('2.7.10', 'd7547558fd673bd9d38e2108c6b42521') + version('2.7.9', '5eebcaa0030dc4061156d3429657fb83') + version('2.7.8', 'd4bca0159acb0b44a781292b5231936f') depends_on("openssl") depends_on("bzip2") depends_on("readline") depends_on("ncurses") depends_on("sqlite") + depends_on("zlib") def install(self, spec, prefix): # Need this to allow python build to find the Python installation. env['PYTHONHOME'] = prefix + env['MACOSX_DEPLOYMENT_TARGET'] = '10.6' - # Rest of install is pretty standard. - configure("--prefix=%s" % prefix, + # Rest of install is pretty standard except setup.py needs to + # be able to read the CPPFLAGS and LDFLAGS as it scans for the + # library and headers to build + configure_args= [ + "--prefix=%s" % prefix, "--with-threads", - "--enable-shared") + "--enable-shared", + "CPPFLAGS=-I%s/include -I%s/include -I%s/include -I%s/include -I%s/include -I%s/include" % ( + spec['openssl'].prefix, spec['bzip2'].prefix, + spec['readline'].prefix, spec['ncurses'].prefix, + spec['sqlite'].prefix, spec['zlib'].prefix), + "LDFLAGS=-L%s/lib -L%s/lib -L%s/lib -L%s/lib -L%s/lib -L%s/lib" % ( + spec['openssl'].prefix, spec['bzip2'].prefix, + spec['readline'].prefix, spec['ncurses'].prefix, + spec['sqlite'].prefix, spec['zlib'].prefix) + ] + if spec.satisfies('@3:'): + configure_args.append('--without-ensurepip') + configure(*configure_args) make() make("install") + # Modify compiler paths in configuration files. This is necessary for + # building site packages outside of spack + filter_file(r'([/s]=?)([\S=]*)/lib/spack/env(/[^\s/]*)?/(\S*)(\s)', + (r'\4\5'), + join_path(prefix.lib, 'python%d.%d' % self.version[:2], '_sysconfigdata.py')) + + python3_version = '' + if spec.satisfies('@3:'): + python3_version = '-%d.%dm' % self.version[:2] + makefile_filepath = join_path(prefix.lib, 'python%d.%d' % self.version[:2], 'config%s' % python3_version, 'Makefile') + filter_file(r'([/s]=?)([\S=]*)/lib/spack/env(/[^\s/]*)?/(\S*)(\s)', + (r'\4\5'), + makefile_filepath) + # ======================================================================== # Set up environment to make install easy for python extensions. @@ -54,32 +93,46 @@ class Python(Package): return os.path.join(self.python_lib_dir, 'site-packages') - def setup_dependent_environment(self, module, spec, ext_spec): - """Called before python modules' install() methods. + def setup_dependent_environment(self, spack_env, run_env, extension_spec): + # TODO: do this only for actual extensions. + + # Set PYTHONPATH to include site-packages dir for the + # extension and any other python extensions it depends on. + python_paths = [] + for d in extension_spec.traverse(): + if d.package.extends(self.spec): + python_paths.append(os.path.join(d.prefix, self.site_packages_dir)) + + pythonpath = ':'.join(python_paths) + spack_env.set('PYTHONPATH', pythonpath) + + # For run time environment set only the path for extension_spec and prepend it to PYTHONPATH + if extension_spec.package.extends(self.spec): + run_env.prepend_path('PYTHONPATH', os.path.join(extension_spec.prefix, self.site_packages_dir)) + + + def setup_dependent_package(self, module, ext_spec): + """ + Called before python modules' install() methods. In most cases, extensions will only need to have one line:: - python('setup.py', 'install', '--prefix=%s' % prefix) + python('setup.py', 'install', '--prefix=%s' % prefix) """ # Python extension builds can have a global python executable function - module.python = Executable(join_path(spec.prefix.bin, 'python')) + if self.version >= Version("3.0.0") and self.version < Version("4.0.0"): + module.python = Executable(join_path(self.spec.prefix.bin, 'python3')) + else: + module.python = Executable(join_path(self.spec.prefix.bin, 'python')) # Add variables for lib/pythonX.Y and lib/pythonX.Y/site-packages dirs. module.python_lib_dir = os.path.join(ext_spec.prefix, self.python_lib_dir) module.python_include_dir = os.path.join(ext_spec.prefix, self.python_include_dir) module.site_packages_dir = os.path.join(ext_spec.prefix, self.site_packages_dir) - # Make the site packages directory if it does not exist already. - mkdirp(module.site_packages_dir) - - # Set PYTHONPATH to include site-packages dir for the - # extension and any other python extensions it depends on. - python_paths = [] - for d in ext_spec.traverse(): - if d.package.extends(self.spec): - python_paths.append(os.path.join(d.prefix, self.site_packages_dir)) - os.environ['PYTHONPATH'] = ':'.join(python_paths) - + # Make the site packages directory for extensions, if it does not exist already. + if ext_spec.package.is_extension: + mkdirp(module.site_packages_dir) # ======================================================================== # Handle specifics of activating and deactivating python modules. @@ -94,7 +147,7 @@ class Python(Package): # Ignore pieces of setuptools installed by other packages. if ext_pkg.name != 'py-setuptools': - patterns.append(r'/site\.pyc?$') + patterns.append(r'/site[^/]*\.pyc?$') patterns.append(r'setuptools\.pth') patterns.append(r'bin/easy_install[^/]*$') patterns.append(r'setuptools.*egg$') diff --git a/var/spack/packages/qhull/package.py b/var/spack/repos/builtin/packages/qhull/package.py index 9da4078a70..8f7c2f31b1 100644 --- a/var/spack/packages/qhull/package.py +++ b/var/spack/repos/builtin/packages/qhull/package.py @@ -8,18 +8,21 @@ class Qhull(Package): implements the Quickhull algorithm for computing the convex hull. It handles roundoff errors from floating point arithmetic. It computes volumes, surface areas, and - approximations to the convex hull. - - Qhull does not support triangulation of non-convex surfaces, - mesh generation of non-convex objects, medium-sized inputs in - 9-D and higher, alpha shapes, weighted Voronoi diagrams, - Voronoi volumes, or constrained Delaunay triangulations.""" + approximations to the convex hull.""" homepage = "http://www.qhull.org" + version('7.2.0', 'e6270733a826a6a7c32b796e005ec3dc', + url="http://www.qhull.org/download/qhull-2015-src-7.2.0.tgz") + version('1.0', 'd0f978c0d8dfb2e919caefa56ea2953c', url="http://www.qhull.org/download/qhull-2012.1-src.tgz") + # https://github.com/qhull/qhull/pull/5 + patch('qhull-iterator.patch', when='@1.0') + + depends_on('cmake') + def install(self, spec, prefix): with working_dir('spack-build', create=True): cmake('..', *std_cmake_args) diff --git a/var/spack/repos/builtin/packages/qhull/qhull-iterator.patch b/var/spack/repos/builtin/packages/qhull/qhull-iterator.patch new file mode 100644 index 0000000000..88e931d84f --- /dev/null +++ b/var/spack/repos/builtin/packages/qhull/qhull-iterator.patch @@ -0,0 +1,45 @@ +From 93f4b306c54bb5be7724dcc19c6e747b62ac76dd Mon Sep 17 00:00:00 2001 +From: Ben Boeckel <mathstuf@gmail.com> +Date: Thu, 28 May 2015 11:12:25 -0400 +Subject: [PATCH] iterator: use the header + +Standard libraries are doing funky things with inline namespaces which +make these declarations impossible to get right. Just include the +header. +--- + src/libqhullcpp/QhullIterator.h | 3 +-- + src/libqhullcpp/QhullLinkedList.h | 5 +---- + 2 files changed, 2 insertions(+), 6 deletions(-) + +diff --git a/src/libqhullcpp/QhullIterator.h b/src/libqhullcpp/QhullIterator.h +index 9dde894..49f3a3b 100644 +--- a/src/libqhullcpp/QhullIterator.h ++++ b/src/libqhullcpp/QhullIterator.h +@@ -14,10 +14,9 @@ extern "C" { + } + + #include <assert.h> ++#include <iterator> + #include <string> + #include <vector> +-//! Avoid dependence on <iterator> +-namespace std { struct bidirectional_iterator_tag; struct random_access_iterator_tag; } + + namespace orgQhull { + +diff --git a/src/libqhullcpp/QhullLinkedList.h b/src/libqhullcpp/QhullLinkedList.h +index d828ac6..00b9008 100644 +--- a/src/libqhullcpp/QhullLinkedList.h ++++ b/src/libqhullcpp/QhullLinkedList.h +@@ -9,10 +9,7 @@ + #ifndef QHULLLINKEDLIST_H + #define QHULLLINKEDLIST_H + +-namespace std { +- struct bidirectional_iterator_tag; +- struct random_access_iterator_tag; +-}//std ++#include <iterator> + + #include "QhullError.h" + extern "C" { diff --git a/var/spack/repos/builtin/packages/qrupdate/package.py b/var/spack/repos/builtin/packages/qrupdate/package.py new file mode 100644 index 0000000000..5374d02c97 --- /dev/null +++ b/var/spack/repos/builtin/packages/qrupdate/package.py @@ -0,0 +1,18 @@ +from spack import * + +class Qrupdate(Package): + """qrupdate is a Fortran library for fast updates of QR and + Cholesky decompositions.""" + + homepage = "http://sourceforge.net/projects/qrupdate/" + url = "https://downloads.sourceforge.net/qrupdate/qrupdate-1.1.2.tar.gz" + + version('1.1.2', '6d073887c6e858c24aeda5b54c57a8c4') + + depends_on("blas") + depends_on("lapack") + + def install(self, spec, prefix): + # Build static and dynamic libraries + make("lib", "solib") + make("install", "PREFIX=%s" % prefix) diff --git a/var/spack/repos/builtin/packages/qt/package.py b/var/spack/repos/builtin/packages/qt/package.py new file mode 100644 index 0000000000..93688fb777 --- /dev/null +++ b/var/spack/repos/builtin/packages/qt/package.py @@ -0,0 +1,154 @@ +from spack import * +import os + +class Qt(Package): + """Qt is a comprehensive cross-platform C++ application framework.""" + homepage = 'http://qt.io' + + version('5.5.1', '59f0216819152b77536cf660b015d784') + version('5.4.2', 'fa1c4d819b401b267eb246a543a63ea5') + version('5.4.0', 'e8654e4b37dd98039ba20da7a53877e6') + version('5.3.2', 'febb001129927a70174467ecb508a682') + version('5.2.1', 'a78408c887c04c34ce615da690e0b4c8') + version('4.8.6', '2edbe4d6c2eff33ef91732602f3518eb') + version('3.3.8b', '9f05b4125cfe477cc52c9742c3c09009') + + # Add patch for compile issues with qt3 found with use in the OpenSpeedShop project + variant('krellpatch', default=False, description="Build with openspeedshop based patch.") + variant('mesa', default=False, description="Depend on mesa.") + variant('gtk', default=False, description="Build with gtkplus.") + + patch('qt3krell.patch', when='@3.3.8b+krellpatch') + + # Use system openssl for security. + #depends_on("openssl") + + depends_on("glib") + depends_on("gtkplus", when='+gtk') + depends_on("libxml2") + depends_on("zlib") + depends_on("dbus", when='@4:') + depends_on("libtiff") + depends_on("libpng@1.2.56", when='@3') + depends_on("libpng", when='@4:') + depends_on("libmng") + depends_on("jpeg") + + # Webkit + # depends_on("gperf") + # depends_on("flex") + # depends_on("bison") + # depends_on("ruby") + # depends_on("icu4c") + + # OpenGL hardware acceleration + depends_on("mesa", when='@4:+mesa') + depends_on("libxcb") + + + def url_for_version(self, version): + url = "http://download.qt.io/archive/qt/" + + if version >= Version('5'): + url += "%s/%s/single/qt-everywhere-opensource-src-%s.tar.gz" % \ + (version.up_to(2), version, version) + elif version >= Version('4.8'): + url += "%s/%s/qt-everywhere-opensource-src-%s.tar.gz" % \ + (version.up_to(2), version, version) + elif version >= Version('4.6'): + url += "%s/qt-everywhere-opensource-src-%s.tar.gz" % \ + (version.up_to(2), version) + elif version >= Version('4.0'): + url += "%s/qt-x11-opensource-src-%s.tar.gz" % \ + (version.up_to(2), version) + elif version >= Version('3'): + url += "%s/qt-x11-free-%s.tar.gz" % \ + (version.up_to(1), version) + elif version >= Version('2.1'): + url += "%s/qt-x11-%s.tar.gz" % \ + (version.up_to(1), version) + else: + url += "%s/qt-%s.tar.gz" % \ + (version.up_to(1), version) + + return url + + + def setup_environment(self, spack_env, env): + env.set('QTDIR', self.prefix) + + + def setup_dependent_environment(self, spack_env, run_env, dspec): + spack_env.set('QTDIR', self.prefix) + + + def patch(self): + if self.spec.satisfies('@4'): + qmake_conf = 'mkspecs/common/g++-base.conf' + qmake_unix_conf = 'mkspecs/common/g++-unix.conf' + elif self.spec.satisfies('@5'): + qmake_conf = 'qtbase/mkspecs/common/g++-base.conf' + qmake_unix_conf = 'qtbase/mkspecs/common/g++-unix.conf' + else: + return + + # Fix qmake compilers in the default mkspec + filter_file(r'^QMAKE_COMPILER *=.*$', 'QMAKE_COMPILER = cc', qmake_conf) + filter_file(r'^QMAKE_CC *=.*$', 'QMAKE_CC = cc', qmake_conf) + filter_file(r'^QMAKE_CXX *=.*$', 'QMAKE_CXX = c++', qmake_conf) + filter_file(r'^QMAKE_LFLAGS_NOUNDEF *\+?=.*$', 'QMAKE_LFLAGS_NOUNDEF =', qmake_unix_conf) + + + @property + def common_config_args(self): + return [ + '-prefix', self.prefix, + '-v', + '-opensource', + '-opengl', + '-release', + '-shared', + '-confirm-license', + '-openssl-linked', + '-dbus-linked', + '-optimized-qmake', + '-no-openvg', + '-no-pch', + # NIS is deprecated in more recent glibc + '-no-nis'] + # Don't disable all the database drivers, but should + # really get them into spack at some point. + + @when('@3') + def configure(self): + # An user report that this was necessary to link Qt3 on ubuntu + os.environ['LD_LIBRARY_PATH'] = os.getcwd()+'/lib' + configure('-prefix', self.prefix, + '-v', + '-thread', + '-shared', + '-release', + '-fast' + ) + + @when('@4') + def configure(self): + configure('-fast', + '-no-webkit', + *self.common_config_args) + + + @when('@5') + def configure(self): + configure('-no-eglfs', + '-no-directfb', + '-qt-xcb', + # If someone wants to get a webkit build working, be my guest! + '-skip', 'qtwebkit', + *self.common_config_args) + + + def install(self, spec, prefix): + self.configure() + make() + make("install") diff --git a/var/spack/repos/builtin/packages/qt/qt3krell.patch b/var/spack/repos/builtin/packages/qt/qt3krell.patch new file mode 100644 index 0000000000..3333eeacd4 --- /dev/null +++ b/var/spack/repos/builtin/packages/qt/qt3krell.patch @@ -0,0 +1,68 @@ +--- qt-x11-free-3.3.8b/src/tools/qmap.h 2008-01-15 13:09:13.000000000 -0600 ++++ qt-x11-free-3.3.8b-fixes/src/tools/qmap.h 2015-07-08 15:47:34.757565247 -0500 +@@ -52,6 +52,7 @@ + #ifndef QT_NO_STL + #include <iterator> + #include <map> ++#include <cstddef> + #endif + + //#define QT_CHECK_MAP_RANGE +--- qt-x11-free-3.3.8b/src/tools/qvaluelist.h 2008-01-15 13:09:13.000000000 -0600 ++++ qt-x11-free-3.3.8b-fixes/src/tools/qvaluelist.h 2015-07-08 15:47:34.758565247 -0500 +@@ -50,6 +50,7 @@ + #ifndef QT_NO_STL + #include <iterator> + #include <list> ++#include <cstddef> + #endif + + //#define QT_CHECK_VALUELIST_RANGE +--- qt-x11-free-3.3.8b/src/tools/qvaluevector.h 2008-01-15 13:09:13.000000000 -0600 ++++ qt-x11-free-3.3.8b-fixes/src/tools/qvaluevector.h 2015-07-08 15:47:34.758565247 -0500 +@@ -47,6 +47,7 @@ + + #ifndef QT_NO_STL + #include <vector> ++#include <cstddef> + #endif + + template <class T> +--- qt-x11-free-3.3.8b/configure 2008-01-15 13:09:15.000000000 -0600 ++++ qt-x11-free-3.3.8b-fixes/configure 2015-07-08 15:49:03.379560633 -0500 +@@ -2339,7 +2339,7 @@ + else + echo "Do you accept the terms of the $TheLicense? \c" + fi +- read acceptance ++ acceptance=yes + echo + if [ "$acceptance" = yes ]; then + break +@@ -2397,7 +2397,7 @@ + else + echo "Do you accept the terms of $affix license? \c" + fi +- read acceptance ++ acceptance=yes + echo + if [ "$acceptance" = "yes" ]; then + break +@@ -2443,7 +2443,7 @@ + else + echo "Do you accept the terms of the license? \c" + fi +- read acceptance ++ acceptance=yes + echo + if [ "$acceptance" = "yes" ]; then + break +@@ -2524,7 +2524,7 @@ + else + echo "Do you accept the terms of the $Platform License? \c" + fi +- read acceptance ++ acceptance=yes + echo + if [ "$acceptance" = "yes" ]; then + break diff --git a/var/spack/packages/qthreads/package.py b/var/spack/repos/builtin/packages/qthreads/package.py index dacdb71524..dacdb71524 100644 --- a/var/spack/packages/qthreads/package.py +++ b/var/spack/repos/builtin/packages/qthreads/package.py diff --git a/var/spack/packages/ravel/package.py b/var/spack/repos/builtin/packages/ravel/package.py index 01fa941cfe..d774a0ab86 100644 --- a/var/spack/packages/ravel/package.py +++ b/var/spack/repos/builtin/packages/ravel/package.py @@ -4,8 +4,8 @@ class Ravel(Package): """Ravel is a parallel communication trace visualization tool that orders events according to logical time.""" - homepage = "https://github.com/scalability-llnl/ravel" - url = 'https://github.com/scalability-llnl/ravel/archive/v1.0.0.tar.gz' + homepage = "https://github.com/llnl/ravel" + url = 'https://github.com/llnl/ravel/archive/v1.0.0.tar.gz' version('1.0.0', 'b25fece58331c2adfcce76c5036485c2') diff --git a/var/spack/packages/readline/package.py b/var/spack/repos/builtin/packages/readline/package.py index 1b870e0e7f..0c429ea756 100644 --- a/var/spack/packages/readline/package.py +++ b/var/spack/repos/builtin/packages/readline/package.py @@ -2,12 +2,12 @@ from spack import * class Readline(Package): """The GNU Readline library provides a set of functions for use by - applications that allow users to edit command li nes as they + applications that allow users to edit command lines as they are typed in. Both Emacs and vi editing modes are available. The Readline library includes additional functions to maintain a list of previously-entered command lines, to recall and perhaps reedit those lines, and perform csh-like - history expansion on previous commands. """ + history expansion on previous commands.""" homepage = "http://cnswww.cns.cwru.edu/php/chet/readline/rltop.html" url = "ftp://ftp.cwru.edu/pub/bash/readline-6.3.tar.gz" diff --git a/var/spack/packages/rose/add_spack_compiler_recognition.patch b/var/spack/repos/builtin/packages/rose/add_spack_compiler_recognition.patch index ce61ae4e4c..ce61ae4e4c 100644 --- a/var/spack/packages/rose/add_spack_compiler_recognition.patch +++ b/var/spack/repos/builtin/packages/rose/add_spack_compiler_recognition.patch diff --git a/var/spack/packages/rose/package.py b/var/spack/repos/builtin/packages/rose/package.py index 1d7294acab..1d7294acab 100644 --- a/var/spack/packages/rose/package.py +++ b/var/spack/repos/builtin/packages/rose/package.py diff --git a/var/spack/repos/builtin/packages/rsync/package.py b/var/spack/repos/builtin/packages/rsync/package.py new file mode 100644 index 0000000000..76aec3096d --- /dev/null +++ b/var/spack/repos/builtin/packages/rsync/package.py @@ -0,0 +1,15 @@ +from spack import * + +class Rsync(Package): + """rsync is an open source utility that provides fast incremental file transfer.""" + homepage = "https://rsync.samba.org" + url = "https://download.samba.org/pub/rsync/rsync-3.1.1.tar.gz" + + version('3.1.2', '0f758d7e000c0f7f7d3792610fad70cb') + version('3.1.1', '43bd6676f0b404326eee2d63be3cdcfe') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/packages/ruby/package.py b/var/spack/repos/builtin/packages/ruby/package.py index 6b6242362c..e13677e4d2 100644 --- a/var/spack/packages/ruby/package.py +++ b/var/spack/repos/builtin/packages/ruby/package.py @@ -1,9 +1,8 @@ from spack import * -import spack -import os + class Ruby(Package): - """A dynamic, open source programming language with a focus on + """A dynamic, open source programming language with a focus on simplicity and productivity.""" homepage = "https://www.ruby-lang.org/" @@ -15,11 +14,23 @@ class Ruby(Package): def install(self, spec, prefix): configure("--prefix=%s" % prefix) - make() make("install") - def setup_dependent_environment(self, module, spec, ext_spec): + def setup_dependent_environment(self, spack_env, run_env, extension_spec): + # TODO: do this only for actual extensions. + # Set GEM_PATH to include dependent gem directories + ruby_paths = [] + for d in extension_spec.traverse(): + if d.package.extends(self.spec): + ruby_paths.append(d.prefix) + + spack_env.set_path('GEM_PATH', ruby_paths) + + # The actual installation path for this gem + spack_env.set('GEM_HOME', extension_spec.prefix) + + def setup_dependent_package(self, module, ext_spec): """Called before ruby modules' install() methods. Sets GEM_HOME and GEM_PATH to values appropriate for the package being built. @@ -28,14 +39,5 @@ class Ruby(Package): gem('install', '<gem-name>.gem') """ # Ruby extension builds have global ruby and gem functions - module.ruby = Executable(join_path(spec.prefix.bin, 'ruby')) - module.gem = Executable(join_path(spec.prefix.bin, 'gem')) - - # Set GEM_PATH to include dependent gem directories - ruby_paths = [] - for d in ext_spec.traverse(): - if d.package.extends(self.spec): - ruby_paths.append(d.prefix) - os.environ['GEM_PATH'] = ':'.join(ruby_paths) - # The actual installation path for this gem - os.environ['GEM_HOME'] = ext_spec.prefix + module.ruby = Executable(join_path(self.spec.prefix.bin, 'ruby')) + module.gem = Executable(join_path(self.spec.prefix.bin, 'gem')) diff --git a/var/spack/packages/samtools/package.py b/var/spack/repos/builtin/packages/samtools/package.py index 72900398d8..72900398d8 100644 --- a/var/spack/packages/samtools/package.py +++ b/var/spack/repos/builtin/packages/samtools/package.py diff --git a/var/spack/packages/samtools/samtools1.2.patch b/var/spack/repos/builtin/packages/samtools/samtools1.2.patch index ead3ab4e2c..ead3ab4e2c 100644 --- a/var/spack/packages/samtools/samtools1.2.patch +++ b/var/spack/repos/builtin/packages/samtools/samtools1.2.patch diff --git a/var/spack/repos/builtin/packages/scalasca/package.py b/var/spack/repos/builtin/packages/scalasca/package.py new file mode 100644 index 0000000000..6de14564b2 --- /dev/null +++ b/var/spack/repos/builtin/packages/scalasca/package.py @@ -0,0 +1,63 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Scalasca(Package): + """ + Scalasca is a software tool that supports the performance optimization of parallel programs by measuring and + analyzing their runtime behavior. The analysis identifies potential performance bottlenecks - in particular those + concerning communication and synchronization - and offers guidance in exploring their causes. + """ + + homepage = "http://www.scalasca.org" + url = "http://apps.fz-juelich.de/scalasca/releases/scalasca/2.1/dist/scalasca-2.1.tar.gz" + + version('2.2.2', '2bafce988b0522d18072f7771e491ab9', + url='http://apps.fz-juelich.de/scalasca/releases/scalasca/2.2/dist/scalasca-2.2.2.tar.gz') + + version('2.1', 'bab9c2b021e51e2ba187feec442b96e6', + url='http://apps.fz-juelich.de/scalasca/releases/scalasca/2.1/dist/scalasca-2.1.tar.gz') + + depends_on("mpi") + ########## + # Hard-code dependencies for Scalasca according to what stated in the release page + # The OTF2 library path should be detected automatically from SCOREP + # SCALASCA 2.2.2 + depends_on("scorep@1.4:", when='@2.2.2') + depends_on("cube@4.3:", when='@2.2.2') + # SCALASCA 2.1 + depends_on("scorep@1.3", when='@2.1') + depends_on("cube@4.2:", when='@2.1') + ########## + + def install(self, spec, prefix): + configure_args = ["--prefix=%s" % prefix, + "--with-cube=%s" % spec['cube'].prefix.bin, + "--enable-shared"] + configure(*configure_args) + make() + make("install")
\ No newline at end of file diff --git a/var/spack/repos/builtin/packages/scorep/package.py b/var/spack/repos/builtin/packages/scorep/package.py new file mode 100644 index 0000000000..5127e814b6 --- /dev/null +++ b/var/spack/repos/builtin/packages/scorep/package.py @@ -0,0 +1,72 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Scorep(Package): + """ + The Score-P measurement infrastructure is a highly scalable and easy-to-use tool suite for profiling, event + tracing, and online analysis of HPC applications. + """ + + homepage = "http://www.vi-hps.org/projects/score-p" + url = "http://www.vi-hps.org/upload/packages/scorep/scorep-1.2.3.tar.gz" + + version('1.4.2', '3b9a042b13bdd5836452354e6567f71e', + url='http://www.vi-hps.org/upload/packages/scorep/scorep-1.4.2.tar.gz') + version('1.3', '9db6f957b7f51fa01377a9537867a55c', + url='http://www.vi-hps.org/upload/packages/scorep/scorep-1.3.tar.gz') + + ########## + # Dependencies for SCORE-P are quite tight. See the homepage for more information. + # SCOREP 1.4.2 + depends_on('otf2@1.5:1.6', when='@1.4.2') + depends_on('opari2@1.1.4', when='@1.4.2') + depends_on('cube@4.3:4.4', when='@1.4.2') + # SCOREP 1.3 + depends_on("otf2@1.4", when='@1.3') + depends_on("opari2@1.1.4", when='@1.3') + depends_on("cube@4.2.3", when='@1.3') + ########## + + depends_on("mpi") + depends_on("papi") + + def install(self, spec, prefix): + configure = Executable( join_path(self.stage.source_path, 'configure') ) + with working_dir('spack-build', create=True): + configure_args = ["--prefix=%s" % prefix, + "--with-otf2=%s" % spec['otf2'].prefix.bin, + "--with-opari2=%s" % spec['opari2'].prefix.bin, + "--with-cube=%s" % spec['cube'].prefix.bin, + "--with-papi-header=%s" % spec['papi'].prefix.include, + "--with-papi-lib=%s" % spec['papi'].prefix.lib, + "--enable-shared", + "CFLAGS=-fPIC", + "CXXFLAGS=-fPIC"] + configure(*configure_args) + make() + make("install") diff --git a/var/spack/repos/builtin/packages/scotch/package.py b/var/spack/repos/builtin/packages/scotch/package.py new file mode 100644 index 0000000000..8229ed8686 --- /dev/null +++ b/var/spack/repos/builtin/packages/scotch/package.py @@ -0,0 +1,126 @@ +from spack import * +import os + +class Scotch(Package): + """Scotch is a software package for graph and mesh/hypergraph + partitioning, graph clustering, and sparse matrix ordering.""" + homepage = "http://www.labri.fr/perso/pelegrin/scotch/" + url = "http://gforge.inria.fr/frs/download.php/file/34099/scotch_6.0.3.tar.gz" + list_url = "http://gforge.inria.fr/frs/?group_id=248" + + version('6.0.3', '10b0cc0f184de2de99859eafaca83cfc') + + variant('mpi', default=False, description='Activate the compilation of PT-Scotch') + variant('compression', default=True, description='Activate the posibility to use compressed files') + variant('esmumps', default=False, description='Activate the compilation of the lib esmumps needed by mumps') + variant('shared', default=True, description='Build shared libraries') + + depends_on('mpi', when='+mpi') + depends_on('zlib', when='+compression') + depends_on('flex') + depends_on('bison') + + def compiler_specifics(self, makefile_inc, defines): + if self.compiler.name == 'gcc': + defines.append('-Drestrict=__restrict') + elif self.compiler.name == 'intel': + defines.append('-restrict') + + makefile_inc.append('CCS = $(CC)') + + if '+mpi' in self.spec: + makefile_inc.extend([ + 'CCP = %s' % os.path.join(self.spec['mpi'].prefix.bin, 'mpicc'), + 'CCD = $(CCP)' + ]) + else: + makefile_inc.extend([ + 'CCP = mpicc', # It is set but not used + 'CCD = $(CCS)' + ]) + + + + def library_build_type(self, makefile_inc, defines): + makefile_inc.extend([ + 'LIB = .a', + 'CLIBFLAGS = ', + 'RANLIB = ranlib', + 'AR = ar', + 'ARFLAGS = -ruv ' + ]) + + @when('+shared') + def library_build_type(self, makefile_inc, defines): + makefile_inc.extend([ + 'LIB = .so', + 'CLIBFLAGS = -shared -fPIC', + 'RANLIB = echo', + 'AR = $(CC)', + 'ARFLAGS = -shared $(LDFLAGS) -o' + ]) + + def extra_features(self, makefile_inc, defines): + ldflags = [] + + if '+compression' in self.spec: + defines.append('-DCOMMON_FILE_COMPRESS_GZ') + ldflags.append('-L%s -lz' % (self.spec['zlib'].prefix.lib)) + + defines.append('-DCOMMON_PTHREAD') + ldflags.append('-lm -lrt -pthread') + + makefile_inc.append('LDFLAGS = %s' % ' '.join(ldflags)) + + def patch(self): + makefile_inc = [] + defines = [ + '-DCOMMON_RANDOM_FIXED_SEED', + '-DSCOTCH_DETERMINISTIC', + '-DSCOTCH_RENAME', + '-DIDXSIZE64' ] + + self.library_build_type(makefile_inc, defines) + self.compiler_specifics(makefile_inc, defines) + self.extra_features(makefile_inc, defines) + + makefile_inc.extend([ + 'EXE =', + 'OBJ = .o', + 'MAKE = make', + 'CAT = cat', + 'LN = ln', + 'MKDIR = mkdir', + 'MV = mv', + 'CP = cp', + 'CFLAGS = -O3 %s' % (' '.join(defines)), + 'LEX = %s -Pscotchyy -olex.yy.c' % os.path.join(self.spec['flex'].prefix.bin , 'flex'), + 'YACC = %s -pscotchyy -y -b y' % os.path.join(self.spec['bison'].prefix.bin, 'bison'), + 'prefix = %s' % self.prefix, + '' + ]) + + with working_dir('src'): + with open('Makefile.inc', 'w') as fh: + fh.write('\n'.join(makefile_inc)) + + def install(self, spec, prefix): + targets = ['scotch'] + if '+mpi' in self.spec: + targets.append('ptscotch') + + if '+esmumps' in self.spec: + targets.append('esmumps') + if '+mpi' in self.spec: + targets.append('ptesmumps') + + with working_dir('src'): + for app in targets: + make(app, parallel=(not app=='ptesmumps')) + + + install_tree('bin', prefix.bin) + install_tree('lib', prefix.lib) + install_tree('include', prefix.include) + install_tree('man/man1', prefix.share_man1) + diff --git a/var/spack/packages/scr/package.py b/var/spack/repos/builtin/packages/scr/package.py index 9fb758f072..1408dce678 100644 --- a/var/spack/packages/scr/package.py +++ b/var/spack/repos/builtin/packages/scr/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/silo/package.py b/var/spack/repos/builtin/packages/silo/package.py new file mode 100644 index 0000000000..b7894e4d2b --- /dev/null +++ b/var/spack/repos/builtin/packages/silo/package.py @@ -0,0 +1,39 @@ +from spack import * + +class Silo(Package): + """Silo is a library for reading and writing a wide variety of scientific + data to binary, disk files.""" + + homepage = "http://wci.llnl.gov/simulation/computer-codes/silo" + base_url = "https://wci.llnl.gov/content/assets/docs/simulation/computer-codes/silo" + + version('4.10.2', '9ceac777a2f2469ac8cef40f4fab49c8') + version('4.9', 'a83eda4f06761a86726e918fc55e782a') + version('4.8', 'b1cbc0e7ec435eb656dc4b53a23663c9') + + variant('fortran', default=True, description='Enable Fortran support') + variant('silex', default=False, description='Builds Silex, a GUI for viewing Silo files') + + depends_on('hdf5') + depends_on('qt', when='+silex') + + def install(self, spec, prefix): + config_args = [ + '--enable-fortran' if '+fortran' in spec else '--disable-fortran', + '--enable-silex' if '+silex' in spec else '--disable-silex', + ] + + if '+silex' in spec: + config_args.append('--with-Qt-dir=%s' % spec['qt'].prefix) + + configure( + '--prefix=%s' % prefix, + '--with-hdf5=%s,%s' % (spec['hdf5'].prefix.include, spec['hdf5'].prefix.lib), + '--with-zlib=%s,%s' % (spec['zlib'].prefix.include, spec['zlib'].prefix.lib), + *config_args) + + make() + make('install') + + def url_for_version(self, version): + return '%s/silo-%s/silo-%s.tar.gz' % (Silo.base_url, version, version) diff --git a/var/spack/repos/builtin/packages/slepc/package.py b/var/spack/repos/builtin/packages/slepc/package.py new file mode 100644 index 0000000000..8b5f24394f --- /dev/null +++ b/var/spack/repos/builtin/packages/slepc/package.py @@ -0,0 +1,49 @@ +import os +from spack import * + + +class Slepc(Package): + """ + Scalable Library for Eigenvalue Computations. + """ + + homepage = "http://www.grycap.upv.es/slepc" + url = "http://slepc.upv.es/download/download.php?filename=slepc-3.6.2.tar.gz" + + version('3.6.2', '2ab4311bed26ccf7771818665991b2ea3a9b15f97e29fd13911ab1293e8e65df') + + variant('arpack', default=False, description='Enables Arpack wrappers') + + depends_on('petsc') + depends_on('arpack-ng~mpi',when='+arpack^petsc~mpi') + depends_on('arpack-ng+mpi',when='+arpack^petsc+mpi') + + def install(self, spec, prefix): + # set SLEPC_DIR for installation + os.environ['SLEPC_DIR'] = self.stage.source_path + + options = [] + + if '+arpack' in spec: + options.extend([ + '--with-arpack-dir=%s' % spec['arpack-ng'].prefix.lib, + ]) + if 'arpack-ng~mpi' in spec: + options.extend([ + '--with-arpack-flags=-larpack' + ]) + else: + options.extend([ + '--with-arpack-flags=-lparpack,-larpack' + ]) + + configure('--prefix=%s' % prefix, *options) + + make('MAKE_NP=%s' % make_jobs, parallel=False) + #FIXME: + # make('test') + make('install') + + def setup_dependent_environment(self, spack_env, run_env, dependent_spec): + # set up SLEPC_DIR for everyone using SLEPc package + spack_env.set('SLEPC_DIR', self.prefix) diff --git a/var/spack/packages/snappy/package.py b/var/spack/repos/builtin/packages/snappy/package.py index c8f9ceef7d..c8f9ceef7d 100644 --- a/var/spack/packages/snappy/package.py +++ b/var/spack/repos/builtin/packages/snappy/package.py diff --git a/var/spack/repos/builtin/packages/sparsehash/package.py b/var/spack/repos/builtin/packages/sparsehash/package.py new file mode 100644 index 0000000000..7decaeb89b --- /dev/null +++ b/var/spack/repos/builtin/packages/sparsehash/package.py @@ -0,0 +1,14 @@ +from spack import * + +class Sparsehash(Package): + """Sparse and dense hash-tables for C++ by Google""" + homepage = "https://github.com/sparsehash/sparsehash" + url = "https://github.com/sparsehash/sparsehash/archive/sparsehash-2.0.3.tar.gz" + + version('2.0.3', 'd8d5e2538c1c25577b3f066d7a55e99e') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/packages/spindle/package.py b/var/spack/repos/builtin/packages/spindle/package.py index 06a1e14284..a20753458a 100644 --- a/var/spack/packages/spindle/package.py +++ b/var/spack/repos/builtin/packages/spindle/package.py @@ -6,7 +6,7 @@ # Written by Matthew LeGendre, legendre1@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/spot/package.py b/var/spack/repos/builtin/packages/spot/package.py new file mode 100644 index 0000000000..9e539277ae --- /dev/null +++ b/var/spack/repos/builtin/packages/spot/package.py @@ -0,0 +1,18 @@ +from spack import * +import os + +class Spot(Package): + """Spot is a C++11 library for omega-automata manipulation and model checking.""" + homepage = "https://spot.lrde.epita.fr/index.html" + url = "http://www.lrde.epita.fr/dload/spot/spot-1.99.3.tar.gz" + + version('1.99.3', 'd53adcb2d0fe7c69f45d4e595a58254e') + + #depends_on("gcc@4.8:") + depends_on("python@3.2:") + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + + make() + make("install") diff --git a/var/spack/packages/sqlite/package.py b/var/spack/repos/builtin/packages/sqlite/package.py index 734b0b6cb6..1cf2d30239 100644 --- a/var/spack/packages/sqlite/package.py +++ b/var/spack/repos/builtin/packages/sqlite/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/packages/stat/configure_mpicxx.patch b/var/spack/repos/builtin/packages/stat/configure_mpicxx.patch index e09056d95c..e09056d95c 100644 --- a/var/spack/packages/stat/configure_mpicxx.patch +++ b/var/spack/repos/builtin/packages/stat/configure_mpicxx.patch diff --git a/var/spack/packages/stat/package.py b/var/spack/repos/builtin/packages/stat/package.py index 5d81e62731..5d81e62731 100644 --- a/var/spack/packages/stat/package.py +++ b/var/spack/repos/builtin/packages/stat/package.py diff --git a/var/spack/repos/builtin/packages/subversion/package.py b/var/spack/repos/builtin/packages/subversion/package.py new file mode 100644 index 0000000000..5db1c3eb92 --- /dev/null +++ b/var/spack/repos/builtin/packages/subversion/package.py @@ -0,0 +1,77 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## +from spack import * +#import os + +class Subversion(Package): + """Apache Subversion - an open source version control system.""" + homepage = 'https://subversion.apache.org/' + url = 'http://archive.apache.org/dist/subversion/subversion-1.8.13.tar.gz' + + version('1.8.13', '8065b3698d799507fb72dd7926ed32b6') + version('1.9.3', 'a92bcfaec4e5038f82c74a7b5bbd2f46') + + depends_on('apr') + depends_on('apr-util') + depends_on('zlib') + depends_on('sqlite') + + # Optional: We need swig if we want the Perl, Python or Ruby + # bindings. + #depends_on('swig') + #depends_on('python') + #depends_on('perl') + #depends_on('ruby') + + def install(self, spec, prefix): + + # configure, build, install: + # Ref: http://www.linuxfromscratch.org/blfs/view/svn/general/subversion.html + options = ['--prefix=%s' % prefix] + options.append('--with-apr=%s' % spec['apr'].prefix) + options.append('--with-apr-util=%s' % spec['apr-util'].prefix) + options.append('--with-zlib=%s' % spec['zlib'].prefix) + options.append('--with-sqlite=%s' % spec['sqlite'].prefix) + #options.append('--with-swig=%s' % spec['swig'].prefix) + + configure(*options) + make() + make('install') + + # python bindings + #make('swig-py', + # 'swig-pydir=/usr/lib/python2.7/site-packages/libsvn', + # 'swig_pydir_extra=/usr/lib/python2.7/site-packages/svn') + #make('install-swig-py', + # 'swig-pydir=/usr/lib/python2.7/site-packages/libsvn', + # 'swig_pydir_extra=/usr/lib/python2.7/site-packages/svn') + + # perl bindings + #make('swig-pl') + #make('install-swig-pl') + + # ruby bindings + #make('swig-rb') + #make('isntall-swig-rb') diff --git a/var/spack/repos/builtin/packages/suite-sparse/package.py b/var/spack/repos/builtin/packages/suite-sparse/package.py new file mode 100644 index 0000000000..a4b3979a15 --- /dev/null +++ b/var/spack/repos/builtin/packages/suite-sparse/package.py @@ -0,0 +1,63 @@ +from spack import * + + +class SuiteSparse(Package): + """ + SuiteSparse is a suite of sparse matrix algorithms + """ + homepage = 'http://faculty.cse.tamu.edu/davis/suitesparse.html' + url = 'http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-4.5.1.tar.gz' + + version('4.5.1', 'f0ea9aad8d2d1ffec66a5b6bfeff5319') + + # FIXME: (see below) + # variant('tbb', default=True, description='Build with Intel TBB') + + depends_on('blas') + depends_on('lapack') + + depends_on('metis@5.1.0', when='@4.5.1') + # FIXME: + # in @4.5.1. TBB support in SPQR seems to be broken as TBB-related linkng flags + # does not seem to be used, which leads to linking errors on Linux. + # Try re-enabling in future versions. + # depends_on('tbb', when='+tbb') + + def install(self, spec, prefix): + # The build system of SuiteSparse is quite old-fashioned + # It's basically a plain Makefile which include an header (SuiteSparse_config/SuiteSparse_config.mk) + # with a lot of convoluted logic in it. + # Any kind of customization will need to go through filtering of that file + + make_args = ['INSTALL=%s' % prefix] + + # inject Spack compiler wrappers + make_args.extend([ + 'AUTOCC=no', + 'CC=cc', + 'CXX=c++', + 'F77=f77', + ]) + + # use Spack's metis in CHOLMOD/Partition module, + # otherwise internal Metis will be compiled + make_args.extend([ + 'MY_METIS_LIB=-L%s -lmetis' % spec['metis'].prefix.lib, + 'MY_METIS_INC=%s' % spec['metis'].prefix.include, + ]) + + # Intel TBB in SuiteSparseQR + if '+tbb' in spec: + make_args.extend([ + 'SPQR_CONFIG=-DHAVE_TBB', + 'TBB=-L%s -ltbb' % spec['tbb'].prefix.lib, + ]) + + # BLAS arguments require path to libraries + # FIXME : (blas / lapack always provide libblas and liblapack as aliases) + make_args.extend([ + 'BLAS=-lblas', + 'LAPACK=-llapack' + ]) + + make('install', *make_args) diff --git a/var/spack/packages/sundials/package.py b/var/spack/repos/builtin/packages/sundials/package.py index 8b784c8c3c..7e025a8244 100644 --- a/var/spack/packages/sundials/package.py +++ b/var/spack/repos/builtin/packages/sundials/package.py @@ -6,7 +6,7 @@ # Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/superlu-dist/package.py b/var/spack/repos/builtin/packages/superlu-dist/package.py new file mode 100644 index 0000000000..5cf5e129b4 --- /dev/null +++ b/var/spack/repos/builtin/packages/superlu-dist/package.py @@ -0,0 +1,65 @@ +from spack import * +import glob + +class SuperluDist(Package): + """A general purpose library for the direct solution of large, sparse, nonsymmetric systems of linear equations on high performance machines.""" + homepage = "http://crd-legacy.lbl.gov/~xiaoye/SuperLU/" + url = "http://crd-legacy.lbl.gov/~xiaoye/SuperLU/superlu_dist_4.1.tar.gz" + + version('4.3', 'ee66c84e37b4f7cc557771ccc3dc43ae') + version('4.2', 'ae9fafae161f775fbac6eba11e530a65') + version('4.1', '4edee38cc29f687bd0c8eb361096a455') + version('4.0', 'c0b98b611df227ae050bc1635c6940e0') + + depends_on ('mpi') + depends_on ('blas') + depends_on ('lapack') + depends_on ('parmetis') + depends_on ('metis@5:') + + def install(self, spec, prefix): + makefile_inc = [] + makefile_inc.extend([ + 'PLAT = _mac_x', + 'DSuperLUroot = %s' % self.stage.source_path, #self.stage.path, prefix + 'DSUPERLULIB = $(DSuperLUroot)/lib/libsuperlu_dist.a', + 'BLASDEF = -DUSE_VENDOR_BLAS', + 'BLASLIB = -L%s -llapack %s -lblas' % (spec['lapack'].prefix.lib, spec['blas'].prefix.lib), # FIXME: avoid hardcoding blas/lapack lib names + 'METISLIB = -L%s -lmetis' % spec['metis'].prefix.lib, + 'PARMETISLIB = -L%s -lparmetis' % spec['parmetis'].prefix.lib, + 'FLIBS =', + 'LIBS = $(DSUPERLULIB) $(BLASLIB) $(PARMETISLIB) $(METISLIB)', + 'ARCH = ar', + 'ARCHFLAGS = cr', + 'RANLIB = true', + 'CC = mpicc', # FIXME avoid hardcoding MPI compiler names + 'CFLAGS = -fPIC -std=c99 -O2 -I%s -I%s' %(spec['parmetis'].prefix.include, spec['metis'].prefix.include), + 'NOOPTS = -fPIC -std=c99', + 'FORTRAN = mpif77', + 'F90FLAGS = -O2', + 'LOADER = mpif77', + 'LOADOPTS =', + 'CDEFS = -DAdd_' + ]) + + #with working_dir('src'): + with open('make.inc', 'w') as fh: + fh.write('\n'.join(makefile_inc)) + + make("lib", parallel=False) + + # FIXME: + # cd "EXAMPLE" do + # system "make" + + # need to install by hand + headers_location = self.prefix.include + mkdirp(headers_location) + mkdirp(prefix.lib) + + headers = glob.glob(join_path(self.stage.source_path, 'SRC','*.h')) + for h in headers: + install(h,headers_location) + + superludist_lib = join_path(self.stage.source_path, 'lib/libsuperlu_dist.a') + install(superludist_lib,self.prefix.lib) diff --git a/var/spack/packages/swig/package.py b/var/spack/repos/builtin/packages/swig/package.py index ee536d7063..8d46c4fe46 100644 --- a/var/spack/packages/swig/package.py +++ b/var/spack/repos/builtin/packages/swig/package.py @@ -6,7 +6,7 @@ # Written by Matthew LeGendre, legendre1@llnl.gov, All rights reserved. # LLNL-CODE-647188 # -# For details, see https://scalability-llnl.github.io/spack +# For details, see https://github.com/llnl/spack # Please also see the LICENSE file for our notice and the LGPL. # # This program is free software; you can redistribute it and/or modify diff --git a/var/spack/repos/builtin/packages/szip/package.py b/var/spack/repos/builtin/packages/szip/package.py new file mode 100644 index 0000000000..c48c5b431e --- /dev/null +++ b/var/spack/repos/builtin/packages/szip/package.py @@ -0,0 +1,21 @@ +from spack import * + +class Szip(Package): + """Szip is an implementation of the extended-Rice lossless compression algorithm. + It provides lossless compression of scientific data, and is provided with HDF + software products.""" + + homepage = "https://www.hdfgroup.org/doc_resource/SZIP/" + url = "http://www.hdfgroup.org/ftp/lib-external/szip/2.1/src/szip-2.1.tar.gz" + + version('2.1', '902f831bcefb69c6b635374424acbead') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix, + '--enable-production', + '--enable-shared', + '--enable-static', + '--enable-encoding') + + make() + make("install") diff --git a/var/spack/repos/builtin/packages/tar/package.py b/var/spack/repos/builtin/packages/tar/package.py new file mode 100644 index 0000000000..539174017c --- /dev/null +++ b/var/spack/repos/builtin/packages/tar/package.py @@ -0,0 +1,13 @@ +from spack import * + +class Tar(Package): + """GNU Tar provides the ability to create tar archives, as well as various other kinds of manipulation.""" + homepage = "https://www.gnu.org/software/tar/" + url = "http://ftp.gnu.org/gnu/tar/tar-1.28.tar.gz" + + version('1.28', '6ea3dbea1f2b0409b234048e021a9fd7') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix) + make() + make('install') diff --git a/var/spack/packages/task/package.py b/var/spack/repos/builtin/packages/task/package.py index 07f44cc45b..07f44cc45b 100644 --- a/var/spack/packages/task/package.py +++ b/var/spack/repos/builtin/packages/task/package.py diff --git a/var/spack/packages/taskd/package.py b/var/spack/repos/builtin/packages/taskd/package.py index 66bc0cb484..66bc0cb484 100644 --- a/var/spack/packages/taskd/package.py +++ b/var/spack/repos/builtin/packages/taskd/package.py diff --git a/var/spack/repos/builtin/packages/tau/package.py b/var/spack/repos/builtin/packages/tau/package.py new file mode 100644 index 0000000000..31492397d8 --- /dev/null +++ b/var/spack/repos/builtin/packages/tau/package.py @@ -0,0 +1,139 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + +import os +import os.path + +from llnl.util.filesystem import join_path + +class Tau(Package): + """ + A portable profiling and tracing toolkit for performance + analysis of parallel programs written in Fortran, C, C++, UPC, + Java, Python. + """ + homepage = "http://www.cs.uoregon.edu/research/tau" + url = "https://www.cs.uoregon.edu/research/tau/tau_releases/tau-2.25.tar.gz" + + version('2.25', '46cd48fa3f3c4ce0197017b3158a2b43') + version('2.24.1', '6635ece6d1f08215b02f5d0b3c1e971b') + version('2.24', '57ce33539c187f2e5ec68f0367c76db4') + version('2.23.1', '6593b47ae1e7a838e632652f0426fe72') + + # TODO : shmem variant missing + variant('download', default=False, description='Downloads and builds various dependencies') + variant('scorep', default=False, description='Activates SCOREP support') + variant('openmp', default=True, description='Use OpenMP threads') + variant('mpi', default=True, description='Specify use of TAU MPI wrapper library') + variant('phase', default=True, description='Generate phase based profiles') + variant('comm', default=True, description=' Generate profiles with MPI communicator info') + + # TODO : Try to build direct OTF2 support? Some parts of the OTF support library in TAU are non-conformant, + # TODO : and fail at compile-time. Further, SCOREP is compiled with OTF2 support. + depends_on('pdt') # Required for TAU instrumentation + depends_on('scorep', when='+scorep') + depends_on('binutils', when='~download') + depends_on('mpi', when='+mpi') + + def set_compiler_options(self): + + useropt = ["-O2", self.rpath_args] + + ########## + # Selecting a compiler with TAU configure is quite tricky: + # 1 - compilers are mapped to a given set of strings (and spack cc, cxx, etc. wrappers are not among them) + # 2 - absolute paths are not allowed + # 3 - the usual environment variables seems not to be checked ('CC', 'CXX' and 'FC') + # 4 - if no -cc=<compiler> -cxx=<compiler> is passed tau is built with system compiler silently + # (regardless of what %<compiler> is used in the spec) + # + # In the following we give TAU what he expects and put compilers into PATH + compiler_path = os.path.dirname(self.compiler.cc) + os.environ['PATH'] = ':'.join([compiler_path, os.environ['PATH']]) + compiler_options = ['-c++=%s' % self.compiler.cxx_names[0], + '-cc=%s' % self.compiler.cc_names[0]] + if self.compiler.fc: + compiler_options.append('-fortran=%s' % self.compiler.fc_names[0]) + ########## + + # Construct the string of custom compiler flags and append it to compiler related options + useropt = ' '.join(useropt) + useropt = "-useropt=%s" % useropt + compiler_options.append(useropt) + return compiler_options + + def install(self, spec, prefix): + # TAU isn't happy with directories that have '@' in the path. Sigh. + change_sed_delimiter('@', ';', 'configure') + change_sed_delimiter('@', ';', 'utils/FixMakefile') + change_sed_delimiter('@', ';', 'utils/FixMakefile.sed.default') + + # TAU configure, despite the name , seems to be a manually written script (nothing related to autotools). + # As such it has a few #peculiarities# that make this build quite hackish. + options = ["-prefix=%s" % prefix, + "-iowrapper", + "-pdt=%s" % spec['pdt'].prefix] + # If download is active, download and build suggested dependencies + if '+download' in spec: + options.extend(['-bfd=download', + '-unwind=download', + '-asmdex=download']) + else: + options.extend(["-bfd=%s" % spec['binutils'].prefix]) + # TODO : unwind and asmdex are still missing + + if '+scorep' in spec: + options.append("-scorep=%s" % spec['scorep'].prefix) + + if '+openmp' in spec: + options.append('-openmp') + + if '+mpi' in spec: + options.append('-mpi') + + if '+phase' in spec: + options.append('-PROFILEPHASE') + + if '+comm' in spec: + options.append('-PROFILECOMMUNICATORS') + + compiler_specific_options = self.set_compiler_options() + options.extend(compiler_specific_options) + configure(*options) + make("install") + + # Link arch-specific directories into prefix since there is + # only one arch per prefix the way spack installs. + self.link_tau_arch_dirs() + + def link_tau_arch_dirs(self): + for subdir in os.listdir(self.prefix): + for d in ('bin', 'lib'): + src = join_path(self.prefix, subdir, d) + dest = join_path(self.prefix, d) + if os.path.isdir(src) and not os.path.exists(dest): + os.symlink(join_path(subdir, d), dest) diff --git a/var/spack/repos/builtin/packages/tbb/package.py b/var/spack/repos/builtin/packages/tbb/package.py new file mode 100644 index 0000000000..56ffe4c27c --- /dev/null +++ b/var/spack/repos/builtin/packages/tbb/package.py @@ -0,0 +1,79 @@ +from spack import * +import os +import glob + +class Tbb(Package): + """Widely used C++ template library for task parallelism. + Intel Threading Building Blocks (Intel TBB) lets you easily write parallel + C++ programs that take full advantage of multicore performance, that are + portable and composable, and that have future-proof scalability. + """ + homepage = "http://www.threadingbuildingblocks.org/" + + # Only version-specific URL's work for TBB + version('4.4.3', '80707e277f69d9b20eeebdd7a5f5331137868ce1', url='https://www.threadingbuildingblocks.org/sites/default/files/software_releases/source/tbb44_20160128oss_src_0.tgz') + + def coerce_to_spack(self,tbb_build_subdir): + for compiler in ["icc","gcc","clang"]: + fs = glob.glob(join_path(tbb_build_subdir,"*.%s.inc" % compiler )) + for f in fs: + lines = open(f).readlines() + of = open(f,"w") + for l in lines: + if l.strip().startswith("CPLUS ="): + of.write("# coerced to spack\n") + of.write("CPLUS = $(CXX)\n") + elif l.strip().startswith("CPLUS ="): + of.write("# coerced to spack\n") + of.write("CONLY = $(CC)\n") + else: + of.write(l); + + def install(self, spec, prefix): + # + # we need to follow TBB's compiler selection logic to get the proper build + link flags + # but we still need to use spack's compiler wrappers + # to accomplish this, we do two things: + # + # * Look at the spack spec to determine which compiler we should pass to tbb's Makefile + # + # * patch tbb's build system to use the compiler wrappers (CC, CXX) for + # icc, gcc, clang + # (see coerce_to_spack()) + # + self.coerce_to_spack("build") + + if spec.satisfies('%clang'): + tbb_compiler = "clang" + elif spec.satisfies('%intel'): + tbb_compiler = "icc" + else: + tbb_compiler = "gcc" + + + mkdirp(prefix) + mkdirp(prefix.lib) + + # + # tbb does not have a configure script or make install target + # we simply call make, and try to put the pieces together + # + make("compiler=%s" %(tbb_compiler)) + + # install headers to {prefix}/include + install_tree('include',prefix.include) + + # install libs to {prefix}/lib + tbb_lib_names = ["libtbb", + "libtbbmalloc", + "libtbbmalloc_proxy"] + + for lib_name in tbb_lib_names: + # install release libs + fs = glob.glob(join_path("build","*release",lib_name + ".*")) + for f in fs: + install(f, prefix.lib) + # install debug libs if they exist + fs = glob.glob(join_path("build","*debug",lib_name + "_debug.*")) + for f in fs: + install(f, prefix.lib) diff --git a/var/spack/packages/tcl/package.py b/var/spack/repos/builtin/packages/tcl/package.py index 529adf7788..db8bee88d0 100644 --- a/var/spack/packages/tcl/package.py +++ b/var/spack/repos/builtin/packages/tcl/package.py @@ -10,8 +10,13 @@ class Tcl(Package): extensible.""" homepage = "http://www.tcl.tk" - version('8.6.3', 'db382feca91754b7f93da16dc4cdad1f', - url="http://prdownloads.sourceforge.net/tcl/tcl8.6.3-src.tar.gz") + def url_for_version(self, version): + return 'http://prdownloads.sourceforge.net/tcl/tcl%s-src.tar.gz' % version + + version('8.6.5', '0e6426a4ca9401825fbc6ecf3d89a326') + version('8.6.4', 'd7cbb91f1ded1919370a30edd1534304') + version('8.6.3', 'db382feca91754b7f93da16dc4cdad1f') + version('8.5.19', '0e6426a4ca9401825fbc6ecf3d89a326') depends_on('zlib') diff --git a/var/spack/repos/builtin/packages/tetgen/package.py b/var/spack/repos/builtin/packages/tetgen/package.py new file mode 100644 index 0000000000..30c2b76655 --- /dev/null +++ b/var/spack/repos/builtin/packages/tetgen/package.py @@ -0,0 +1,28 @@ +from spack import * + +class Tetgen(Package): + """TetGen is a program and library that can be used to generate tetrahedral + meshes for given 3D polyhedral domains. TetGen generates exact constrained + Delaunay tetrahedralizations, boundary conforming Delaunay meshes, and + Voronoi paritions.""" + + homepage = "http://www.tetgen.org" + url = "http://www.tetgen.org/files/tetgen1.4.3.tar.gz" + + version('1.4.3', 'd6a4bcdde2ac804f7ec66c29dcb63c18') + + # TODO: Make this a build dependency once build dependencies are supported + # (see: https://github.com/LLNL/spack/pull/378). + depends_on('cmake@2.8.7:', when='@1.5.0:') + + def install(self, spec, prefix): + make('tetgen', 'tetlib') + + mkdirp(prefix.bin) + install('tetgen', prefix.bin) + + mkdirp(prefix.include) + install('tetgen.h', prefix.include) + + mkdirp(prefix.lib) + install('libtet.a', prefix.lib) diff --git a/var/spack/repos/builtin/packages/texinfo/package.py b/var/spack/repos/builtin/packages/texinfo/package.py new file mode 100644 index 0000000000..6cf8d79072 --- /dev/null +++ b/var/spack/repos/builtin/packages/texinfo/package.py @@ -0,0 +1,46 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://software.llnl.gov/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Texinfo(Package): + """ + Texinfo is the official documentation format of the GNU project. It was invented by Richard Stallman and Bob + Chassell many years ago, loosely based on Brian Reid's Scribe and other formatting languages of the time. It is + used by many non-GNU projects as well.FIXME: put a proper description of your package here. + """ + homepage = "https://www.gnu.org/software/texinfo/" + url = "http://ftp.gnu.org/gnu/texinfo/texinfo-6.0.tar.gz" + + version('6.0', 'e1a2ef5dce5018b53f0f6eed45b247a7') + version('5.2', '1b8f98b80a8e6c50422125e07522e8db') + version('5.1', '54e250014fe698fb4832016158747c03') + version('5.0', '918432285abe6fe96c98355594c5656a') + + def install(self, spec, prefix): + configure('--prefix=%s' % prefix) + make() + make("install") diff --git a/var/spack/packages/the_silver_searcher/package.py b/var/spack/repos/builtin/packages/the_silver_searcher/package.py index e4020b6766..e4020b6766 100644 --- a/var/spack/packages/the_silver_searcher/package.py +++ b/var/spack/repos/builtin/packages/the_silver_searcher/package.py diff --git a/var/spack/repos/builtin/packages/thrift/package.py b/var/spack/repos/builtin/packages/thrift/package.py new file mode 100644 index 0000000000..6430f40e80 --- /dev/null +++ b/var/spack/repos/builtin/packages/thrift/package.py @@ -0,0 +1,55 @@ +from spack import * + +class Thrift(Package): + """The Apache Thrift software framework, for scalable cross-language services + development, combines a software stack with a code generation engine to build + services that work efficiently and seamlessly between C++, Java, Python, PHP, + Ruby, Erlang, Perl, Haskell, C#, Cocoa, JavaScript, Node.js, Smalltalk, OCaml + and Delphi and other languages.""" + + homepage = "http://thrift.apache.org" + url = "http://apache.mirrors.ionfish.org/thrift/0.9.2/thrift-0.9.2.tar.gz" + + version('0.9.2', '89f63cc4d0100912f4a1f8a9dee63678') + + # Currently only support for c-family and python + variant('c', default=True, description="Build support for C-family languages") + variant('python', default=True, description="Build support for python") + + depends_on('jdk') + depends_on('autoconf') + depends_on('automake') + depends_on('libtool') + depends_on('boost@1.53:') + depends_on('bison') + depends_on('flex') + depends_on('openssl') + + # Variant dependencies + extends('python', when='+python') + + depends_on('zlib', when='+c') + depends_on('libevent', when='+c') + + def install(self, spec, prefix): + env['PY_PREFIX'] = prefix + env['JAVA_HOME'] = spec['jdk'].prefix + + # configure options + options = ['--prefix=%s' % prefix] + + options.append('--with-boost=%s' % spec['boost'].prefix) + options.append('--enable-tests=no') + + options.append('--with-c=%s' % ('yes' if '+c' in spec else 'no')) + options.append('--with-python=%s' % ('yes' if '+python' in spec else 'no')) + options.append('--with-java=%s' % ('yes' if '+java' in spec else 'no')) + options.append('--with-go=%s' % ('yes' if '+go' in spec else 'no')) + options.append('--with-lua=%s' % ('yes' if '+lua' in spec else 'no')) + options.append('--with-php=%s' % ('yes' if '+php' in spec else 'no')) + options.append('--with-qt4=%s' % ('yes' if '+qt4' in spec else 'no')) + + configure(*options) + + make() + make("install") diff --git a/var/spack/packages/tk/package.py b/var/spack/repos/builtin/packages/tk/package.py index 96736f6f95..839d217f34 100644 --- a/var/spack/packages/tk/package.py +++ b/var/spack/repos/builtin/packages/tk/package.py @@ -8,9 +8,11 @@ class Tk(Package): applications that run unchanged across Windows, Mac OS X, Linux and more.""" homepage = "http://www.tcl.tk" - url = "http://prdownloads.sourceforge.net/tcl/tk8.6.3-src.tar.gz" - version('src', '85ca4dbf4dcc19777fd456f6ee5d0221') + def url_for_version(self, version): + return "http://prdownloads.sourceforge.net/tcl/tk%s-src.tar.gz" % version + + version('8.6.3', '85ca4dbf4dcc19777fd456f6ee5d0221') depends_on("tcl") diff --git a/var/spack/packages/tmux/package.py b/var/spack/repos/builtin/packages/tmux/package.py index 23d36db427..f2067d1366 100644 --- a/var/spack/packages/tmux/package.py +++ b/var/spack/repos/builtin/packages/tmux/package.py @@ -7,10 +7,11 @@ class Tmux(Package): do a lot more. """ - homepage = "http://tmux.sourceforge.net" - url = "http://downloads.sourceforge.net/project/tmux/tmux/tmux-1.9/tmux-1.9a.tar.gz" + homepage = "http://tmux.github.io" + url = "https://github.com/tmux/tmux/releases/download/2.1/tmux-2.1.tar.gz" version('1.9a', 'b07601711f96f1d260b390513b509a2d') + version('2.1', '74a2855695bccb51b6e301383ad4818c') depends_on('libevent') depends_on('ncurses') diff --git a/var/spack/packages/tmuxinator/package.py b/var/spack/repos/builtin/packages/tmuxinator/package.py index 26c061cbd6..77ae063e5d 100644 --- a/var/spack/packages/tmuxinator/package.py +++ b/var/spack/repos/builtin/packages/tmuxinator/package.py @@ -5,7 +5,7 @@ class Tmuxinator(Package): homepage = "https://github.com/tmuxinator/tmuxinator" url = "https://github.com/tmuxinator/tmuxinator" - version('0.6.11', + version('0.6.11', git='https://github.com/tmuxinator/tmuxinator', tag='v0.6.11') @@ -13,5 +13,4 @@ class Tmuxinator(Package): def install(self, spec, prefix): gem('build', 'tmuxinator.gemspec') - gem('install', 'tmuxinator-{}.gem'.format(self.version)) - + gem('install', 'tmuxinator-{0}.gem'.format(self.version)) diff --git a/var/spack/repos/builtin/packages/triangle/package.py b/var/spack/repos/builtin/packages/triangle/package.py new file mode 100644 index 0000000000..f65d93776d --- /dev/null +++ b/var/spack/repos/builtin/packages/triangle/package.py @@ -0,0 +1,20 @@ +from spack import * + +class Triangle(Package): + """Triangle is a two-dimensional mesh generator and Delaunay + triangulator. Triangle generates exact Delaunay triangulations, + constrained Delaunay triangulations, conforming Delaunay + triangulations, Voronoi diagrams, and high-quality triangular + meshes.""" + + homepage = "http://www.cs.cmu.edu/~quake/triangle.html" + url = "http://www.netlib.org/voronoi/triangle.zip" + + version('1.6', '10aff8d7950f5e0e2fb6dd2e340be2c9') + + def install(self, spec, prefix): + make() + mkdirp(prefix.bin) + + install('triangle', prefix.bin) + install('showme', prefix.bin) diff --git a/var/spack/repos/builtin/packages/trilinos/package.py b/var/spack/repos/builtin/packages/trilinos/package.py new file mode 100644 index 0000000000..0f72055fa7 --- /dev/null +++ b/var/spack/repos/builtin/packages/trilinos/package.py @@ -0,0 +1,246 @@ +from spack import * +import os, sys, glob + +# Trilinos is complicated to build, as an inspiration a couple of links to other repositories which build it: +# https://github.com/hpcugent/easybuild-easyblocks/blob/master/easybuild/easyblocks/t/trilinos.py#L111 +# https://github.com/koecher/candi/blob/master/deal.II-toolchain/packages/trilinos.package +# https://gitlab.com/configurations/cluster-config/blob/master/trilinos.sh +# https://github.com/Homebrew/homebrew-science/blob/master/trilinos.rb +# and some relevant documentation/examples: +# https://github.com/trilinos/Trilinos/issues/175 +class Trilinos(Package): + """The Trilinos Project is an effort to develop algorithms and enabling technologies within an object-oriented + software framework for the solution of large-scale, complex multi-physics engineering and scientific problems. + A unique design feature of Trilinos is its focus on packages. + """ + homepage = "https://trilinos.org/" + url = "http://trilinos.csbsju.edu/download/files/trilinos-12.2.1-Source.tar.gz" + + version('12.6.1', 'adcf2d3aab74cdda98f88fee19cd1442604199b0515ee3da4d80cbe8f37d00e4') + version('12.4.2', '7c830f7f0f68b8ad324690603baf404e') + version('12.2.1', '6161926ea247863c690e927687f83be9') + version('12.0.1', 'bd99741d047471e127b8296b2ec08017') + version('11.14.3', '2f4f83f8333e4233c57d0f01c4b57426') + version('11.14.2', 'a43590cf896c677890d75bfe75bc6254') + version('11.14.1', '40febc57f76668be8b6a77b7607bb67f') + + variant('metis', default=True, description='Compile with METIS and ParMETIS') + variant('mumps', default=True, description='Compile with support for MUMPS solvers') + variant('superlu-dist', default=True, description='Compile with SuperluDist solvers') + variant('hypre', default=True, description='Compile with Hypre preconditioner') + variant('hdf5', default=True, description='Compile with HDF5') + variant('suite-sparse', default=True, description='Compile with SuiteSparse solvers') + # not everyone has py-numpy activated, keep it disabled by default to avoid configure errors + variant('python', default=False, description='Build python wrappers') + variant('shared', default=True, description='Enables the build of shared libraries') + variant('debug', default=False, description='Builds a debug version of the libraries') + + # Everything should be compiled with -fpic + depends_on('blas') + depends_on('lapack') + depends_on('boost') + depends_on('matio') + depends_on('glm') + depends_on('swig') + depends_on('metis@5:',when='+metis') + depends_on('suite-sparse',when='+suite-sparse') + + # MPI related dependencies + depends_on('mpi') + depends_on('netcdf+mpi') + depends_on('parmetis',when='+metis') + # Trilinos' Tribits config system is limited which makes it + # very tricky to link Amesos with static MUMPS, see + # https://trilinos.org/docs/dev/packages/amesos2/doc/html/classAmesos2_1_1MUMPS.html + # One could work it out by getting linking flags from mpif90 --showme:link (or alike) + # and adding results to -DTrilinos_EXTRA_LINK_FLAGS + # together with Blas and Lapack and ScaLAPACK and Blacs and -lgfortran and + # it may work at the end. But let's avoid all this by simply using shared libs + depends_on('mumps@5.0:+mpi+shared',when='+mumps') + depends_on('scalapack',when='+mumps') + depends_on('superlu-dist',when='+superlu-dist') + depends_on('hypre~internal-superlu',when='+hypre') + depends_on('hdf5+mpi',when='+hdf5') + + depends_on('python',when='+python') + + patch('umfpack_from_suitesparse.patch') + + # check that the combination of variants makes sense + def variants_check(self): + if '+superlu-dist' in self.spec and self.spec.satisfies('@:11.4.3'): + # For Trilinos v11 we need to force SuperLUDist=OFF, + # since only the deprecated SuperLUDist v3.3 together with an Amesos patch + # is working. + raise RuntimeError('The superlu-dist variant can only be used with Trilinos @12.0.1:') + + def install(self, spec, prefix): + self.variants_check() + + cxx_flags = [] + options = [] + options.extend(std_cmake_args) + + mpi_bin = spec['mpi'].prefix.bin + options.extend(['-DTrilinos_ENABLE_ALL_PACKAGES:BOOL=ON', + '-DTrilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON', + '-DTrilinos_VERBOSE_CONFIGURE:BOOL=OFF', + '-DTrilinos_ENABLE_TESTS:BOOL=OFF', + '-DTrilinos_ENABLE_EXAMPLES:BOOL=OFF', + '-DCMAKE_BUILD_TYPE:STRING=%s' % ('DEBUG' if '+debug' in spec else 'RELEASE'), + '-DBUILD_SHARED_LIBS:BOOL=%s' % ('ON' if '+shared' in spec else 'OFF'), + '-DTPL_ENABLE_MPI:BOOL=ON', + '-DMPI_BASE_DIR:PATH=%s' % spec['mpi'].prefix, + '-DTPL_ENABLE_BLAS=ON', + '-DBLAS_LIBRARY_NAMES=blas', # FIXME: don't hardcode names + '-DBLAS_LIBRARY_DIRS=%s' % spec['blas'].prefix.lib, + '-DTPL_ENABLE_LAPACK=ON', + '-DLAPACK_LIBRARY_NAMES=lapack', + '-DLAPACK_LIBRARY_DIRS=%s' % spec['lapack'].prefix, + '-DTPL_ENABLE_Boost:BOOL=ON', + '-DBoost_INCLUDE_DIRS:PATH=%s' % spec['boost'].prefix.include, + '-DBoost_LIBRARY_DIRS:PATH=%s' % spec['boost'].prefix.lib, + '-DTrilinos_ENABLE_EXPLICIT_INSTANTIATION:BOOL=ON', + '-DTrilinos_ENABLE_CXX11:BOOL=ON', + '-DTPL_ENABLE_Netcdf:BOOL=ON', + '-DTPL_ENABLE_HYPRE:BOOL=%s' % ('ON' if '+hypre' in spec else 'OFF'), + '-DTPL_ENABLE_HDF5:BOOL=%s' % ('ON' if '+hdf5' in spec else 'OFF'), + ]) + + # Fortran lib + libgfortran = os.path.dirname (os.popen('%s --print-file-name libgfortran.a' % join_path(mpi_bin,'mpif90') ).read()) + options.extend([ + '-DTrilinos_EXTRA_LINK_FLAGS:STRING=-L%s/ -lgfortran' % libgfortran, + '-DTrilinos_ENABLE_Fortran=ON' + ]) + + # for build-debug only: + #options.extend([ + # '-DCMAKE_VERBOSE_MAKEFILE:BOOL=TRUE' + #]) + + # suite-sparse related + if '+suite-sparse' in spec: + options.extend([ + '-DTPL_ENABLE_Cholmod:BOOL=OFF', # FIXME: Trilinos seems to be looking for static libs only, patch CMake TPL file? + #'-DTPL_ENABLE_Cholmod:BOOL=ON', + #'-DCholmod_LIBRARY_DIRS:PATH=%s' % spec['suite-sparse'].prefix.lib, + #'-DCholmod_INCLUDE_DIRS:PATH=%s' % spec['suite-sparse'].prefix.include, + '-DTPL_ENABLE_UMFPACK:BOOL=ON', + '-DUMFPACK_LIBRARY_DIRS:PATH=%s' % spec['suite-sparse'].prefix.lib, + '-DUMFPACK_INCLUDE_DIRS:PATH=%s' % spec['suite-sparse'].prefix.include, + '-DUMFPACK_LIBRARY_NAMES=umfpack;amd;colamd;cholmod;suitesparseconfig' + ]) + else: + options.extend([ + '-DTPL_ENABLE_Cholmod:BOOL=OFF', + '-DTPL_ENABLE_UMFPACK:BOOL=OFF', + ]) + + # metis / parmetis + if '+metis' in spec: + options.extend([ + '-DTPL_ENABLE_METIS:BOOL=ON', + '-DMETIS_LIBRARY_DIRS=%s' % spec['metis'].prefix.lib, + '-DMETIS_LIBRARY_NAMES=metis', + '-DTPL_METIS_INCLUDE_DIRS=%s' % spec['metis'].prefix.include, + '-DTPL_ENABLE_ParMETIS:BOOL=ON', + '-DParMETIS_LIBRARY_DIRS=%s;%s' % (spec['parmetis'].prefix.lib,spec['metis'].prefix.lib), + '-DParMETIS_LIBRARY_NAMES=parmetis;metis', + '-DTPL_ParMETIS_INCLUDE_DIRS=%s' % spec['parmetis'].prefix.include + ]) + else: + options.extend([ + '-DTPL_ENABLE_METIS:BOOL=OFF', + '-DTPL_ENABLE_ParMETIS:BOOL=OFF', + ]) + + # mumps / scalapack + if '+mumps' in spec: + options.extend([ + '-DTPL_ENABLE_MUMPS:BOOL=ON', + '-DMUMPS_LIBRARY_DIRS=%s' % spec['mumps'].prefix.lib, + '-DMUMPS_LIBRARY_NAMES=dmumps;mumps_common;pord', # order is important! + '-DTPL_ENABLE_SCALAPACK:BOOL=ON', + '-DSCALAPACK_LIBRARY_NAMES=scalapack' # FIXME: for MKL it's mkl_scalapack_lp64;mkl_blacs_mpich_lp64 + ]) + # see https://github.com/trilinos/Trilinos/blob/master/packages/amesos/README-MUMPS + cxx_flags.extend([ + '-DMUMPS_5_0' + ]) + else: + options.extend([ + '-DTPL_ENABLE_MUMPS:BOOL=OFF', + '-DTPL_ENABLE_SCALAPACK:BOOL=OFF', + ]) + + # superlu-dist: + if '+superlu-dist' in spec: + # Amesos, conflicting types of double and complex SLU_D + # see https://trilinos.org/pipermail/trilinos-users/2015-March/004731.html + # and https://trilinos.org/pipermail/trilinos-users/2015-March/004802.html + options.extend([ + '-DTeuchos_ENABLE_COMPLEX:BOOL=OFF', + '-DKokkosTSQR_ENABLE_Complex:BOOL=OFF' + ]) + options.extend([ + '-DTPL_ENABLE_SuperLUDist:BOOL=ON', + '-DSuperLUDist_LIBRARY_DIRS=%s' % spec['superlu-dist'].prefix.lib, + '-DSuperLUDist_INCLUDE_DIRS=%s' % spec['superlu-dist'].prefix.include + ]) + if spec.satisfies('^superlu-dist@4.0:'): + options.extend([ + '-DHAVE_SUPERLUDIST_LUSTRUCTINIT_2ARG:BOOL=ON' + ]) + else: + options.extend([ + '-DTPL_ENABLE_SuperLUDist:BOOL=OFF', + ]) + + + # python + if '+python' in spec: + options.extend([ + '-DTrilinos_ENABLE_PyTrilinos:BOOL=ON' + ]) + else: + options.extend([ + '-DTrilinos_ENABLE_PyTrilinos:BOOL=OFF' + ]) + + # collect CXX flags: + options.extend([ + '-DCMAKE_CXX_FLAGS:STRING=%s' % (' '.join(cxx_flags)), + ]) + + # disable due to compiler / config errors: + options.extend([ + '-DTrilinos_ENABLE_SEACAS=OFF', + '-DTrilinos_ENABLE_Pike=OFF', + '-DTrilinos_ENABLE_STK=OFF' + ]) + if sys.platform == 'darwin': + options.extend([ + '-DTrilinos_ENABLE_FEI=OFF' + ]) + + + with working_dir('spack-build', create=True): + cmake('..', *options) + make() + make('install') + + # When trilinos is built with Python, libpytrilinos is included through + # cmake configure files. Namely, Trilinos_LIBRARIES in TrilinosConfig.cmake + # contains pytrilinos. This leads to a run-time error: + # Symbol not found: _PyBool_Type + # and prevents Trilinos to be used in any C++ code, which links executable + # against the libraries listed in Trilinos_LIBRARIES. + # See https://github.com/Homebrew/homebrew-science/issues/2148#issuecomment-103614509 + # A workaround it to remove PyTrilinos from the COMPONENTS_LIST : + if '+python' in self.spec: + filter_file(r'(SET\(COMPONENTS_LIST.*)(PyTrilinos;)(.*)', (r'\1\3'), '%s/cmake/Trilinos/TrilinosConfig.cmake' % prefix.lib) + + # The shared libraries are not installed correctly on Darwin; correct this + if (sys.platform == 'darwin') and ('+shared' in spec): + fix_darwin_install_name(prefix.lib) diff --git a/var/spack/repos/builtin/packages/trilinos/umfpack_from_suitesparse.patch b/var/spack/repos/builtin/packages/trilinos/umfpack_from_suitesparse.patch new file mode 100644 index 0000000000..9defc55527 --- /dev/null +++ b/var/spack/repos/builtin/packages/trilinos/umfpack_from_suitesparse.patch @@ -0,0 +1,12 @@ +diff --git a/cmake/TPLs/FindTPLUMFPACK.cmake b/cmake/TPLs/FindTPLUMFPACK.cmake +index 963eb71..998cd02 100644 +--- a/cmake/TPLs/FindTPLUMFPACK.cmake ++++ b/cmake/TPLs/FindTPLUMFPACK.cmake +@@ -55,6 +55,6 @@ + + + TRIBITS_TPL_FIND_INCLUDE_DIRS_AND_LIBRARIES( UMFPACK +- REQUIRED_HEADERS umfpack.h amd.h UFconfig.h ++ REQUIRED_HEADERS umfpack.h amd.h SuiteSparse_config.h + REQUIRED_LIBS_NAMES umfpack amd + ) diff --git a/var/spack/repos/builtin/packages/udunits2/package.py b/var/spack/repos/builtin/packages/udunits2/package.py new file mode 100644 index 0000000000..9954a733bb --- /dev/null +++ b/var/spack/repos/builtin/packages/udunits2/package.py @@ -0,0 +1,16 @@ +from spack import * + +class Udunits2(Package): + """Automated units conversion""" + + homepage = "http://www.unidata.ucar.edu/software/udunits" + url = "ftp://ftp.unidata.ucar.edu/pub/udunits/udunits-2.2.20.tar.gz" + + version('2.2.20', '1586b70a49dfe05da5fcc29ef239dce0') + + depends_on('expat') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix) + make() + make("install") diff --git a/var/spack/packages/uncrustify/package.py b/var/spack/repos/builtin/packages/uncrustify/package.py index d3f2d1b473..d3f2d1b473 100644 --- a/var/spack/packages/uncrustify/package.py +++ b/var/spack/repos/builtin/packages/uncrustify/package.py diff --git a/var/spack/packages/util-linux/package.py b/var/spack/repos/builtin/packages/util-linux/package.py index cb7ceabf57..cb7ceabf57 100644 --- a/var/spack/packages/util-linux/package.py +++ b/var/spack/repos/builtin/packages/util-linux/package.py diff --git a/var/spack/repos/builtin/packages/valgrind/package.py b/var/spack/repos/builtin/packages/valgrind/package.py new file mode 100644 index 0000000000..0b030d73e9 --- /dev/null +++ b/var/spack/repos/builtin/packages/valgrind/package.py @@ -0,0 +1,55 @@ +############################################################################## +# Copyright (c) 2013, Lawrence Livermore National Security, LLC. +# Produced at the Lawrence Livermore National Laboratory. +# +# This file is part of Spack. +# Written by Todd Gamblin, tgamblin@llnl.gov, All rights reserved. +# LLNL-CODE-647188 +# +# For details, see https://github.com/llnl/spack +# Please also see the LICENSE file for our notice and the LGPL. +# +# This program is free software; you can redistribute it and/or modify +# it under the terms of the GNU General Public License (as published by +# the Free Software Foundation) version 2.1 dated February 1999. +# +# This program is distributed in the hope that it will be useful, but +# WITHOUT ANY WARRANTY; without even the IMPLIED WARRANTY OF +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the terms and +# conditions of the GNU General Public License for more details. +# +# You should have received a copy of the GNU Lesser General Public License +# along with this program; if not, write to the Free Software Foundation, +# Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA +############################################################################## + +from spack import * + + +class Valgrind(Package): + """ + Valgrind is an instrumentation framework for building dynamic analysis tools. There are Valgrind tools that can + automatically detect many memory management and threading bugs, and profile your programs in detail. You can also + use Valgrind to build new tools. + + Valgrind is Open Source / Free Software, and is freely available under the GNU General Public License, version 2. + """ + homepage = "http://valgrind.org/" + url = "http://valgrind.org/downloads/valgrind-3.11.0.tar.bz2" + + version('3.11.0', '4ea62074da73ae82e0162d6550d3f129') + version('3.10.1', '60ddae962bc79e7c95cfc4667245707f') + version('3.10.0', '7c311a72a20388aceced1aa5573ce970') + + variant('mpi', default=True, description='Activates MPI support for valgrind') + variant('boost', default=True, description='Activates boost support for valgrind') + + depends_on('mpi', when='+mpi') + depends_on('boost', when='+boost') + + def install(self, spec, prefix): + options = ['--prefix=%s' % prefix, + '--enable-ubsan'] + configure(*options) + make() + make("install") diff --git a/var/spack/packages/vim/package.py b/var/spack/repos/builtin/packages/vim/package.py index 4099b3257f..4099b3257f 100644 --- a/var/spack/packages/vim/package.py +++ b/var/spack/repos/builtin/packages/vim/package.py diff --git a/var/spack/packages/vtk/package.py b/var/spack/repos/builtin/packages/vtk/package.py index 4a27a8fedb..24382af406 100644 --- a/var/spack/packages/vtk/package.py +++ b/var/spack/repos/builtin/packages/vtk/package.py @@ -7,11 +7,23 @@ class Vtk(Package): homepage = "http://www.vtk.org" url = "http://www.vtk.org/files/release/6.1/VTK-6.1.0.tar.gz" + version("7.0.0", "5fe35312db5fb2341139b8e4955c367d", url="http://www.vtk.org/files/release/7.0/VTK-7.0.0.tar.gz") + + version("6.3.0", '0231ca4840408e9dd60af48b314c5b6d', url="http://www.vtk.org/files/release/6.3/VTK-6.3.0.tar.gz") + version('6.1.0', '25e4dfb3bad778722dcaec80cd5dab7d') depends_on("qt") + # VTK7 defaults to OpenGL2 rendering backend + variant('opengl2', default=True, description='Build with OpenGL instead of OpenGL2 as rendering backend') + def install(self, spec, prefix): + def feature_to_bool(feature, on='ON', off='OFF'): + if feature in spec: + return on + return off + with working_dir('spack-build', create=True): cmake_args = [ "..", @@ -35,6 +47,12 @@ class Vtk(Package): if spec['qt'].satisfies('@5'): cmake_args.append("-DVTK_QT_VERSION:STRING=5") + if spec.satisfies("@6.1.0"): + cmake_args.append("-DCMAKE_C_FLAGS=-DGLX_GLXEXT_LEGACY") + cmake_args.append("-DCMAKE_CXX_FLAGS=-DGLX_GLXEXT_LEGACY") + + cmake_args.append('-DVTK_RENDERING_BACKEND:STRING=%s' % feature_to_bool('+opengl2', 'OpenGL2', 'OpenGL')) + cmake(*cmake_args) make() make("install") diff --git a/var/spack/packages/wget/package.py b/var/spack/repos/builtin/packages/wget/package.py index c8fd025122..55728b0515 100644 --- a/var/spack/packages/wget/package.py +++ b/var/spack/repos/builtin/packages/wget/package.py @@ -8,9 +8,10 @@ class Wget(Package): etc.""" homepage = "http://www.gnu.org/software/wget/" - url = "http://ftp.gnu.org/gnu/wget/wget-1.16.tar.xz" + url = "http://ftp.gnu.org/gnu/wget/wget-1.16.tar.gz" - version('1.16', 'fe102975ab3a6c049777883f1bb9ad07') + version('1.17', 'c4c4727766f24ac716936275014a0536') + version('1.16', '293a37977c41b5522f781d3a3a078426') depends_on("openssl") diff --git a/var/spack/packages/wx/package.py b/var/spack/repos/builtin/packages/wx/package.py index 1813a8c8a5..206fde7775 100644 --- a/var/spack/packages/wx/package.py +++ b/var/spack/repos/builtin/packages/wx/package.py @@ -16,6 +16,8 @@ class Wx(Package): version('3.0.1', 'dad1f1cd9d4c370cbc22700dc492da31', url="https://sourceforge.net/projects/wxwindows/files/3.0.1/wxWidgets-3.0.1.tar.bz2") + depends_on('gtkplus') + def install(self, spec, prefix): configure("--prefix=%s" % prefix, "--enable-unicode", "--disable-precomp-headers") diff --git a/var/spack/packages/wxpropgrid/package.py b/var/spack/repos/builtin/packages/wxpropgrid/package.py index 790cead517..790cead517 100644 --- a/var/spack/packages/wxpropgrid/package.py +++ b/var/spack/repos/builtin/packages/wxpropgrid/package.py diff --git a/var/spack/packages/xcb-proto/package.py b/var/spack/repos/builtin/packages/xcb-proto/package.py index 17a94bd892..17a94bd892 100644 --- a/var/spack/packages/xcb-proto/package.py +++ b/var/spack/repos/builtin/packages/xcb-proto/package.py diff --git a/var/spack/repos/builtin/packages/xerces-c/package.py b/var/spack/repos/builtin/packages/xerces-c/package.py new file mode 100644 index 0000000000..b59ab178ae --- /dev/null +++ b/var/spack/repos/builtin/packages/xerces-c/package.py @@ -0,0 +1,36 @@ +# FIXME: +# This is a template package file for Spack. We've conveniently +# put "FIXME" labels next to all the things you'll want to change. +# +# Once you've edited all the FIXME's, delete this whole message, +# save this file, and test out your package like this: +# +# spack install xerces-c +# +# You can always get back here to change things with: +# +# spack edit xerces-c +# +# See the spack documentation for more information on building +# packages. +# +from spack import * + +class XercesC(Package): + """ Xerces-C++ is a validating XML parser written in a portable subset of C++. + Xerces-C++ makes it easy to give your application the ability to read and + write XML data. A shared library is provided for parsing, generating, + manipulating, and validating XML documents using the DOM, SAX, and SAX2 APIs. + """ + + homepage = "https://xerces.apache.org/xerces-c" + url = "https://www.apache.org/dist/xerces/c/3/sources/xerces-c-3.1.2.tar.gz" + version('3.1.2', '9eb1048939e88d6a7232c67569b23985') + + def install(self, spec, prefix): + configure("--prefix=%s" % prefix, + "--disable-network") + make("clean") + make() + make("install") + diff --git a/var/spack/packages/xz/package.py b/var/spack/repos/builtin/packages/xz/package.py index ba6c9733a7..fdcac95345 100644 --- a/var/spack/packages/xz/package.py +++ b/var/spack/repos/builtin/packages/xz/package.py @@ -8,11 +8,9 @@ class Xz(Package): homepage = "http://tukaani.org/xz/" url = "http://tukaani.org/xz/xz-5.2.0.tar.bz2" - version('5.2.0', '867cc8611760240ebf3440bd6e170bb9', - url = 'http://tukaani.org/xz/xz-5.2.0.tar.bz2') - version('5.2.2', 'f90c9a0c8b259aee2234c4e0d7fd70af', - url = 'http://tukaani.org/xz/xz-5.2.2.tar.bz2') - + version('5.2.0', '867cc8611760240ebf3440bd6e170bb9') + version('5.2.2', 'f90c9a0c8b259aee2234c4e0d7fd70af') + def install(self, spec, prefix): configure("--prefix=%s" % prefix) make() diff --git a/var/spack/packages/yasm/package.py b/var/spack/repos/builtin/packages/yasm/package.py index d3a695b16d..d3a695b16d 100644 --- a/var/spack/packages/yasm/package.py +++ b/var/spack/repos/builtin/packages/yasm/package.py diff --git a/var/spack/packages/zeromq/package.py b/var/spack/repos/builtin/packages/zeromq/package.py index b5a1e3d4cd..b5a1e3d4cd 100644 --- a/var/spack/packages/zeromq/package.py +++ b/var/spack/repos/builtin/packages/zeromq/package.py diff --git a/var/spack/repos/builtin/packages/zfp/package.py b/var/spack/repos/builtin/packages/zfp/package.py new file mode 100644 index 0000000000..620fe9d456 --- /dev/null +++ b/var/spack/repos/builtin/packages/zfp/package.py @@ -0,0 +1,26 @@ +from spack import * + +class Zfp(Package): + """zfp is an open source C library for compressed floating-point arrays that supports + very high throughput read and write random acces, target error bounds or bit rates. + Although bit-for-bit lossless compression is not always possible, zfp is usually + accurate to within machine epsilon in near-lossless mode, and is often orders of + magnitude more accurate than other lossy compressors. + """ + + homepage = "http://computation.llnl.gov/projects/floating-point-compression" + url = "http://computation.llnl.gov/projects/floating-point-compression/download/zfp-0.5.0.tar.gz" + + version('0.5.0', '2ab29a852e65ad85aae38925c5003654') + + def install(self, spec, prefix): + make("shared") + + # No install provided + mkdirp(prefix.lib) + mkdirp(prefix.include) + install('lib/libzfp.so', prefix.lib) + install('inc/zfp.h', prefix.include) + install('inc/types.h', prefix.include) + install('inc/bitstream.h', prefix.include) + install('inc/system.h', prefix.include) diff --git a/var/spack/packages/zlib/package.py b/var/spack/repos/builtin/packages/zlib/package.py index 2770f781ac..2770f781ac 100644 --- a/var/spack/packages/zlib/package.py +++ b/var/spack/repos/builtin/packages/zlib/package.py diff --git a/var/spack/repos/builtin/packages/zoltan/package.py b/var/spack/repos/builtin/packages/zoltan/package.py new file mode 100644 index 0000000000..e20ae81adb --- /dev/null +++ b/var/spack/repos/builtin/packages/zoltan/package.py @@ -0,0 +1,54 @@ +from spack import * + +class Zoltan(Package): + """The Zoltan library is a toolkit of parallel combinatorial algorithms for + parallel, unstructured, and/or adaptive scientific applications. Zoltan's + largest component is a suite of dynamic load-balancing and paritioning + algorithms that increase applications' parallel performance by reducing + idle time. Zoltan also has graph coloring and graph ordering algorithms, + which are useful in task schedulers and parallel preconditioners.""" + + homepage = "http://www.cs.sandia.gov/zoltan" + base_url = "http://www.cs.sandia.gov/~kddevin/Zoltan_Distributions" + + version('3.83', '1ff1bc93f91e12f2c533ddb01f2c095f') + version('3.3', '5eb8f00bda634b25ceefa0122bd18d65') + + variant('fortran', default=True, description='Enable Fortran support') + variant('mpi', default=False, description='Enable MPI support') + + depends_on('mpi', when='+mpi') + + def install(self, spec, prefix): + config_args = [ + '--enable-f90interface' if '+fortan' in spec else '--disable-f90interface', + '--enable-mpi' if '+mpi' in spec else '--disable-mpi', + ] + + if '+mpi' in spec: + config_args.append('--with-mpi=%s' % spec['mpi'].prefix) + config_args.append('--with-mpi-compilers=%s' % spec['mpi'].prefix.bin) + config_args.append('CC=%s/mpicc' % spec['mpi'].prefix.bin) + config_args.append('CXX=%s/mpicxx' % spec['mpi'].prefix.bin) + + # NOTE: Early versions of Zoltan come packaged with a few embedded + # library packages (e.g. ParMETIS, Scotch), which messes with Spack's + # ability to descend directly into the package's source directory. + if spec.satisfies('@:3.3'): + cd('Zoltan_v%s' % self.version) + + mkdirp('build') + cd('build') + + config_zoltan = Executable('../configure') + config_zoltan('--prefix=%s' % pwd(), *config_args) + + make() + make('install') + + mkdirp(prefix) + move('include', prefix) + move('lib', prefix) + + def url_for_version(self, version): + return '%s/zoltan_distrib_v%s.tar.gz' % (Zoltan.base_url, version) diff --git a/var/spack/packages/zsh/package.py b/var/spack/repos/builtin/packages/zsh/package.py index 06665f0c83..06665f0c83 100644 --- a/var/spack/packages/zsh/package.py +++ b/var/spack/repos/builtin/packages/zsh/package.py diff --git a/var/spack/repos/builtin/repo.yaml b/var/spack/repos/builtin/repo.yaml new file mode 100644 index 0000000000..54b282db6b --- /dev/null +++ b/var/spack/repos/builtin/repo.yaml @@ -0,0 +1,2 @@ +repo: + namespace: builtin |