diff options
Diffstat (limited to 'academic')
| -rw-r--r-- | academic/suitesparse/README | 10 | ||||
| -rw-r--r-- | academic/suitesparse/UFconfig.mk | 354 | ||||
| -rw-r--r-- | academic/suitesparse/suitesparse.SlackBuild | 70 | ||||
| -rw-r--r-- | academic/suitesparse/suitesparse.info | 12 |
4 files changed, 59 insertions, 387 deletions
diff --git a/academic/suitesparse/README b/academic/suitesparse/README index 376e0e0c99..d4f385acca 100644 --- a/academic/suitesparse/README +++ b/academic/suitesparse/README @@ -20,8 +20,14 @@ Suitesparse is an optional dependency for the octave package. NOTES: -* CHOLMOD can also be compiled to use the METIS library, but it is not -used here because its licensing terms exclude it from Octave. +* CHOLMOD is now compiled to use the METIS library. It was not +used previously because the licensing terms of earlier METIS +versions excluded it from Octave in some circumstances. Recent +versions of METIS now use the Apache License Version 2.0 and +should cause no problems. However if it is still desired to +build CHOLMOD without METIS, set the USEMETIS environment +variable to "no" when running the SlackBuild e.g. + USEMETIS=no sh suitesparse.SlackBuild * CXSparse is a superset of CSparse, and the two share common header names, so it does not make sense to build both. CXSparse is built diff --git a/academic/suitesparse/UFconfig.mk b/academic/suitesparse/UFconfig.mk deleted file mode 100644 index fba2a1c875..0000000000 --- a/academic/suitesparse/UFconfig.mk +++ /dev/null @@ -1,354 +0,0 @@ -#=============================================================================== -# UFconfig.mk: common configuration file for the SuiteSparse -#=============================================================================== - -# This file contains all configuration settings for all packages authored or -# co-authored by Tim Davis at the University of Florida: -# -# Package Version Description -# ------- ------- ----------- -# AMD 1.2 or later approximate minimum degree ordering -# COLAMD 2.4 or later column approximate minimum degree ordering -# CCOLAMD 1.0 or later constrained column approximate minimum degree ordering -# CAMD any constrained approximate minimum degree ordering -# UMFPACK 4.5 or later sparse LU factorization, with the BLAS -# CHOLMOD any sparse Cholesky factorization, update/downdate -# KLU 0.8 or later sparse LU factorization, BLAS-free -# BTF 0.8 or later permutation to block triangular form -# LDL 1.2 or later concise sparse LDL' -# LPDASA any linear program solve (dual active set algorithm) -# CXSparse any extended version of CSparse (int/long, real/complex) -# SuiteSparseQR any sparse QR factorization -# -# The UFconfig directory and the above packages should all appear in a single -# directory, in order for the Makefile's within each package to find this file. -# -# To enable an option of the form "# OPTION = ...", edit this file and -# delete the "#" in the first column of the option you wish to use. - -#------------------------------------------------------------------------------ -# Generic configuration -#------------------------------------------------------------------------------ - -# C compiler and compiler flags: These will normally not give you optimal -# performance. You should select the optimization parameters that are best -# for your system. On Linux, use "CFLAGS = -O3 -fexceptions" for example. -CC = cc -# CFLAGS = -O (for example; see below for details) - -# C++ compiler (also uses CFLAGS) -CPLUSPLUS = g++ - -# ranlib, and ar, for generating libraries -RANLIB = ranlib -AR = ar cr - -# delete and rename a file -RM = rm -f -MV = mv -f - -# Fortran compiler (not normally required) -F77 = gfortran -F77FLAGS = -O -F77LIB = - -# C and Fortran libraries -LIB = -lm - -# For compiling MATLAB mexFunctions (MATLAB 7.5 or later) -MEX = mex -O -largeArrayDims -lmwlapack -lmwblas - -# For compiling MATLAB mexFunctions (MATLAB 7.3 and 7.4) -# MEX = mex -O -largeArrayDims -lmwlapack - -# For MATLAB 7.2 or earlier, you must use one of these options: -# MEX = mex -O -lmwlapack -# MEX = mex -O - -# Which version of MAKE you are using (default is "make") -# MAKE = make -# MAKE = gmake - -#------------------------------------------------------------------------------ -# BLAS and LAPACK configuration: -#------------------------------------------------------------------------------ - -# UMFPACK and CHOLMOD both require the BLAS. CHOLMOD also requires LAPACK. -# See Kazushige Goto's BLAS at http://www.cs.utexas.edu/users/flame/goto/ or -# http://www.tacc.utexas.edu/~kgoto/ for the best BLAS to use with CHOLMOD. -# LAPACK is at http://www.netlib.org/lapack/ . You can use the standard -# Fortran LAPACK along with Goto's BLAS to obtain very good performance. -# CHOLMOD gets a peak numeric factorization rate of 3.6 Gflops on a 3.2 GHz -# Pentium 4 (512K cache, 4GB main memory) with the Goto BLAS, and 6 Gflops -# on a 2.5Ghz dual-core AMD Opteron. - -# These settings will probably not work, since there is no fixed convention for -# naming the BLAS and LAPACK library (*.a or *.so) files. - -# Using the Goto BLAS: -# BLAS = -lgoto -lgfortran -lgfortranbegin -lg2c - -# This is probably slow ... it might connect to the Standard Reference BLAS: -BLAS = -lblas -lgfortran -lgfortranbegin -LAPACK = -llapack - -# Using non-optimized versions: -# BLAS = -lblas_plain -lgfortran -lgfortranbegin -lg2c -# LAPACK = -llapack_plain - -# The BLAS might not contain xerbla, an error-handling routine for LAPACK and -# the BLAS. Also, the standard xerbla requires the Fortran I/O library, and -# stops the application program if an error occurs. A C version of xerbla -# distributed with this software (UFconfig/xerbla/libcerbla.a) includes a -# Fortran-callable xerbla routine that prints nothing and does not stop the -# application program. This is optional. -# XERBLA = ../../UFconfig/xerbla/libcerbla.a - -# If you wish to use the XERBLA in LAPACK and/or the BLAS instead, -# use this option: -XERBLA = - -# If you wish to use the Fortran UFconfig/xerbla/xerbla.f instead, use this: -# XERBLA = ../../UFconfig/xerbla/libxerbla.a - -#------------------------------------------------------------------------------ -# METIS, optionally used by CHOLMOD -#------------------------------------------------------------------------------ - -# If you do not have METIS, or do not wish to use it in CHOLMOD, you must -# compile CHOLMOD with the -DNPARTITION flag. You must also use the -# "METIS =" option, below. - -# The path is relative to where it is used, in CHOLMOD/Lib, CHOLMOD/MATLAB, etc. -# You may wish to use an absolute path. METIS is optional. Compile -# CHOLMOD with -DNPARTITION if you do not wish to use METIS. -#METIS_PATH = ../../metis-4.0 -#METIS = ../../metis-4.0/libmetis.a - -# If you use CHOLMOD_CONFIG = -DNPARTITION then you must use the following -# options: -METIS_PATH = -METIS = - -#------------------------------------------------------------------------------ -# UMFPACK configuration: -#------------------------------------------------------------------------------ - -# Configuration flags for UMFPACK. See UMFPACK/Source/umf_config.h for details. -# -# -DNBLAS do not use the BLAS. UMFPACK will be very slow. -# -D'LONGBLAS=long' or -DLONGBLAS='long long' defines the integers used by -# LAPACK and the BLAS (defaults to 'int') -# -DNSUNPERF do not use the Sun Perf. Library (default is use it on Solaris) -# -DNPOSIX do not use POSIX routines sysconf and times. -# -DGETRUSAGE use getrusage -# -DNO_TIMER do not use any timing routines -# -DNRECIPROCAL do not multiply by the reciprocal -# -DNO_DIVIDE_BY_ZERO do not divide by zero - -UMFPACK_CONFIG = - -#------------------------------------------------------------------------------ -# CHOLMOD configuration -#------------------------------------------------------------------------------ - -# CHOLMOD Library Modules, which appear in libcholmod.a: -# Core requires: none -# Check requires: Core -# Cholesky requires: Core, AMD, COLAMD. optional: Partition, Supernodal -# MatrixOps requires: Core -# Modify requires: Core -# Partition requires: Core, CCOLAMD, METIS. optional: Cholesky -# Supernodal requires: Core, BLAS, LAPACK -# -# CHOLMOD test/demo Modules (all are GNU GPL, do not appear in libcholmod.a): -# Tcov requires: Core, Check, Cholesky, MatrixOps, Modify, Supernodal -# optional: Partition -# Valgrind same as Tcov -# Demo requires: Core, Check, Cholesky, MatrixOps, Supernodal -# optional: Partition -# -# Configuration flags: -# -DNCHECK do not include the Check module. License GNU LGPL -# -DNCHOLESKY do not include the Cholesky module. License GNU LGPL -# -DNPARTITION do not include the Partition module. License GNU LGPL -# also do not include METIS. -# -DNGPL do not include any GNU GPL Modules in the CHOLMOD library: -# -DNMATRIXOPS do not include the MatrixOps module. License GNU GPL -# -DNMODIFY do not include the Modify module. License GNU GPL -# -DNSUPERNODAL do not include the Supernodal module. License GNU GPL -# -# -DNPRINT do not print anything. -# -D'LONGBLAS=long' or -DLONGBLAS='long long' defines the integers used by -# LAPACK and the BLAS (defaults to 'int') -# -DNSUNPERF for Solaris only. If defined, do not use the Sun -# Performance Library - -CHOLMOD_CONFIG = -DNPARTITION - -#------------------------------------------------------------------------------ -# SuiteSparseQR configuration: -#------------------------------------------------------------------------------ - -# The SuiteSparseQR library can be compiled with the following options: -# -# -DNPARTITION do not include the CHOLMOD partition module -# -DNEXPERT do not include the functions in SuiteSparseQR_expert.cpp -# -DTIMING enable timing and flop counts -# -DHAVE_TBB enable the use of Intel's Threading Building Blocks (TBB) - -# default, without timing, without TBB: -SPQR_CONFIG = -DNPARTITION -# with timing and TBB: -# SPQR_CONFIG = -DTIMING -DHAVE_TBB -# with timing -# SPQR_CONFIG = -DTIMING - -# with TBB, you must select this: -# TBB = -ltbb -# without TBB: -TBB = - -# with timing, you must include the timing library: -# RTLIB = -lrt -# without timing -RTLIB = - -#------------------------------------------------------------------------------ -# Linux -#------------------------------------------------------------------------------ - -# Using default compilers: -# CC = gcc -CFLAGS = -O3 -fexceptions - -# alternatives: -# CFLAGS = -g -fexceptions \ - -Wall -W -Wshadow -Wmissing-prototypes -Wstrict-prototypes \ - -Wredundant-decls -Wnested-externs -Wdisabled-optimization -ansi -# CFLAGS = -O3 -fexceptions \ - -Wall -W -Werror -Wshadow -Wmissing-prototypes -Wstrict-prototypes \ - -Wredundant-decls -Wnested-externs -Wdisabled-optimization -ansi -# CFLAGS = -O3 -fexceptions -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE -# CFLAGS = -O3 -# CFLAGS = -O3 -g -fexceptions -# CFLAGS = -g -fexceptions \ - -Wall -W -Wshadow \ - -Wredundant-decls -Wdisabled-optimization -ansi - -# consider: -# -fforce-addr -fmove-all-movables -freduce-all-givs -ftsp-ordering -# -frename-registers -ffast-math -funroll-loops - -# Using the Goto BLAS: -# BLAS = -lgoto -lfrtbegin -lg2c $(XERBLA) -lpthread - -# Using Intel's icc and ifort compilers: -# (does not work for mexFunctions unless you add a mexopts.sh file) -# F77 = ifort -# CC = icc -# CFLAGS = -O3 -xN -vec_report=0 -# CFLAGS = -g -# old (broken): CFLAGS = -ansi -O3 -ip -tpp7 -xW -vec_report0 - -# 64bit: -# F77FLAGS = -O -m64 -# CFLAGS = -O3 -fexceptions -m64 -# BLAS = -lgoto64 -lfrtbegin -lg2c -lpthread $(XERBLA) -# LAPACK = -llapack64 - - -# SUSE Linux 10.1, AMD Opteron, with GOTO Blas -# F77 = gfortran -# BLAS = -lgoto_opteron64 -lgfortran - -# SUSE Linux 10.1, Intel Pentium, with GOTO Blas -# F77 = gfortran -# BLAS = -lgoto -lgfortran - -#------------------------------------------------------------------------------ -# Solaris -#------------------------------------------------------------------------------ - -# 32-bit -# CFLAGS = -KPIC -dalign -xc99=%none -Xc -xlibmieee -xO5 -xlibmil -m32 - -# 64-bit -# CFLAGS = -fast -KPIC -xc99=%none -xlibmieee -xlibmil -m64 -Xc - -# FFLAGS = -fast -KPIC -dalign -xlibmil -m64 - -# The Sun Performance Library includes both LAPACK and the BLAS: -# BLAS = -xlic_lib=sunperf -# LAPACK = - - -#------------------------------------------------------------------------------ -# Compaq Alpha -#------------------------------------------------------------------------------ - -# 64-bit mode only -# CFLAGS = -O2 -std1 -# BLAS = -ldxml -# LAPACK = - -#------------------------------------------------------------------------------ -# Macintosh -#------------------------------------------------------------------------------ - -# CC = gcc -# CFLAGS = -O3 -fno-common -no-cpp-precomp -fexceptions -# LIB = -lstdc++ -# BLAS = -framework Accelerate -# LAPACK = -framework Accelerate - -#------------------------------------------------------------------------------ -# IBM RS 6000 -#------------------------------------------------------------------------------ - -# BLAS = -lessl -# LAPACK = - -# 32-bit mode: -# CFLAGS = -O4 -qipa -qmaxmem=16384 -qproto -# F77FLAGS = -O4 -qipa -qmaxmem=16384 - -# 64-bit mode: -# CFLAGS = -O4 -qipa -qmaxmem=16384 -q64 -qproto -# F77FLAGS = -O4 -qipa -qmaxmem=16384 -q64 -# AR = ar -X64 - -#------------------------------------------------------------------------------ -# SGI IRIX -#------------------------------------------------------------------------------ - -# BLAS = -lscsl -# LAPACK = - -# 32-bit mode -# CFLAGS = -O - -# 64-bit mode (32 bit int's and 64-bit long's): -# CFLAGS = -64 -# F77FLAGS = -64 - -# SGI doesn't have ranlib -# RANLIB = echo - -#------------------------------------------------------------------------------ -# AMD Opteron (64 bit) -#------------------------------------------------------------------------------ - -# BLAS = -lgoto_opteron64 -lg2c -# LAPACK = -llapack_opteron64 - -# SUSE Linux 10.1, AMD Opteron -# F77 = gfortran -# BLAS = -lgoto_opteron64 -lgfortran -# LAPACK = -llapack_opteron64 - -#------------------------------------------------------------------------------ -# remove object files and profile output -#------------------------------------------------------------------------------ - -CLEAN = *.o *.obj *.ln *.bb *.bbg *.da *.tcov *.gcov gmon.out *.bak *.d *.gcda *.gcno diff --git a/academic/suitesparse/suitesparse.SlackBuild b/academic/suitesparse/suitesparse.SlackBuild index dacae9e709..372a0be953 100644 --- a/academic/suitesparse/suitesparse.SlackBuild +++ b/academic/suitesparse/suitesparse.SlackBuild @@ -2,17 +2,38 @@ # Slackware build script for suitesparse -# Written by Pablo Santamaria (pablosantamaria@gmail.com) +# Copyright 2017 Christoph Willing, Brisbane Australia +# All rights reserved. +# Thanks to Pablo Santamaria for previous versions +# +# Redistribution and use of this script, with or without modification, is +# permitted provided that the following conditions are met: +# +# 1. Redistributions of this script must retain the above copyright +# notice, this list of conditions and the following disclaimer. +# +# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED +# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF +# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO +# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, +# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, +# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; +# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, +# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR +# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF +# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. PRGNAM=suitesparse -VERSION=${VERSION:-4.2.1} +SRCNAM=SuiteSparse +VERSION=${VERSION:-4.5.4} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} if [ -z "$ARCH" ]; then case "$( uname -m )" in - i?86) ARCH=i486 ;; + i?86) ARCH=i586 ;; arm*) ARCH=arm ;; + # Unless $ARCH is already set, use uname -m for all other archs: *) ARCH=$( uname -m ) ;; esac fi @@ -22,8 +43,8 @@ TMP=${TMP:-/tmp/SBo} PKG=$TMP/package-$PRGNAM OUTPUT=${OUTPUT:-/tmp} -if [ "$ARCH" = "i486" ]; then - SLKCFLAGS="-O2 -march=i486 -mtune=i686" +if [ "$ARCH" = "i586" ]; then + SLKCFLAGS="-O2 -march=i586 -mtune=i686" LIBDIRSUFFIX="" elif [ "$ARCH" = "i686" ]; then SLKCFLAGS="-O2 -march=i686 -mtune=i686" @@ -36,39 +57,38 @@ else LIBDIRSUFFIX="" fi +metis="" ; [ "${USEMETIS:-yes}" != "yes" ] && metis="CHOLMOD_CONFIG=-DNPARTITION" + set -e rm -rf $PKG mkdir -p $TMP $PKG $OUTPUT cd $TMP -rm -rf SuiteSparse -tar xvf $CWD/SuiteSparse-$VERSION.tar.gz - -cd SuiteSparse +rm -rf $SRCNAM +tar xvf $CWD/$SRCNAM-$VERSION.tar.gz +cd $SRCNAM chown -R root:root . find -L . \ \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ -o -perm 511 \) -exec chmod 755 {} \; -o \ \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ - -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; - -for lib in SuiteSparse_config AMD CAMD COLAMD BTF KLU LDL CCOLAMD UMFPACK CHOLMOD CXSparse SPQR RBio; do - make -C $lib library CFLAGS="$SLKCFLAGS -DNPARTITION" -done + -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; -mkdir -p $PKG/usr/lib$LIBDIRSUFFIX mkdir -p $PKG/usr/include/suitesparse -for lib in SuiteSparse_config AMD CAMD COLAMD BTF KLU LDL CCOLAMD UMFPACK CHOLMOD CXSparse SPQR RBio; do - make -C $lib INSTALL_LIB="$PKG/usr/lib$LIBDIRSUFFIX" INSTALL_INCLUDE="$PKG/usr/include/suitesparse" install -done - +mkdir -p $PKG/usr/lib$LIBDIRSUFFIX mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION -cp -a README.txt $PKG/usr/doc/$PRGNAM-$VERSION -for lib in AMD CAMD COLAMD BTF KLU LDL CCOLAMD UMFPACK CHOLMOD CXSparse SPQR RBio; do - mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION/$lib - cp -a $lib/Doc/README* $lib/Doc/*.pdf $lib/Doc/ChangeLog $lib/Doc/License* \ - $PKG/usr/doc/$PRGNAM-$VERSION/$lib || true -done + +make install \ + MY_METIS_INC=/usr/include/metis MY_METIS_LIB=/usr/lib$LIBDIRSUFFIX/libmetis.so BLAS=-lblas \ + $metis \ + INSTALL_INCLUDE=$PKG/usr/include/suitesparse INSTALL_LIB=$PKG/usr/lib$LIBDIRSUFFIX \ + INSTALL_DOC=$PKG/usr/doc/$PRGNAM-$VERSION +chrpath --replace /usr/lib$LIBDIRSUFFIX $PKG/usr/lib$LIBDIRSUFFIX/* + +find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \ + | cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true + +cp -a LICENSE.txt $PKG/usr/doc/$PRGNAM-$VERSION cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild mkdir -p $PKG/install diff --git a/academic/suitesparse/suitesparse.info b/academic/suitesparse/suitesparse.info index e78da251b0..11400a0d5c 100644 --- a/academic/suitesparse/suitesparse.info +++ b/academic/suitesparse/suitesparse.info @@ -1,10 +1,10 @@ PRGNAM="suitesparse" -VERSION="4.2.1" +VERSION="4.5.4" HOMEPAGE="http://faculty.cse.tamu.edu/davis/suitesparse.html" -DOWNLOAD="http://pkgs.fedoraproject.org/repo/pkgs/suitesparse/SuiteSparse-4.2.1.tar.gz/4628df9eeae10ae5f0c486f1ac982fce/SuiteSparse-4.2.1.tar.gz" -MD5SUM="4628df9eeae10ae5f0c486f1ac982fce" +DOWNLOAD="http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-4.5.4.tar.gz" +MD5SUM="f6ab689442e64a1624a47aa220072d1b" DOWNLOAD_x86_64="" MD5SUM_x86_64="" -REQUIRES="lapack" -MAINTAINER="Pablo Santamaria" -EMAIL="pablosantamaria@gmail.com" +REQUIRES="lapack metis chrpath" +MAINTAINER="Christoph Willing" +EMAIL="chris.willing@linux.com" |