Update of /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci
In directory vz-cvs-3.sog:/tmp/cvs-serv11685/10.4/unstable/main/finkinfo/sci
Modified Files:
suitesparse.info
Added Files:
metis.info suitesparse-metis.info suitesparse-metis.patch
Log Message:
Didn't want to wait for scipy to be updated to handle the new suitesparse,
and I added METIS functionality, which was disabled in the prior packaging,
in any case.
Add package for metis, too.
Index: suitesparse.info
===================================================================
RCS file: /cvsroot/fink/dists/10.4/unstable/main/finkinfo/sci/suitesparse.info,v
retrieving revision 1.3
retrieving revision 1.4
diff -u -d -r1.3 -r1.4
--- suitesparse.info 27 Jan 2009 07:41:24 -0000 1.3
+++ suitesparse.info 29 Aug 2011 21:07:41 -0000 1.4
@@ -1,10 +1,12 @@
Package: suitesparse
Version: 3.1.0
-Revision: 1
+Revision: 2
Source:
http://www.cise.ufl.edu/research/sparse/SuiteSparse/SuiteSparse-%v.tar.gz
Source-MD5: 58d90444feef92fc7c265cbd11a757c6
SourceDirectory: SuiteSparse
BuildDepends: fink (>= 0.24.12)
+Conflicts: %n-metis
+Replaces: %n-metis
PatchFile: %n.patch
PatchFile-MD5: 1eb2eb73cb1abef598fb7bb51a8a26b3
PatchScript: <<
--- NEW FILE: suitesparse-metis.info ---
Package: suitesparse-metis
Version: 3.6.1
Revision: 1
Source:
http://www.cise.ufl.edu/research/sparse/SuiteSparse/SuiteSparse-%v.tar.gz
Source-MD5: 88a44890e8f61cdbb844a76b7259d876
SourceDirectory: SuiteSparse
BuildDepends: fink (>= 0.24.12)
BuildConflicts: coreutils-default
Conflicts: suitesparse
Replaces: suitesparse
Depends: metis
PatchFile: suitesparse-%v.patch
PatchFile-MD5: 86e123887db5bcc19880b49fe4ffe2e6
PatchScript: <<
#!/bin/sh -ev
sed -e 's,@METISPREFIX@,%p,g' %{PatchFile} | patch -p1
sed -i.bak -e 's,^CFLAGS = -O,&3 -fstrict-aliasing,'
C{,X}Sparse/Lib/Makefile
sed -i -e 's,I$(METIS_PATH)/Lib,I$(METIS_PATH)/include,'
CHOLMOD/Lib/Makefile
for file in `find .`
do
if [ -f $file ]
then
sed -i -e 's|-no-cpp-precomp||g' $file
fi
done
<<
# avoid race condidtion
UseMaxBuildJobs: false
CompileScript: <<
#! /bin/sh -ev
# Compile SuiteSparse with METIS.
export CHOLMOD_CONFIG=''
echo **** Start: Message from SuiteSparse CompileScript ****
echo CHOLMOD_CONFIG = $CHOLMOD_CONFIG
echo **** Stop: Message from SuiteSparse CompileScript ****
make default
<<
InstallScript: <<
#! /bin/sh -ev
install -d %i/lib
find . -name 'lib*.a' -exec install -m 644 \{\} %i/lib \;
rm %i/lib/libcsparse.a
ranlib %i/lib/lib*.a
install -d %i/include/suitesparse
install -p -m 644 \
`find . -name '*.h'|egrep -v
'^\./(CSparse/|CXSparse_n|UMFPACK/Source/)|/(MATLAB|Demo|Tcov)/|_(internal|version)\.h$'`
\
%i/include/suitesparse
for f in `ls -1 {,*/,CHOLMOD/*/}*.txt|egrep -v '_newfiles|MATLAB'|sed -e
's,^,./,' -e 's,/[^/]*$,,'|sort -u`
do install -d %i/share/doc/suitesparse/$f; install -p -m 644 $f/*.txt
%i/share/doc/suitesparse/$f; done
for f in `ls -1d */Doc|fgrep -v _newfiles|sed -e 's,/[^/]*$,,'`
do install -d %i/share/doc/suitesparse/$f; install -p -m 644 $f/Doc/*
%i/share/doc/suitesparse/$f; done
cd %i/share/doc/suitesparse
# replace duplicates by symlinks
for n in lesser gpl; do
l=`ls -1 {,*/}*/$n.txt`
target=`tail -n1<<<"$l"`
list=`sed -e '$d'<<<"$l"`
for f in $list; do g=`sed -e 's,[^/]\+,..,g' -e 's,\.\.$,,' <<<"$f"`;
ln -fs $g$target $f; done
done
# clean up
find . \( -name Makefile \
-o -name '*.bib' -o -name '*.tex' -o -name '*.stex' -o -name '*.sed*'
-o -name '*.awk' -o -name '*diff' -o -name '*proto' \
\) -exec rm \{\} \;
cd -
<<
Description: Suite of Sparse matrix packages
DescUsage: <<
This version of SuiteSparse uses the METIS libraries. Packages that link
against libcholmod.a from this one will also need to use -lmetis.
<<
License: GPL/LGPL
Maintainer: Alexander Hansen <[email protected]>
Homepage: http://www.cise.ufl.edu/research/sparse/SuiteSparse/
--- NEW FILE: suitesparse-metis.patch ---
diff -urN -x .DS_Store originals/SuiteSparse/KLU/Include/klu_internal.h
SuiteSparse/KLU/Include/klu_internal.h
--- originals/SuiteSparse/KLU/Include/klu_internal.h 2007-05-04
17:00:06.000000000 -0400
+++ SuiteSparse/KLU/Include/klu_internal.h 2008-03-22 20:19:59.000000000
-0400
@@ -9,7 +9,7 @@
#include "klu.h"
#include "btf.h"
-#include "klu_version.h"
+/*#include "klu_version.h"*/
/* ==========================================================================
*/
/* make sure debugging and printing is turned off */
@@ -36,6 +36,8 @@
#include <limits.h>
#include <stdlib.h>
#include <math.h>
+/* moved klu_version.h after math.h to circumvent compile error on ppc */
+#include "klu_version.h"
#undef ASSERT
#ifndef NDEBUG
diff -Nurd SuiteSparse/UFconfig/UFconfig.mk
SuiteSparse.patched//UFconfig/UFconfig.mk
--- SuiteSparse/UFconfig/UFconfig.mk 2011-05-10 16:47:15.000000000 -0400
+++ SuiteSparse.patched//UFconfig/UFconfig.mk 2011-08-24 15:14:47.000000000
-0400
@@ -33,8 +33,8 @@
# 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 = -O3 -fexceptions
+#CC = cc
+#CFLAGS = -O3 -fexceptions
# C++ compiler (also uses CFLAGS)
CPLUSPLUS = g++
@@ -54,7 +54,7 @@
F77LIB =
# C and Fortran libraries
-LIB = -lm
+#LIB = -lm
# For compiling MATLAB mexFunctions (MATLAB 7.5 or later)
MEX = mex -O -largeArrayDims -lmwlapack -lmwblas
@@ -91,8 +91,8 @@
# naming the BLAS and LAPACK library (*.a or *.so) files.
# This is probably slow ... it might connect to the Standard Reference BLAS:
-BLAS = -lblas -lgfortran
-LAPACK = -llapack
+#BLAS = -lblas -lgfortran
+#LAPACK = -llapack
# NOTE: this next option for the "Goto BLAS" has nothing to do with a "goto"
# statement. Rather, the Goto BLAS is written by Dr. Kazushige Goto.
@@ -132,13 +132,13 @@
# 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
+#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 =
+METIS_PATH = @METISPREFIX@
+METIS = @METISPREFIX@/lib/libmetis.a
#------------------------------------------------------------------------------
# UMFPACK configuration:
@@ -194,7 +194,7 @@
# -DNSUNPERF for Solaris only. If defined, do not use the Sun
# Performance Library
-CHOLMOD_CONFIG =
+CHOLMOD_CONFIG =
#------------------------------------------------------------------------------
# SuiteSparseQR configuration:
@@ -232,7 +232,7 @@
#------------------------------------------------------------------------------
# Using default compilers:
-# CC = gcc
+CC = gcc
# CFLAGS = -O3 -fexceptions
# alternatives:
@@ -286,10 +286,10 @@
# As recommended by macports, http://suitesparse.darwinports.com/
# I've tested them myself on Mac OSX 10.6.1 (Snow Leopard), on my MacBook Air.
-# F77 = gfortran
-# CFLAGS = -O3 -fno-common -no-cpp-precomp -fexceptions
-# BLAS = -framework Accelerate
-# LAPACK = -framework Accelerate
+F77 = gfortran
+CFLAGS = -O3 -fno-common -no-cpp-precomp -fexceptions
+BLAS = -framework Accelerate
+LAPACK = -framework Accelerate
# Using netlib.org LAPACK and BLAS compiled by gfortran, with and without
# optimzation:
--- NEW FILE: metis.info ---
Package: metis
Version: 4.0.3
Revision: 1
Description: Graph partitioning and matrix ordering
DescDetail: <<
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 developed in the Karypis Lab at the University of Minnesota.
METIS's key features are the following:
Provides high quality partitions!
Experiments on a large number of graphs arising in various domains including
finite element methods, linear programming, VLSI, and transportation show that
METIS produces partitions that are consistently better than those produced by
other widely used algorithms. The partitions produced by METIS are
consistently 10% to 50% better than those produced by spectral partitioning
algorithms.
It is extremely fast!
Experiments on a wide range of graphs has shown that METIS is one to two
orders of magnitude faster than other widely used partitioning algorithms.
Graphs with over 1,000,000 vertices can be partitioned in 256 parts in a few
seconds on current generation workstations and PCs.
Produces low fill orderings!
The fill-reducing orderings produced by METIS are significantly better than
those produced by other widely used algorithms including multiple minimum
degree. For many classes of problems arising in scientific computations and
linear programming, METIS is able to reduce the storage and computational
requirements of sparse matrix factorization, by up to an order of magnitude.
Moreover, unlike multiple minimum degree, the elimination trees produced by
METIS are suitable for parallel direct factorization. Furthermore, METIS is
able to compute these orderings very fast. Matrices with over 200,000 rows can
be reordered in just a few seconds on current generation workstations and PCs.
<<
License: OSI-Approved
Maintainer: Alexander Hansen <[email protected]>
Homepage: http://glaros.dtc.umn.edu/gkhome/metis/metis/overview
CustomMirror: <<
nam-US: http://glaros.dtc.umn.edu/gkhome/fetch/sw/%n/OLD
Primary: http://glaros.dtc.umn.edu/gkhome/fetch/sw/%n
<<
Source: mirror:custom:/%n-%v.tar.gz
Source-MD5: d3848b454532ef18dc83e4fb160d1e10
CompileScript: <<
#!/bin/sh -ev
pushd Lib
make
popd
cd Programs
make
<<
InfoTest: <<
TestScript: (cd Test ; make ) || exit 2
<<
InstallScript: <<
#!/bin/sh -ev
mkdir -p %i/bin
cp graphchk kmetis mesh2dual mesh2nodal oemetis onmetis partdmesh
partnmesh pmetis %i/bin
mkdir -p %i/lib
cp libmetis.a %i/lib
mkdir -p %i/include
cp Lib/*.h %i/include
<<
BuildDependsOnly: false
DocFiles: LICENSE VERSION CHANGES Graphs Doc
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