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academic/cholmod: Updated for version 3.0.5. 

Signed-off-by: Kyle Guinn <elyk03@gmail.com>
This commit is contained in:
Kyle Guinn 2015-06-09 00:47:19 -05:00 committed by Willy Sudiarto Raharjo
parent 04c332e2f3
commit 0bc2ece8d2
3 changed files with 85 additions and 50 deletions
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83
academic/cholmod/autotoolize.diff
View File

@ -2,7 +2,7 @@ diff --git a/Check/Makefile.am b/Check/Makefile.am
new file mode 100644
--- /dev/null
+++ b/Check/Makefile.am
@@ -0,0 +1,24 @@
@@ -0,0 +1,26 @@
+AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
+
+EXTRA_DIST = \
@ -20,9 +20,11 @@ new file mode 100644
+ libcheck.la
+
+libchecki_la_SOURCES = $(CHECKSRC)
+libchecki_la_LIBADD = $(SUITESPARSECONFIG_LIBS)
+libchecki_la_CPPFLAGS= $(AM_CPPFLAGS)
+
+libcheckl_la_SOURCES = $(CHECKSRC)
+libcheckl_la_LIBADD = $(SUITESPARSECONFIG_LIBS)
+libcheckl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libcheck_la_SOURCES =
@ -64,11 +66,11 @@ new file mode 100644
+ libcholesky.la
+
+libcholeskyi_la_SOURCES = $(CHOLESKYSRC)
+libcholeskyi_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) -lm
+libcholeskyi_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm
+libcholeskyi_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libcholeskyl_la_SOURCES = $(CHOLESKYSRC)
+libcholeskyl_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) -lm
+libcholeskyl_la_LIBADD = $(COLAMD_LIBS) $(AMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm
+libcholeskyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libcholesky_la_SOURCES =
@ -113,11 +115,11 @@ new file mode 100644
+ libcore.la
+
+libcorei_la_SOURCES = $(CORESRC)
+libcorei_la_LIBADD = -lm
+libcorei_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libcorei_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libcorel_la_SOURCES = $(CORESRC)
+libcorel_la_LIBADD = -lm
+libcorel_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libcorel_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libcore_la_SOURCES =
@ -628,11 +630,41 @@ new file mode 100644
+
+CLEANFILES = _*.awk _*.tex *.dvi *.aux *.log *.lof *.lot *.toc *.bak *.bbl *.blg
+MAINTAINERCLEANFILES = $(dist_pdf_DATA)
diff --git a/GPU/Makefile.am b/GPU/Makefile.am
new file mode 100644
--- /dev/null
+++ b/GPU/Makefile.am
@@ -0,0 +1,25 @@
+AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
+
+GPUSRC = \
+ cholmod_gpu.c
+
+EXTRA_DIST = \
+ cholmod_gpu_kernels.c \
+ cholmod_gpu_kernels.cu
+
+noinst_HEADERS = \
+ t_cholmod_gpu.c
+
+noinst_LTLIBRARIES = \
+ libgpui.la \
+ libgpul.la \
+ libgpu.la
+
+libgpui_la_SOURCES = $(GPUSRC)
+libgpui_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libgpul_la_SOURCES = $(GPUSRC)
+libgpul_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libgpu_la_SOURCES =
+libgpu_la_LIBADD = libgpui.la libgpul.la
diff --git a/Include/Makefile.am b/Include/Makefile.am
new file mode 100644
--- /dev/null
+++ b/Include/Makefile.am
@@ -0,0 +1,42 @@
@@ -0,0 +1,45 @@
+EXTRA_DIST = \
+ License.txt \
+ README.txt
@ -645,10 +677,13 @@ new file mode 100644
+ cholmod.h \
+ cholmod_blas.h \
+ cholmod_core.h \
+ cholmod_function.h \
+ cholmod_gpu.h \
+ cholmod_io64.h
+
+noinst_HEADERS = \
+ cholmod_complexity.h \
+ cholmod_gpu_kernels.h \
+ cholmod_internal.h \
+ cholmod_template.h
+
@ -755,7 +790,7 @@ diff --git a/Makefile.am b/Makefile.am
new file mode 100644
--- /dev/null
+++ b/Makefile.am
@@ -0,0 +1,43 @@
@@ -0,0 +1,46 @@
+SUBDIRS = Include Core
+EXTRA_DIST = README.txt
+
@ -766,7 +801,7 @@ new file mode 100644
+
+libcholmod_la_SOURCES =
+libcholmod_la_LIBADD = $(top_builddir)/Core/libcore.la
+libcholmod_la_LDFLAGS = -no-undefined -version-number 2:1:2
+libcholmod_la_LDFLAGS = -no-undefined -release $(PACKAGE_VERSION)
+
+if MOD_CHECK
+SUBDIRS += Check
@ -798,6 +833,9 @@ new file mode 100644
+libcholmod_la_LIBADD += $(top_builddir)/Supernodal/libsupernodal.la
+endif
+
+#SUBDIRS += GPU
+#libcholmod_la_LIBADD += $(top_builddir)/GPU/libgpu.la
+
+SUBDIRS += MATLAB Demo Doc
diff --git a/MatrixOps/Makefile.am b/MatrixOps/Makefile.am
new file mode 100644
@ -830,11 +868,11 @@ new file mode 100644
+ libmatrixops.la
+
+libmatrixopsi_la_SOURCES = $(MATRIXOPSSRC)
+libmatrixopsi_la_LIBADD = -lm
+libmatrixopsi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libmatrixopsi_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libmatrixopsl_la_SOURCES = $(MATRIXOPSSRC)
+libmatrixopsl_la_LIBADD = -lm
+libmatrixopsl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libmatrixopsl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libmatrixops_la_SOURCES =
@ -865,11 +903,11 @@ new file mode 100644
+ libmodify.la
+
+libmodifyi_la_SOURCES = $(MODIFYSRC)
+libmodifyi_la_LIBADD = -lm
+libmodifyi_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libmodifyi_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libmodifyl_la_SOURCES = $(MODIFYSRC)
+libmodifyl_la_LIBADD = -lm
+libmodifyl_la_LIBADD = $(SUITESPARSECONFIG_LIBS) -lm
+libmodifyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libmodify_la_SOURCES =
@ -898,11 +936,11 @@ new file mode 100644
+ libpartition.la
+
+libpartitioni_la_SOURCES = $(PARTITIONSRC)
+libpartitioni_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) -lm
+libpartitioni_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm
+libpartitioni_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libpartitionl_la_SOURCES = $(PARTITIONSRC)
+libpartitionl_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) -lm
+libpartitionl_la_LIBADD = $(METIS_LIBS) $(CCOLAMD_LIBS) $(CAMD_LIBS) $(SUITESPARSECONFIG_LIBS) -lm
+libpartitionl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+libpartition_la_SOURCES =
@ -966,7 +1004,7 @@ diff --git a/Supernodal/Makefile.am b/Supernodal/Makefile.am
new file mode 100644
--- /dev/null
+++ b/Supernodal/Makefile.am
@@ -0,0 +1,39 @@
@@ -0,0 +1,35 @@
+AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
+
+EXTRA_DIST = \
@ -979,7 +1017,6 @@ new file mode 100644
+ cholmod_super_symbolic.c
+
+noinst_HEADERS = \
+ t_cholmod_gpu.c \
+ t_cholmod_super_numeric.c \
+ t_cholmod_super_solve.c
+
@ -989,17 +1026,14 @@ new file mode 100644
+ libsupernodal.la
+
+libsupernodali_la_SOURCES = $(SUPERNODALSRC)
+libsupernodali_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS)
+libsupernodali_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS)
+libsupernodali_la_CPPFLAGS = $(AM_CPPFLAGS)
+
+libsupernodall_la_SOURCES = $(SUPERNODALSRC)
+libsupernodall_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS)
+libsupernodall_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS) $(SUITESPARSECONFIG_LIBS)
+libsupernodall_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
+
+if TIMING
+libsupernodali_la_LIBADD += $(SUITESPARSECONFIG_LIBS)
+libsupernodall_la_LIBADD += $(SUITESPARSECONFIG_LIBS)
+else
+if !TIMING
+libsupernodali_la_CPPFLAGS += -DNTIMER
+libsupernodall_la_CPPFLAGS += -DNTIMER
+endif
@ -1407,12 +1441,12 @@ diff --git a/configure.ac b/configure.ac
new file mode 100644
--- /dev/null
+++ b/configure.ac
@@ -0,0 +1,215 @@
@@ -0,0 +1,216 @@
+# -*- Autoconf -*-
+# Process this file with autoconf to produce a configure script.
+
+AC_PREREQ([2.69])
+AC_INIT([CHOLMOD],[2.1.2],[DrTimothyAldenDavis@gmail.com],[cholmod],[http://www.suitesparse.com/])
+AC_INIT([CHOLMOD],[3.0.5],[DrTimothyAldenDavis@gmail.com],[cholmod],[http://www.suitesparse.com/])
+AC_CONFIG_SRCDIR([Core/cholmod_common.c])
+AC_CONFIG_HEADERS([config.h Include/cholmod_config.h])
+AM_INIT_AUTOMAKE([foreign])
@ -1616,6 +1650,7 @@ new file mode 100644
+ Core/Makefile
+ Demo/Makefile
+ Doc/Makefile
+ GPU/Makefile
+ Include/Makefile
+ MATLAB/Makefile
+ MatrixOps/Makefile

44
academic/cholmod/cholmod.SlackBuild
View File

@ -2,29 +2,31 @@
# Slackware build script for CHOLMOD
# Copyright 2013 Kyle Guinn <elyk03@gmail.com>, USA
# Copyright 2013-2015 Kyle Guinn <elyk03@gmail.com>, USA
# All rights reserved.
#
# 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.
# 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.
# 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=cholmod
SRCNAM=CHOLMOD
VERSION=${VERSION:-2.1.2}
SRCNAM=SuiteSparse
SUBDIR=CHOLMOD
VERSION=${VERSION:-3.0.5}
SRCVER=${SRCVER:-4.4.4}
BUILD=${BUILD:-1}
TAG=${TAG:-_SBo}
@ -59,7 +61,7 @@ else
fi
# Recommended by SuiteSparse
SLKCFLAGS="$SLKCFLAGS -fexceptions -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE"
SLKCFLAGS="$SLKCFLAGS -fexceptions -D_FILE_OFFSET_BITS=64"
set -e
@ -67,14 +69,10 @@ rm -rf $PKG
mkdir -p $TMP $PKG $OUTPUT
cd $TMP
rm -rf $SRCNAM
tar xvf $CWD/$SRCNAM-$VERSION.tar.gz
cd $SRCNAM
tar xvf $CWD/$SRCNAM-$SRCVER.tar.gz
cd $SRCNAM/$SUBDIR
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 {} \;
chmod -R u+w,go-w,a+rX-st .
patch -p1 < $CWD/autotoolize.diff
patch -p1 < $CWD/atlas-threaded-blas.diff
@ -99,6 +97,8 @@ make
make check
make install-strip DESTDIR=$PKG
find $PKG/usr/lib${LIBDIRSUFFIX} -name '*.la' -delete
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
cp -a $DOCS $PKG/usr/doc/$PRGNAM-$VERSION
for i in $MODULE_DOCS; do

8
academic/cholmod/cholmod.info
View File

@ -1,8 +1,8 @@
PRGNAM="cholmod"
VERSION="2.1.2"
HOMEPAGE="https://www.cise.ufl.edu/research/sparse/cholmod/"
DOWNLOAD="https://www.cise.ufl.edu/research/sparse/cholmod/CHOLMOD-2.1.2.tar.gz"
MD5SUM="0c55ade78bb1b1f1e7b6a6cba024f70d"
VERSION="3.0.5"
HOMEPAGE="http://faculty.cse.tamu.edu/davis/suitesparse.html"
DOWNLOAD="http://faculty.cse.tamu.edu/davis/SuiteSparse/SuiteSparse-4.4.4.tar.gz"
MD5SUM="e0af74476935c9ff6d971df8bb6b82fc"
DOWNLOAD_x86_64=""
MD5SUM_x86_64=""
REQUIRES="blas lapack suitesparseconfig amd camd colamd ccolamd"