libraries/CHOLMOD: Added (sparse matrix factorizing routines)

Signed-off-by: dsomero <xgizzmo@slackbuilds.org>

5 files changed, 1337 insertions, 0 deletions

diff --git a/libraries/CHOLMOD/CHOLMOD.SlackBuild b/libraries/CHOLMOD/CHOLMOD.SlackBuild
new file mode 100644
index 0000000000..180c5ae010
--- /dev/null
+++ b/libraries/CHOLMOD/CHOLMOD.SlackBuild
@@ -0,0 +1,84 @@
+#!/bin/sh
+
+# Slackware build script for CHOLMOD
+# Written by Kyle Guinn <elyk03@gmail.com>
+
+PRGNAM=CHOLMOD
+VERSION=${VERSION:-1.7.1}
+BUILD=${BUILD:-1}
+TAG=${TAG:-_SBo}
+
+if [ -z "$ARCH" ]; then
+  case "$(uname -m)" in
+    i?86) ARCH=i486 ;;
+    arm*) ARCH=arm ;;
+       *) ARCH=$(uname -m) ;;
+  esac
+fi
+
+CWD=$(pwd)
+TMP=${TMP:-/tmp/SBo}
+PKG=$TMP/package-$PRGNAM
+OUTPUT=${OUTPUT:-/tmp}
+
+DOCS="README.txt Doc/ChangeLog Core/lesser.txt Modify/gpl.txt"
+MODULE_DOCS="Core/License.txt Check/License.txt Cholesky/License.txt Partition/License.txt MatrixOps/License.txt Modify/License.txt Supernodal/License.txt"
+
+if [ "$ARCH" = "i486" ]; then
+  SLKCFLAGS="-O2 -march=i486 -mtune=i686"
+  LIBDIRSUFFIX=""
+elif [ "$ARCH" = "i686" ]; then
+  SLKCFLAGS="-O2 -march=i686 -mtune=i686"
+  LIBDIRSUFFIX=""
+elif [ "$ARCH" = "x86_64" ]; then
+  SLKCFLAGS="-O2 -fPIC"
+  LIBDIRSUFFIX="64"
+else
+  SLKCFLAGS="-O2"
+  LIBDIRSUFFIX=""
+fi
+
+set -e
+
+rm -rf $PKG
+mkdir -p $TMP $PKG $OUTPUT
+cd $TMP
+rm -rf $PRGNAM
+tar xvf $CWD/$PRGNAM-$VERSION.tar.gz
+cd $PRGNAM
+chown -R root:root .
+chmod -R u+w,go+r-w,a-st .
+
+patch -p1 < $CWD/autotoolize.diff
+if [ -e Include/cholmod_config.h ]; then
+  # patch can't handle git-diff renames
+  mv Include/cholmod_config.h Include/cholmod_config.h.in
+fi
+autoreconf -vif
+
+CFLAGS="$SLKCFLAGS" \
+CXXFLAGS="$SLKCFLAGS" \
+./configure \
+  --prefix=/usr \
+  --libdir=/usr/lib${LIBDIRSUFFIX} \
+  --sysconfdir=/etc \
+  --localstatedir=/var \
+  --mandir=/usr/man \
+  --docdir=/usr/doc/$PRGNAM-$VERSION \
+  --build=$ARCH-slackware-linux
+
+make
+make install-strip DESTDIR=$PKG
+
+mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
+cp -a $DOCS $PKG/usr/doc/$PRGNAM-$VERSION
+for i in $MODULE_DOCS; do
+  cp -a $i $PKG/usr/doc/$PRGNAM-$VERSION/$(echo $i | tr / _)
+done
+cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
+
+mkdir -p $PKG/install
+cat $CWD/slack-desc > $PKG/install/slack-desc
+
+cd $PKG
+/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}
diff --git a/libraries/CHOLMOD/CHOLMOD.info b/libraries/CHOLMOD/CHOLMOD.info
new file mode 100644
index 0000000000..0150502295
--- /dev/null
+++ b/libraries/CHOLMOD/CHOLMOD.info
@@ -0,0 +1,10 @@
+PRGNAM="CHOLMOD"
+VERSION="1.7.1"
+HOMEPAGE="http://www.cise.ufl.edu/research/sparse/cholmod/"
+DOWNLOAD="http://www.cise.ufl.edu/research/sparse/cholmod/CHOLMOD-1.7.1.tar.gz"
+MD5SUM="9032c5724bee43ccd8f4546338a29fac"
+DOWNLOAD_x86_64=""
+MD5SUM_x86_64=""
+MAINTAINER="Kyle Guinn"
+EMAIL="elyk03@gmail.com"
+APPROVED="dsomero"
diff --git a/libraries/CHOLMOD/README b/libraries/CHOLMOD/README
new file mode 100644
index 0000000000..3ce8d2d33e
--- /dev/null
+++ b/libraries/CHOLMOD/README
@@ -0,0 +1,6 @@
+CHOLMOD is a set of ANSI C routines for sparse Cholesky factorization and
+update/downdate.
+
+This package is part of SuiteSparse.
+
+Requires BLAS, LAPACK, metis, UFconfig, AMD, CAMD, COLAMD, and CCOLAMD.
diff --git a/libraries/CHOLMOD/autotoolize.diff b/libraries/CHOLMOD/autotoolize.diff
new file mode 100644
index 0000000000..e35f84125e
--- /dev/null
+++ b/libraries/CHOLMOD/autotoolize.diff
@@ -0,0 +1,1218 @@
+diff --git a/Check/Makefile.am b/Check/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Check/Makefile.am
+@@ -0,0 +1,24 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	lesser.txt
++
++CHECKSRC = \
++	cholmod_check.c \
++	cholmod_read.c \
++	cholmod_write.c
++
++noinst_LTLIBRARIES = \
++	libchecki.la \
++	libcheckl.la \
++	libcheck.la
++
++libchecki_la_SOURCES = $(CHECKSRC)
++libchecki_la_CPPFLAGS= $(AM_CPPFLAGS)
++
++libcheckl_la_SOURCES = $(CHECKSRC)
++libcheckl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libcheck_la_SOURCES =
++libcheck_la_LIBADD = libchecki.la libcheckl.la
+diff --git a/Cholesky/Makefile.am b/Cholesky/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Cholesky/Makefile.am
+@@ -0,0 +1,41 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	lesser.txt
++
++CHOLESKYSRC = \
++	cholmod_amd.c \
++	cholmod_analyze.c \
++	cholmod_colamd.c \
++	cholmod_etree.c \
++	cholmod_factorize.c \
++	cholmod_postorder.c \
++	cholmod_rcond.c \
++	cholmod_resymbol.c \
++	cholmod_rowcolcounts.c \
++	cholmod_rowfac.c \
++	cholmod_solve.c \
++	cholmod_spsolve.c
++
++noinst_HEADERS = \
++	t_cholmod_lsolve.c \
++	t_cholmod_ltsolve.c \
++	t_cholmod_rowfac.c \
++	t_cholmod_solve.c
++
++noinst_LTLIBRARIES = \
++	libcholeskyi.la \
++	libcholeskyl.la \
++	libcholesky.la
++
++libcholeskyi_la_SOURCES = $(CHOLESKYSRC)
++libcholeskyi_la_LIBADD = -lcolamd -lamd -lm
++libcholeskyi_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libcholeskyl_la_SOURCES = $(CHOLESKYSRC)
++libcholeskyl_la_LIBADD = -lcolamd -lamd -lm
++libcholeskyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libcholesky_la_SOURCES =
++libcholesky_la_LIBADD = libcholeskyi.la libcholeskyl.la
+diff --git a/Core/Makefile.am b/Core/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Core/Makefile.am
+@@ -0,0 +1,43 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	lesser.txt
++
++CORESRC = \
++	cholmod_aat.c \
++	cholmod_add.c \
++	cholmod_band.c \
++	cholmod_change_factor.c \
++	cholmod_common.c \
++	cholmod_complex.c \
++	cholmod_copy.c \
++	cholmod_dense.c \
++	cholmod_error.c \
++	cholmod_factor.c \
++	cholmod_memory.c \
++	cholmod_sparse.c \
++	cholmod_transpose.c \
++	cholmod_triplet.c
++
++noinst_HEADERS = \
++	t_cholmod_change_factor.c \
++	t_cholmod_dense.c \
++	t_cholmod_transpose.c \
++	t_cholmod_triplet.c
++
++noinst_LTLIBRARIES = \
++	libcorei.la \
++	libcorel.la \
++	libcore.la
++
++libcorei_la_SOURCES = $(CORESRC)
++libcorei_la_LIBADD = -lm
++libcorei_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libcorel_la_SOURCES = $(CORESRC)
++libcorel_la_LIBADD = -lm
++libcorel_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libcore_la_SOURCES =
++libcore_la_LIBADD = libcorei.la libcorel.la
+diff --git a/Demo/Makefile.am b/Demo/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Demo/Makefile.am
+@@ -0,0 +1,51 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	gpl.txt \
++	make.out
++
++dist_noinst_HEADERS = \
++	cholmod_demo.h
++
++dist_noinst_DATA = \
++	Matrix/bcsstk01.tri \
++	Matrix/lp_afiro.tri \
++	Matrix/can___24.mtx \
++	Matrix/c.tri
++
++check_PROGRAMS = \
++	cholmod_demo \
++	cholmod_l_demo \
++	cholmod_simple
++
++noinst_PROGRAMS = \
++	reade \
++	readhb \
++	readhb2
++
++cholmod_demo_SOURCES = cholmod_demo.c
++cholmod_demo_LDADD = $(top_builddir)/libcholmod.la
++
++cholmod_l_demo_SOURCES = cholmod_l_demo.c
++cholmod_l_demo_LDADD = $(top_builddir)/libcholmod.la
++
++cholmod_simple_SOURCES = cholmod_simple.c
++cholmod_simple_LDADD = $(top_builddir)/libcholmod.la
++
++reade_SOURCES = reade.f
++readhb_SOURCES = readhb.f
++readhb2_SOURCES = readhb2.f
++
++check-local: $(check_PROGRAMS) $(dist_noinst_DATA)
++	./cholmod_demo < Matrix/bcsstk01.tri
++	./cholmod_l_demo < Matrix/bcsstk01.tri
++	./cholmod_demo < Matrix/lp_afiro.tri
++	./cholmod_l_demo < Matrix/lp_afiro.tri
++	./cholmod_demo < Matrix/can___24.mtx
++	./cholmod_l_demo < Matrix/can___24.mtx
++	./cholmod_demo < Matrix/c.tri
++	./cholmod_l_demo < Matrix/c.tri
++	./cholmod_simple < Matrix/c.tri
++	./cholmod_simple < Matrix/can___24.mtx
++	./cholmod_simple < Matrix/bcsstk01.tri
+diff --git a/Doc/Makefile.am b/Doc/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Doc/Makefile.am
+@@ -0,0 +1,235 @@
++EXTRA_DIST = \
++	ChangeLog
++
++dist_noinst_DATA = \
++	UserGuide.bib \
++	UserGuide.tex \
++	header.tex \
++	footer.tex \
++	mheader.tex \
++	mfooter.tex \
++	mfile.awk \
++	rule.awk
++
++pdf_DATA = \
++	UserGuide.pdf
++
++dist_noinst_SCRIPTS = \
++	getmproto \
++	getproto
++
++PROTO_C = \
++	../Demo/cholmod_simple.c
++
++PROTO_H = \
++	../Include/cholmod.h \
++	../Include/cholmod_blas.h \
++	../Include/cholmod_check.h \
++	../Include/cholmod_cholesky.h \
++	../Include/cholmod_complexity.h \
++	../Include/cholmod_config.h \
++	../Include/cholmod_core.h \
++	../Include/cholmod_internal.h \
++	../Include/cholmod_matrixops.h \
++	../Include/cholmod_modify.h \
++	../Include/cholmod_partition.h \
++	../Include/cholmod_supernodal.h \
++	../Include/cholmod_template.h
++
++PROTO_M = \
++	../MATLAB/analyze.m \
++	../MATLAB/bisect.m \
++	../MATLAB/chol2.m \
++	../MATLAB/cholmod2.m \
++	../MATLAB/cholmod_demo.m \
++	../MATLAB/cholmod_make.m \
++	../MATLAB/etree2.m \
++	../MATLAB/graph_demo.m \
++	../MATLAB/lchol.m \
++	../MATLAB/ldl_normest.m \
++	../MATLAB/ldlchol.m \
++	../MATLAB/ldlsolve.m \
++	../MATLAB/ldlsplit.m \
++	../MATLAB/ldlupdate.m \
++	../MATLAB/metis.m \
++	../MATLAB/mread.m \
++	../MATLAB/mwrite.m \
++	../MATLAB/nesdis.m \
++	../MATLAB/resymbol.m \
++	../MATLAB/sdmult.m \
++	../MATLAB/sparse2.m \
++	../MATLAB/spsym.m \
++	../MATLAB/symbfact2.m
++
++UserGuide.pdf: $(dist_noinst_DATA) $(dist_noinst_SCRIPTS) $(PROTO_C) $(PROTO_H) $(PROTO_M)
++	./getmproto ../MATLAB/analyze.m > _analyze_m.tex
++	./getmproto ../MATLAB/bisect.m > _bisect_m.tex
++	./getmproto ../MATLAB/chol2.m > _chol2_m.tex
++	./getmproto ../MATLAB/cholmod2.m > _cholmod2_m.tex
++	./getmproto ../MATLAB/cholmod_demo.m > _cholmod_demo_m.tex
++	./getmproto ../MATLAB/cholmod_make.m > _cholmod_make_m.tex
++	./getmproto ../MATLAB/etree2.m > _etree2_m.tex
++	./getmproto ../MATLAB/graph_demo.m > _graph_demo_m.tex
++	./getmproto ../MATLAB/lchol.m > _lchol_m.tex
++	./getmproto ../MATLAB/ldl_normest.m > _ldl_normest_m.tex
++	./getmproto ../MATLAB/ldlchol.m > _ldlchol_m.tex
++	./getmproto ../MATLAB/ldlsolve.m > _ldlsolve_m.tex
++	./getmproto ../MATLAB/ldlsplit.m > _ldlsplit_m.tex
++	./getmproto ../MATLAB/ldlupdate.m > _ldlupdate_m.tex
++	./getmproto ../MATLAB/metis.m > _metis_m.tex
++	./getmproto ../MATLAB/mread.m > _mread_m.tex
++	./getmproto ../MATLAB/mwrite.m > _mwrite_m.tex
++	./getmproto ../MATLAB/nesdis.m > _nesdis_m.tex
++	./getmproto ../MATLAB/resymbol.m > _resymbol_m.tex
++	./getmproto ../MATLAB/sdmult.m > _sdmult_m.tex
++	./getmproto ../MATLAB/sparse2.m > _sparse2_m.tex
++	./getmproto ../MATLAB/spsym.m > _spsym_m.tex
++	./getmproto ../MATLAB/symbfact2.m > _symbfact2_m.tex
++	./getproto '/include/, /^}/' ../Demo/cholmod_simple.c > _simple.tex
++	./getproto '/typedef struct cholmod_common/, /^}/' ../Include/cholmod_core.h > _common.tex
++	./getproto '/int cholmod_start/, /\*\) ;/' ../Include/cholmod_core.h > _start.tex
++	./getproto '/int cholmod_finish/, /\*\) ;/' ../Include/cholmod_core.h > _finish.tex
++	./getproto '/int cholmod_defaults/, /\*\) ;/' ../Include/cholmod_core.h > _defaults.tex
++	./getproto '/size_t cholmod_maxrank/, /\*\) ;/' ../Include/cholmod_core.h > _maxrank.tex
++	./getproto '/int cholmod_allocate_work/, /\*\) ;/' ../Include/cholmod_core.h > _allocate_work.tex
++	./getproto '/int cholmod_free_work/, /\*\) ;/' ../Include/cholmod_core.h > _free_work.tex
++	./getproto '/long cholmod_clear_flag/, /\*\) ;/' ../Include/cholmod_core.h > _clear_flag.tex
++	./getproto '/int cholmod_error/, /\*\) ;/' ../Include/cholmod_core.h > _error.tex
++	./getproto '/double cholmod_dbound/, /\*\) ;/' ../Include/cholmod_core.h > _dbound.tex
++	./getproto '/double cholmod_hypot/, /double\) ;/' ../Include/cholmod_core.h > _hypot.tex
++	./getproto '/int cholmod_divcomplex/, /\*\) ;/' ../Include/cholmod_core.h > _divcomplex.tex
++	./getproto '/typedef struct cholmod_sparse/, /^}/' ../Include/cholmod_core.h > _sparse.tex
++	./getproto '/cholmod_sparse \*cholmod_allocate_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _allocate_sparse.tex
++	./getproto '/int cholmod_free_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _free_sparse.tex
++	./getproto '/int cholmod_reallocate_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _reallocate_sparse.tex
++	./getproto '/long cholmod_nnz/, /\*\) ;/' ../Include/cholmod_core.h > _nnz.tex
++	./getproto '/cholmod_sparse \*cholmod_speye/, /\*\) ;/' ../Include/cholmod_core.h > _speye.tex
++	./getproto '/cholmod_sparse \*cholmod_spzeros/, /\*\) ;/' ../Include/cholmod_core.h > _spzeros.tex
++	./getproto '/cholmod_sparse \*cholmod_transpose/, /\*\) ;/' ../Include/cholmod_core.h > _transpose.tex
++	./getproto '/int cholmod_transpose_unsym/, /\*\) ;/' ../Include/cholmod_core.h > _transpose_unsym.tex
++	./getproto '/int cholmod_transpose_sym/, /\*\) ;/' ../Include/cholmod_core.h > _transpose_sym.tex
++	./getproto '/cholmod_sparse \*cholmod_ptranspose/, /\*\) ;/' ../Include/cholmod_core.h > _ptranspose.tex
++	./getproto '/int cholmod_sort/, /\*\) ;/' ../Include/cholmod_core.h > _sort.tex
++	./getproto '/cholmod_sparse \*cholmod_band/, /\*\) ;/' ../Include/cholmod_core.h > _band.tex
++	./getproto '/int cholmod_band_inplace/, /\*\) ;/' ../Include/cholmod_core.h > _band_inplace.tex
++	./getproto '/cholmod_sparse \*cholmod_aat/, /\*\) ;/' ../Include/cholmod_core.h > _aat.tex
++	./getproto '/cholmod_sparse \*cholmod_copy_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _copy_sparse.tex
++	./getproto '/cholmod_sparse \*cholmod_copy /, /\*\) ;/' ../Include/cholmod_core.h > _copy.tex
++	./getproto '/cholmod_sparse \*cholmod_add/, /\*\) ;/' ../Include/cholmod_core.h > _add.tex
++	./getproto '/int cholmod_sparse_xtype/, /\*\) ;/' ../Include/cholmod_core.h > _sparse_xtype.tex
++	./getproto '/typedef struct cholmod_factor/, /^}/' ../Include/cholmod_core.h > _factor.tex
++	./getproto '/cholmod_factor \*cholmod_allocate_factor/, /\*\) ;/' ../Include/cholmod_core.h > _allocate_factor.tex
++	./getproto '/int cholmod_free_factor/, /\*\) ;/' ../Include/cholmod_core.h > _free_factor.tex
++	./getproto '/int cholmod_reallocate_factor/, /\*\) ;/' ../Include/cholmod_core.h > _reallocate_factor.tex
++	./getproto '/int cholmod_change_factor/, /\*\) ;/' ../Include/cholmod_core.h > _change_factor.tex
++	./getproto '/int cholmod_pack_factor/, /\*\) ;/' ../Include/cholmod_core.h > _pack_factor.tex
++	./getproto '/int cholmod_reallocate_column/, /\*\) ;/' ../Include/cholmod_core.h > _reallocate_column.tex
++	./getproto '/cholmod_sparse \*cholmod_factor_to_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _factor_to_sparse.tex
++	./getproto '/cholmod_factor \*cholmod_copy_factor/, /\*\) ;/' ../Include/cholmod_core.h > _copy_factor.tex
++	./getproto '/int cholmod_factor_xtype/, /\*\) ;/' ../Include/cholmod_core.h > _factor_xtype.tex
++	./getproto '/typedef struct cholmod_dense/, /^}/' ../Include/cholmod_core.h > _dense.tex
++	./getproto '/cholmod_dense \*cholmod_allocate_dense/, /\*\) ;/' ../Include/cholmod_core.h > _allocate_dense.tex
++	./getproto '/cholmod_dense \*cholmod_zeros/, /\*\) ;/' ../Include/cholmod_core.h > _zeros.tex
++	./getproto '/cholmod_dense \*cholmod_ones/, /\*\) ;/' ../Include/cholmod_core.h > _ones.tex
++	./getproto '/cholmod_dense \*cholmod_eye/, /\*\) ;/' ../Include/cholmod_core.h > _eye.tex
++	./getproto '/int cholmod_free_dense/, /\*\) ;/' ../Include/cholmod_core.h > _free_dense.tex
++	./getproto '/cholmod_dense \*cholmod_sparse_to_dense/, /\*\) ;/' ../Include/cholmod_core.h > _sparse_to_dense.tex
++	./getproto '/cholmod_sparse \*cholmod_dense_to_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _dense_to_sparse.tex
++	./getproto '/cholmod_dense \*cholmod_copy_dense/, /\*\) ;/' ../Include/cholmod_core.h > _copy_dense.tex
++	./getproto '/int cholmod_copy_dense2/, /\*\) ;/' ../Include/cholmod_core.h > _copy_dense2.tex
++	./getproto '/int cholmod_dense_xtype/, /\*\) ;/' ../Include/cholmod_core.h > _dense_xtype.tex
++	./getproto '/typedef struct cholmod_triplet/, /^}/' ../Include/cholmod_core.h > _triplet.tex
++	./getproto '/cholmod_triplet \*cholmod_allocate_triplet/, /\*\) ;/' ../Include/cholmod_core.h > _allocate_triplet.tex
++	./getproto '/int cholmod_free_triplet/, /\*\) ;/' ../Include/cholmod_core.h > _free_triplet.tex
++	./getproto '/int cholmod_reallocate_triplet/, /\*\) ;/' ../Include/cholmod_core.h > _reallocate_triplet.tex
++	./getproto '/cholmod_triplet \*cholmod_sparse_to_triplet/, /\*\) ;/' ../Include/cholmod_core.h > _sparse_to_triplet.tex
++	./getproto '/cholmod_sparse \*cholmod_triplet_to_sparse/, /\*\) ;/' ../Include/cholmod_core.h > _triplet_to_sparse.tex
++	./getproto '/cholmod_triplet \*cholmod_copy_triplet/, /\*\) ;/' ../Include/cholmod_core.h > _copy_triplet.tex
++	./getproto '/int cholmod_triplet_xtype/, /\*\) ;/' ../Include/cholmod_core.h > _triplet_xtype.tex
++	./getproto '/void \*cholmod_malloc/, /\*\) ;/' ../Include/cholmod_core.h > _malloc.tex
++	./getproto '/void \*cholmod_calloc/, /\*\) ;/' ../Include/cholmod_core.h > _calloc.tex
++	./getproto '/void \*cholmod_free/, /\*\) ;/' ../Include/cholmod_core.h > _free.tex
++	./getproto '/void \*cholmod_realloc/, /\*\) ;/' ../Include/cholmod_core.h > _realloc.tex
++	./getproto '/int cholmod_realloc_multiple/, /\*\) ;/' ../Include/cholmod_core.h > _realloc_multiple.tex
++	./getproto '/itype defines the/, /define CHOLMOD_SUPERNODAL/' ../Include/cholmod_core.h > _defn.tex
++	./getproto '/int cholmod_check_common/, /\*\) ;/' ../Include/cholmod_check.h > _check_common.tex
++	./getproto '/int cholmod_print_common/, /\*\) ;/' ../Include/cholmod_check.h > _print_common.tex
++	./getproto '/int cholmod_check_sparse/, /\*\) ;/' ../Include/cholmod_check.h > _check_sparse.tex
++	./getproto '/int cholmod_print_sparse/, /\*\) ;/' ../Include/cholmod_check.h > _print_sparse.tex
++	./getproto '/int cholmod_check_dense/, /\*\) ;/' ../Include/cholmod_check.h > _check_dense.tex
++	./getproto '/int cholmod_print_dense/, /\*\) ;/' ../Include/cholmod_check.h > _print_dense.tex
++	./getproto '/int cholmod_check_factor/, /\*\) ;/' ../Include/cholmod_check.h > _check_factor.tex
++	./getproto '/int cholmod_print_factor/, /\*\) ;/' ../Include/cholmod_check.h > _print_factor.tex
++	./getproto '/int cholmod_check_triplet/, /\*\) ;/' ../Include/cholmod_check.h > _check_triplet.tex
++	./getproto '/int cholmod_print_triplet/, /\*\) ;/' ../Include/cholmod_check.h > _print_triplet.tex
++	./getproto '/int cholmod_check_subset/, /\*\) ;/' ../Include/cholmod_check.h > _check_subset.tex
++	./getproto '/int cholmod_print_subset/, /\*\) ;/' ../Include/cholmod_check.h > _print_subset.tex
++	./getproto '/int cholmod_check_perm/, /\*\) ;/' ../Include/cholmod_check.h > _check_perm.tex
++	./getproto '/int cholmod_print_perm/, /\*\) ;/' ../Include/cholmod_check.h > _print_perm.tex
++	./getproto '/int cholmod_check_parent/, /\*\) ;/' ../Include/cholmod_check.h > _check_parent.tex
++	./getproto '/int cholmod_print_parent/, /\*\) ;/' ../Include/cholmod_check.h > _print_parent.tex
++	./getproto '/cholmod_triplet \*cholmod_read_triplet/, /\*\) ;/' ../Include/cholmod_check.h > _read_triplet.tex
++	./getproto '/cholmod_sparse \*cholmod_read_sparse/, /\*\) ;/' ../Include/cholmod_check.h > _read_sparse.tex
++	./getproto '/cholmod_dense \*cholmod_read_dense/, /\*\) ;/' ../Include/cholmod_check.h > _read_dense.tex
++	./getproto '/void \*cholmod_read_matrix/, /\*\) ;/' ../Include/cholmod_check.h > _read_matrix.tex
++	./getproto '/int cholmod_write_sparse/, /\*\) ;/' ../Include/cholmod_check.h > _write_sparse.tex
++	./getproto '/int cholmod_write_dense/, /\*\) ;/' ../Include/cholmod_check.h > _write_dense.tex
++	./getproto '/cholmod_factor \*cholmod_analyze /, /\*\) ;/' ../Include/cholmod_cholesky.h > _analyze.tex
++	./getproto '/cholmod_factor \*cholmod_analyze_p/, /\*\) ;/' ../Include/cholmod_cholesky.h > _analyze_p.tex
++	./getproto '/int cholmod_factorize /, /\*\) ;/' ../Include/cholmod_cholesky.h > _factorize.tex
++	./getproto '/int cholmod_factorize_p/, /\*\) ;/' ../Include/cholmod_cholesky.h > _factorize_p.tex
++	./getproto '/cholmod_dense \*cholmod_solve/, /\*\) ;/' ../Include/cholmod_cholesky.h > _solve.tex
++	./getproto '/cholmod_sparse \*cholmod_spsolve/, /\*\) ;/' ../Include/cholmod_cholesky.h > _spsolve.tex
++	./getproto '/int cholmod_etree/, /\*\) ;/' ../Include/cholmod_cholesky.h > _etree.tex
++	./getproto '/int cholmod_rowcolcounts/, /\*\) ;/' ../Include/cholmod_cholesky.h > _rowcolcounts.tex
++	./getproto '/int cholmod_analyze_ordering/, /\*\) ;/' ../Include/cholmod_cholesky.h > _analyze_ordering.tex
++	./getproto '/int cholmod_amd/, /\*\) ;/' ../Include/cholmod_cholesky.h > _amd.tex
++	./getproto '/int cholmod_colamd/, /\*\) ;/' ../Include/cholmod_cholesky.h > _colamd.tex
++	./getproto '/int cholmod_rowfac/, /\*\) ;/' ../Include/cholmod_cholesky.h > _rowfac.tex
++	./getproto '/int cholmod_rowfac_mask/, /\*\) ;/' ../Include/cholmod_cholesky.h > _rowfac_mask.tex
++	./getproto '/int cholmod_row_subtree/, /\*\) ;/' ../Include/cholmod_cholesky.h > _row_subtree.tex
++	./getproto '/int cholmod_row_lsubtree/, /\*\) ;/' ../Include/cholmod_cholesky.h > _row_lsubtree.tex
++	./getproto '/int cholmod_resymbol /, /\*\) ;/' ../Include/cholmod_cholesky.h > _resymbol.tex
++	./getproto '/int cholmod_resymbol_noperm/, /\*\) ;/' ../Include/cholmod_cholesky.h > _resymbol_noperm.tex
++	./getproto '/double cholmod_rcond/, /\*\) ;/' ../Include/cholmod_cholesky.h > _rcond.tex
++	./getproto '/long cholmod_postorder/, /\*\) ;/' ../Include/cholmod_cholesky.h > _postorder.tex
++	./getproto '/int cholmod_updown /, /\*\) ;/' ../Include/cholmod_modify.h > _updown.tex
++	./getproto '/int cholmod_updown_solve/, /\*\) ;/' ../Include/cholmod_modify.h > _updown_solve.tex
++	./getproto '/int cholmod_updown_mark/, /\*\) ;/' ../Include/cholmod_modify.h > _updown_mark.tex
++	./getproto '/int cholmod_updown_mask/, /\*\) ;/' ../Include/cholmod_modify.h > _updown_mask.tex
++	./getproto '/int cholmod_rowadd /, /\*\) ;/' ../Include/cholmod_modify.h > _rowadd.tex
++	./getproto '/int cholmod_rowadd_solve/, /\*\) ;/' ../Include/cholmod_modify.h > _rowadd_solve.tex
++	./getproto '/int cholmod_rowadd_mark/, /\*\) ;/' ../Include/cholmod_modify.h > _rowadd_mark.tex
++	./getproto '/int cholmod_rowdel /, /\*\) ;/' ../Include/cholmod_modify.h > _rowdel.tex
++	./getproto '/int cholmod_rowdel_solve/, /\*\) ;/' ../Include/cholmod_modify.h > _rowdel_solve.tex
++	./getproto '/int cholmod_rowdel_mark/, /\*\) ;/' ../Include/cholmod_modify.h > _rowdel_mark.tex
++	./getproto '/int cholmod_drop/, /\*\) ;/' ../Include/cholmod_matrixops.h > _drop.tex
++	./getproto '/double cholmod_norm_dense/, /\*\) ;/' ../Include/cholmod_matrixops.h > _norm_dense.tex
++	./getproto '/double cholmod_norm_sparse/, /\*\) ;/' ../Include/cholmod_matrixops.h > _norm_sparse.tex
++	./getproto '/cholmod_sparse \*cholmod_horzcat/, /\*\) ;/' ../Include/cholmod_matrixops.h > _horzcat.tex
++	./getproto '/define CHOLMOD_SCALAR/, /\*\) ;/' ../Include/cholmod_matrixops.h > _scale.tex
++	./getproto '/int cholmod_sdmult/, /\*\) ;/' ../Include/cholmod_matrixops.h > _sdmult.tex
++	./getproto '/cholmod_sparse \*cholmod_ssmult/, /\*\) ;/' ../Include/cholmod_matrixops.h > _ssmult.tex
++	./getproto '/cholmod_sparse \*cholmod_submatrix/, /\*\) ;/' ../Include/cholmod_matrixops.h > _submatrix.tex
++	./getproto '/cholmod_sparse \*cholmod_vertcat/, /\*\) ;/' ../Include/cholmod_matrixops.h > _vertcat.tex
++	./getproto '/int cholmod_symmetry/, /\*\) ;/' ../Include/cholmod_matrixops.h > _symmetry.tex
++	./getproto '/int cholmod_super_symbolic/, /\*\) ;/' ../Include/cholmod_supernodal.h > _super_symbolic.tex
++	./getproto '/int cholmod_super_numeric/, /\*\) ;/' ../Include/cholmod_supernodal.h > _super_numeric.tex
++	./getproto '/int cholmod_super_lsolve/, /\*\) ;/' ../Include/cholmod_supernodal.h > _super_lsolve.tex
++	./getproto '/int cholmod_super_ltsolve/, /\*\) ;/' ../Include/cholmod_supernodal.h > _super_ltsolve.tex
++	./getproto '/long cholmod_nested_dissection/, /\*\) ;/' ../Include/cholmod_partition.h > _nested_dissection.tex
++	./getproto '/int cholmod_metis/, /\*\) ;/' ../Include/cholmod_partition.h > _metis.tex
++	./getproto '/int cholmod_ccolamd/, /\*\) ;/' ../Include/cholmod_partition.h > _ccolamd.tex
++	./getproto '/int cholmod_camd/, /\*\) ;/' ../Include/cholmod_partition.h > _camd.tex
++	./getproto '/int cholmod_csymamd/, /\*\) ;/' ../Include/cholmod_partition.h > _csymamd.tex
++	./getproto '/int cholmod_csymamd/, /\*\) ;/' ../Include/cholmod_partition.h > _csymamd.tex
++	./getproto '/long cholmod_bisect/, /\*\) ;/' ../Include/cholmod_partition.h > _bisect.tex
++	./getproto '/long cholmod_metis_bisector/, /\*\) ;/' ../Include/cholmod_partition.h > _metis_bisector.tex
++	./getproto '/long cholmod_collapse_septree/, /\*\) ;/' ../Include/cholmod_partition.h > _collapse_septree.tex
++	pdflatex UserGuide
++	bibtex UserGuide
++	pdflatex UserGuide
++	pdflatex UserGuide
++
++clean-local:
++	-$(RM) _temp.awk _*.tex *.dvi *.aux *.log *.lof *.lot *.toc *.bak *.bbl *.blg
+diff --git a/Include/Makefile.am b/Include/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Include/Makefile.am
+@@ -0,0 +1,40 @@
++EXTRA_DIST = \
++	License.txt \
++	README.txt
++
++# Automatically generated headers
++nodist_include_HEADERS = \
++	cholmod_config.h
++
++include_HEADERS = \
++	cholmod.h \
++	cholmod_blas.h \
++	cholmod_complexity.h \
++	cholmod_core.h \
++	cholmod_internal.h \
++	cholmod_io64.h \
++	cholmod_template.h
++
++if MOD_CHECK
++include_HEADERS += cholmod_check.h
++endif
++
++if MOD_CHOLESKY
++include_HEADERS += cholmod_cholesky.h
++endif
++
++if MOD_PARTITION
++include_HEADERS += cholmod_partition.h
++endif
++
++if MOD_MATRIXOPS
++include_HEADERS += cholmod_matrixops.h
++endif
++
++if MOD_MODIFY
++include_HEADERS += cholmod_modify.h
++endif
++
++if MOD_SUPERNODAL
++include_HEADERS += cholmod_supernodal.h
++endif
+diff --git a/Include/cholmod_config.h b/Include/cholmod_config.h.in
+rename from Include/cholmod_config.h
+rename to Include/cholmod_config.h.in
+--- a/Include/cholmod_config.h
++++ b/Include/cholmod_config.h.in
+@@ -69,6 +69,12 @@
+ #define LONGBLAS long long
+ #define NSUNPERF
+ */
++@CHOLMOD_NCHECK@
++@CHOLMOD_NCHOLESKY@
++@CHOLMOD_NPARTITION@
++@CHOLMOD_NMATRIXOPS@
++@CHOLMOD_NMODIFY@
++@CHOLMOD_NSUPERNODAL@
+ 
+ /* -------------------------------------------------------------------------- */
+ /* if NGPL is defined, disable all GNU GPL Modules */
+diff --git a/MATLAB/Makefile.am b/MATLAB/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/MATLAB/Makefile.am
+@@ -0,0 +1,25 @@
++# Needed by Doc/Makefile.am
++EXTRA_DIST = \
++	analyze.m \
++	bisect.m \
++	chol2.m \
++	cholmod2.m \
++	cholmod_demo.m \
++	cholmod_make.m \
++	etree2.m \
++	graph_demo.m \
++	lchol.m \
++	ldl_normest.m \
++	ldlchol.m \
++	ldlsolve.m \
++	ldlsplit.m \
++	ldlupdate.m \
++	metis.m \
++	mread.m \
++	mwrite.m \
++	nesdis.m \
++	resymbol.m \
++	sdmult.m \
++	sparse2.m \
++	spsym.m \
++	symbfact2.m
+diff --git a/Makefile.am b/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Makefile.am
+@@ -0,0 +1,40 @@
++SUBDIRS = Include Core
++EXTRA_DIST = README.txt
++
++lib_LTLIBRARIES = libcholmod.la
++
++libcholmod_la_SOURCES =
++libcholmod_la_LIBADD = $(top_builddir)/Core/libcore.la
++libcholmod_la_LDFLAGS = -no-undefined -version-info 8:1:7
++
++if MOD_CHECK
++SUBDIRS += Check
++libcholmod_la_LIBADD += $(top_builddir)/Check/libcheck.la
++endif
++
++if MOD_CHOLESKY
++SUBDIRS += Cholesky
++libcholmod_la_LIBADD += $(top_builddir)/Cholesky/libcholesky.la
++endif
++
++if MOD_PARTITION
++SUBDIRS += Partition
++libcholmod_la_LIBADD += $(top_builddir)/Partition/libpartition.la
++endif
++
++if MOD_MATRIXOPS
++SUBDIRS += MatrixOps
++libcholmod_la_LIBADD += $(top_builddir)/MatrixOps/libmatrixops.la
++endif
++
++if MOD_MODIFY
++SUBDIRS += Modify
++libcholmod_la_LIBADD += $(top_builddir)/Modify/libmodify.la
++endif
++
++if MOD_SUPERNODAL
++SUBDIRS += Supernodal
++libcholmod_la_LIBADD += $(top_builddir)/Supernodal/libsupernodal.la
++endif
++
++SUBDIRS += MATLAB Demo Doc
+diff --git a/MatrixOps/Makefile.am b/MatrixOps/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/MatrixOps/Makefile.am
+@@ -0,0 +1,35 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	gpl.txt
++
++MATRIXOPSSRC = \
++	cholmod_drop.c \
++	cholmod_horzcat.c \
++	cholmod_norm.c \
++	cholmod_scale.c \
++	cholmod_sdmult.c \
++	cholmod_ssmult.c \
++	cholmod_submatrix.c \
++	cholmod_symmetry.c \
++	cholmod_vertcat.c
++
++noinst_HEADERS = \
++	t_cholmod_sdmult.c
++
++noinst_LTLIBRARIES = \
++	libmatrixopsi.la \
++	libmatrixopsl.la \
++	libmatrixops.la
++
++libmatrixopsi_la_SOURCES = $(MATRIXOPSSRC)
++libmatrixopsi_la_LIBADD = -lm
++libmatrixopsi_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libmatrixopsl_la_SOURCES = $(MATRIXOPSSRC)
++libmatrixopsl_la_LIBADD = -lm
++libmatrixopsl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libmatrixops_la_SOURCES =
++libmatrixops_la_LIBADD = libmatrixopsi.la libmatrixopsl.la
+diff --git a/Modify/Makefile.am b/Modify/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Modify/Makefile.am
+@@ -0,0 +1,30 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	gpl.txt
++
++MODIFYSRC = \
++	cholmod_rowadd.c \
++	cholmod_rowdel.c \
++	cholmod_updown.c
++
++noinst_HEADERS = \
++	t_cholmod_updown.c \
++	t_cholmod_updown_numkr.c
++
++noinst_LTLIBRARIES = \
++	libmodifyi.la \
++	libmodifyl.la \
++	libmodify.la
++
++libmodifyi_la_SOURCES = $(MODIFYSRC)
++libmodifyi_la_LIBADD = -lm
++libmodifyi_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libmodifyl_la_SOURCES = $(MODIFYSRC)
++libmodifyl_la_LIBADD = -lm
++libmodifyl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libmodify_la_SOURCES =
++libmodify_la_LIBADD = libmodifyi.la libmodifyl.la
+diff --git a/Partition/Makefile.am b/Partition/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Partition/Makefile.am
+@@ -0,0 +1,28 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include $(METIS_CFLAGS)
++
++EXTRA_DIST = \
++	License.txt \
++	lesser.txt
++
++PARTITIONSRC = \
++	cholmod_camd.c \
++	cholmod_ccolamd.c \
++	cholmod_csymamd.c \
++	cholmod_metis.c \
++	cholmod_nesdis.c
++
++noinst_LTLIBRARIES = \
++	libpartitioni.la \
++	libpartitionl.la \
++	libpartition.la
++
++libpartitioni_la_SOURCES = $(PARTITIONSRC)
++libpartitioni_la_LIBADD = $(METIS_LIBS) -lccolamd -lcamd -lm
++libpartitioni_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libpartitionl_la_SOURCES = $(PARTITIONSRC)
++libpartitionl_la_LIBADD = $(METIS_LIBS) -lccolamd -lcamd -lm
++libpartitionl_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libpartition_la_SOURCES =
++libpartition_la_LIBADD = libpartitioni.la libpartitionl.la
+diff --git a/Supernodal/Makefile.am b/Supernodal/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Supernodal/Makefile.am
+@@ -0,0 +1,30 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++EXTRA_DIST = \
++	License.txt \
++	gpl.txt
++
++SUPERNODALSRC = \
++	cholmod_super_numeric.c \
++	cholmod_super_solve.c \
++	cholmod_super_symbolic.c
++
++noinst_HEADERS = \
++	t_cholmod_super_numeric.c \
++	t_cholmod_super_solve.c
++
++noinst_LTLIBRARIES = \
++	libsupernodali.la \
++	libsupernodall.la \
++	libsupernodal.la
++
++libsupernodali_la_SOURCES = $(SUPERNODALSRC)
++libsupernodali_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS)
++libsupernodali_la_CPPFLAGS = $(AM_CPPFLAGS)
++
++libsupernodall_la_SOURCES = $(SUPERNODALSRC)
++libsupernodall_la_LIBADD = $(LAPACK_LIBS) $(BLAS_LIBS)
++libsupernodall_la_CPPFLAGS = $(AM_CPPFLAGS) -DDLONG
++
++libsupernodal_la_SOURCES =
++libsupernodal_la_LIBADD = libsupernodali.la libsupernodall.la
+diff --git a/acx_blas.m4 b/acx_blas.m4
+new file mode 100644
+--- /dev/null
++++ b/acx_blas.m4
+@@ -0,0 +1,191 @@
++##### http://autoconf-archive.cryp.to/acx_blas.html
++#
++# SYNOPSIS
++#
++#   ACX_BLAS([ACTION-IF-FOUND[, ACTION-IF-NOT-FOUND]])
++#
++# DESCRIPTION
++#
++#   This macro looks for a library that implements the BLAS
++#   linear-algebra interface (see http://www.netlib.org/blas/). On
++#   success, it sets the BLAS_LIBS output variable to hold the
++#   requisite library linkages.
++#
++#   To link with BLAS, you should link with:
++#
++#   	$BLAS_LIBS $LIBS $FLIBS
++#
++#   in that order. FLIBS is the output variable of the
++#   AC_F77_LIBRARY_LDFLAGS macro (called if necessary by ACX_BLAS), and
++#   is sometimes necessary in order to link with F77 libraries. Users
++#   will also need to use AC_F77_DUMMY_MAIN (see the autoconf manual),
++#   for the same reason.
++#
++#   Many libraries are searched for, from ATLAS to CXML to ESSL. The
++#   user may also use --with-blas=<lib> in order to use some specific
++#   BLAS library <lib>. In order to link successfully, however, be
++#   aware that you will probably need to use the same Fortran compiler
++#   (which can be set via the F77 env. var.) as was used to compile the
++#   BLAS library.
++#
++#   ACTION-IF-FOUND is a list of shell commands to run if a BLAS
++#   library is found, and ACTION-IF-NOT-FOUND is a list of commands to
++#   run it if it is not found. If ACTION-IF-FOUND is not specified, the
++#   default action will define HAVE_BLAS.
++#
++#   This macro requires autoconf 2.50 or later.
++#
++# LAST MODIFICATION
++#
++#   2007-07-29
++#
++# COPYLEFT
++#
++#   Copyright (c) 2007 Steven G. Johnson <stevenj@alum.mit.edu>
++#
++#   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 3 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, see
++#   <http://www.gnu.org/licenses/>.
++#
++#   As a special exception, the respective Autoconf Macro's copyright
++#   owner gives unlimited permission to copy, distribute and modify the
++#   configure scripts that are the output of Autoconf when processing
++#   the Macro. You need not follow the terms of the GNU General Public
++#   License when using or distributing such scripts, even though
++#   portions of the text of the Macro appear in them. The GNU General
++#   Public License (GPL) does govern all other use of the material that
++#   constitutes the Autoconf Macro.
++#
++#   This special exception to the GPL applies to versions of the
++#   Autoconf Macro released by the Autoconf Macro Archive. When you
++#   make and distribute a modified version of the Autoconf Macro, you
++#   may extend this special exception to the GPL to apply to your
++#   modified version as well.
++
++AC_DEFUN([ACX_BLAS], [
++AC_PREREQ(2.50)
++AC_REQUIRE([AC_F77_LIBRARY_LDFLAGS])
++acx_blas_ok=no
++
++AC_ARG_WITH(blas,
++	[AC_HELP_STRING([--with-blas=<lib>], [use BLAS library <lib>])])
++case $with_blas in
++	yes | "") ;;
++	no) acx_blas_ok=disable ;;
++	-* | */* | *.a | *.so | *.so.* | *.o) BLAS_LIBS="$with_blas" ;;
++	*) BLAS_LIBS="-l$with_blas" ;;
++esac
++
++# Get fortran linker names of BLAS functions to check for.
++AC_F77_FUNC(sgemm)
++AC_F77_FUNC(dgemm)
++
++acx_blas_save_LIBS="$LIBS"
++LIBS="$LIBS $FLIBS"
++
++# First, check BLAS_LIBS environment variable
++if test $acx_blas_ok = no; then
++if test "x$BLAS_LIBS" != x; then
++	save_LIBS="$LIBS"; LIBS="$BLAS_LIBS $LIBS"
++	AC_MSG_CHECKING([for $sgemm in $BLAS_LIBS])
++	AC_TRY_LINK_FUNC($sgemm, [acx_blas_ok=yes], [BLAS_LIBS=""])
++	AC_MSG_RESULT($acx_blas_ok)
++	LIBS="$save_LIBS"
++fi
++fi
++
++# BLAS linked to by default?  (happens on some supercomputers)
++if test $acx_blas_ok = no; then
++	save_LIBS="$LIBS"; LIBS="$LIBS"
++	AC_CHECK_FUNC($sgemm, [acx_blas_ok=yes])
++	LIBS="$save_LIBS"
++fi
++
++# BLAS in ATLAS library? (http://math-atlas.sourceforge.net/)
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(atlas, ATL_xerbla,
++		[AC_CHECK_LIB(f77blas, $sgemm,
++		[AC_CHECK_LIB(cblas, cblas_dgemm,
++			[acx_blas_ok=yes
++			 BLAS_LIBS="-lcblas -lf77blas -latlas"],
++			[], [-lf77blas -latlas])],
++			[], [-latlas])])
++fi
++
++# BLAS in PhiPACK libraries? (requires generic BLAS lib, too)
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(blas, $sgemm,
++		[AC_CHECK_LIB(dgemm, $dgemm,
++		[AC_CHECK_LIB(sgemm, $sgemm,
++			[acx_blas_ok=yes; BLAS_LIBS="-lsgemm -ldgemm -lblas"],
++			[], [-lblas])],
++			[], [-lblas])])
++fi
++
++# BLAS in Alpha CXML library?
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(cxml, $sgemm, [acx_blas_ok=yes;BLAS_LIBS="-lcxml"])
++fi
++
++# BLAS in Alpha DXML library? (now called CXML, see above)
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(dxml, $sgemm, [acx_blas_ok=yes;BLAS_LIBS="-ldxml"])
++fi
++
++# BLAS in Sun Performance library?
++if test $acx_blas_ok = no; then
++	if test "x$GCC" != xyes; then # only works with Sun CC
++		AC_CHECK_LIB(sunmath, acosp,
++			[AC_CHECK_LIB(sunperf, $sgemm,
++        			[BLAS_LIBS="-xlic_lib=sunperf -lsunmath"
++                                 acx_blas_ok=yes],[],[-lsunmath])])
++	fi
++fi
++
++# BLAS in SCSL library?  (SGI/Cray Scientific Library)
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(scs, $sgemm, [acx_blas_ok=yes; BLAS_LIBS="-lscs"])
++fi
++
++# BLAS in SGIMATH library?
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(complib.sgimath, $sgemm,
++		     [acx_blas_ok=yes; BLAS_LIBS="-lcomplib.sgimath"])
++fi
++
++# BLAS in IBM ESSL library? (requires generic BLAS lib, too)
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(blas, $sgemm,
++		[AC_CHECK_LIB(essl, $sgemm,
++			[acx_blas_ok=yes; BLAS_LIBS="-lessl -lblas"],
++			[], [-lblas $FLIBS])])
++fi
++
++# Generic BLAS library?
++if test $acx_blas_ok = no; then
++	AC_CHECK_LIB(blas, $sgemm, [acx_blas_ok=yes; BLAS_LIBS="-lblas"])
++fi
++
++AC_SUBST(BLAS_LIBS)
++
++LIBS="$acx_blas_save_LIBS"
++
++# Finally, execute ACTION-IF-FOUND/ACTION-IF-NOT-FOUND:
++if test x"$acx_blas_ok" = xyes; then
++        ifelse([$1],,AC_DEFINE(HAVE_BLAS,1,[Define if you have a BLAS library.]),[$1])
++        :
++else
++        acx_blas_ok=no
++        $2
++fi
++])dnl ACX_BLAS
+diff --git a/acx_lapack.m4 b/acx_lapack.m4
+new file mode 100644
+--- /dev/null
++++ b/acx_lapack.m4
+@@ -0,0 +1,133 @@
++##### http://autoconf-archive.cryp.to/acx_lapack.html
++#
++# SYNOPSIS
++#
++#   ACX_LAPACK([ACTION-IF-FOUND[, ACTION-IF-NOT-FOUND]])
++#
++# DESCRIPTION
++#
++#   This macro looks for a library that implements the LAPACK
++#   linear-algebra interface (see http://www.netlib.org/lapack/). On
++#   success, it sets the LAPACK_LIBS output variable to hold the
++#   requisite library linkages.
++#
++#   To link with LAPACK, you should link with:
++#
++#       $LAPACK_LIBS $BLAS_LIBS $LIBS $FLIBS
++#
++#   in that order. BLAS_LIBS is the output variable of the ACX_BLAS
++#   macro, called automatically. FLIBS is the output variable of the
++#   AC_F77_LIBRARY_LDFLAGS macro (called if necessary by ACX_BLAS), and
++#   is sometimes necessary in order to link with F77 libraries. Users
++#   will also need to use AC_F77_DUMMY_MAIN (see the autoconf manual),
++#   for the same reason.
++#
++#   The user may also use --with-lapack=<lib> in order to use some
++#   specific LAPACK library <lib>. In order to link successfully,
++#   however, be aware that you will probably need to use the same
++#   Fortran compiler (which can be set via the F77 env. var.) as was
++#   used to compile the LAPACK and BLAS libraries.
++#
++#   ACTION-IF-FOUND is a list of shell commands to run if a LAPACK
++#   library is found, and ACTION-IF-NOT-FOUND is a list of commands to
++#   run it if it is not found. If ACTION-IF-FOUND is not specified, the
++#   default action will define HAVE_LAPACK.
++#
++# LAST MODIFICATION
++#
++#   2007-07-29
++#
++# COPYLEFT
++#
++#   Copyright (c) 2007 Steven G. Johnson <stevenj@alum.mit.edu>
++#
++#   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 3 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, see
++#   <http://www.gnu.org/licenses/>.
++#
++#   As a special exception, the respective Autoconf Macro's copyright
++#   owner gives unlimited permission to copy, distribute and modify the
++#   configure scripts that are the output of Autoconf when processing
++#   the Macro. You need not follow the terms of the GNU General Public
++#   License when using or distributing such scripts, even though
++#   portions of the text of the Macro appear in them. The GNU General
++#   Public License (GPL) does govern all other use of the material that
++#   constitutes the Autoconf Macro.
++#
++#   This special exception to the GPL applies to versions of the
++#   Autoconf Macro released by the Autoconf Macro Archive. When you
++#   make and distribute a modified version of the Autoconf Macro, you
++#   may extend this special exception to the GPL to apply to your
++#   modified version as well.
++
++AC_DEFUN([ACX_LAPACK], [
++AC_REQUIRE([ACX_BLAS])
++acx_lapack_ok=no
++
++AC_ARG_WITH(lapack,
++        [AC_HELP_STRING([--with-lapack=<lib>], [use LAPACK library <lib>])])
++case $with_lapack in
++        yes | "") ;;
++        no) acx_lapack_ok=disable ;;
++        -* | */* | *.a | *.so | *.so.* | *.o) LAPACK_LIBS="$with_lapack" ;;
++        *) LAPACK_LIBS="-l$with_lapack" ;;
++esac
++
++# Get fortran linker name of LAPACK function to check for.
++AC_F77_FUNC(cheev)
++
++# We cannot use LAPACK if BLAS is not found
++if test "x$acx_blas_ok" != xyes; then
++        acx_lapack_ok=noblas
++fi
++
++# First, check LAPACK_LIBS environment variable
++if test "x$LAPACK_LIBS" != x; then
++        save_LIBS="$LIBS"; LIBS="$LAPACK_LIBS $BLAS_LIBS $LIBS $FLIBS"
++        AC_MSG_CHECKING([for $cheev in $LAPACK_LIBS])
++        AC_TRY_LINK_FUNC($cheev, [acx_lapack_ok=yes], [LAPACK_LIBS=""])
++        AC_MSG_RESULT($acx_lapack_ok)
++        LIBS="$save_LIBS"
++        if test acx_lapack_ok = no; then
++                LAPACK_LIBS=""
++        fi
++fi
++
++# LAPACK linked to by default?  (is sometimes included in BLAS lib)
++if test $acx_lapack_ok = no; then
++        save_LIBS="$LIBS"; LIBS="$LIBS $BLAS_LIBS $FLIBS"
++        AC_CHECK_FUNC($cheev, [acx_lapack_ok=yes])
++        LIBS="$save_LIBS"
++fi
++
++# Generic LAPACK library?
++for lapack in lapack lapack_rs6k; do
++        if test $acx_lapack_ok = no; then
++                save_LIBS="$LIBS"; LIBS="$BLAS_LIBS $LIBS"
++                AC_CHECK_LIB($lapack, $cheev,
++                    [acx_lapack_ok=yes; LAPACK_LIBS="-l$lapack"], [], [$FLIBS])
++                LIBS="$save_LIBS"
++        fi
++done
++
++AC_SUBST(LAPACK_LIBS)
++
++# Finally, execute ACTION-IF-FOUND/ACTION-IF-NOT-FOUND:
++if test x"$acx_lapack_ok" = xyes; then
++        ifelse([$1],,AC_DEFINE(HAVE_LAPACK,1,[Define if you have LAPACK library.]),[$1])
++        :
++else
++        acx_lapack_ok=no
++        $2
++fi
++])dnl ACX_LAPACK
+diff --git a/configure.ac b/configure.ac
+new file mode 100644
+--- /dev/null
++++ b/configure.ac
+@@ -0,0 +1,179 @@
++AC_PREREQ([2.65])
++AC_INIT([CHOLMOD], [1.7.1], [davis@cise.ufl.edu])
++AC_CONFIG_SRCDIR([Core/cholmod_common.c])
++AC_CONFIG_HEADER([config.h])
++AM_INIT_AUTOMAKE([foreign])
++LT_INIT
++
++AC_PROG_INSTALL
++AC_PROG_CC
++AC_PROG_F77
++
++AC_MSG_CHECKING([whether to build mod-check])
++AC_ARG_ENABLE([mod-check],
++	[AS_HELP_STRING(
++		[--enable-mod-check],
++		[build the Check module @<:@default=yes@:>@])],
++	[mod_check=$enableval],
++	[mod_check="yes"])
++AC_MSG_RESULT([$mod_check])
++
++AC_MSG_CHECKING([whether to build mod-cholesky])
++AC_ARG_ENABLE([mod-cholesky],
++	[AS_HELP_STRING(
++		[--enable-mod-cholesky],
++		[build the Cholesky module @<:@default=yes@:>@])],
++	[mod_cholesky=$enableval],
++	[mod_cholesky="yes"])
++AC_MSG_RESULT([$mod_cholesky])
++
++AC_MSG_CHECKING([whether to build mod-partition])
++AC_ARG_ENABLE([mod-partition],
++	[AS_HELP_STRING(
++		[--enable-mod-partition],
++		[build the Partition module @<:@default=yes@:>@])],
++	[mod_partition=$enableval],
++	[mod_partition="yes"])
++AC_MSG_RESULT([$mod_partition])
++
++AC_MSG_CHECKING([whether to build mod-matrixops])
++AC_ARG_ENABLE([mod-matrixops],
++	[AS_HELP_STRING(
++		[--enable-mod-matrixops],
++		[build the MatrixOps module @<:@default=yes@:>@])],
++	[mod_matrixops=$enableval],
++	[mod_matrixops="yes"])
++AC_MSG_RESULT([$mod_matrixops])
++
++AC_MSG_CHECKING([whether to build mod-modify])
++AC_ARG_ENABLE([mod-modify],
++	[AS_HELP_STRING(
++		[--enable-mod-modify],
++		[build the Modify module @<:@default=yes@:>@])],
++	[mod_modify=$enableval],
++	[mod_modify="yes"])
++AC_MSG_RESULT([$mod_modify])
++
++AC_MSG_CHECKING([whether to build mod-supernodal])
++AC_ARG_ENABLE([mod-supernodal],
++	[AS_HELP_STRING(
++		[--enable-mod-supernodal],
++		[build the Supernodal module @<:@default=yes@:>@])],
++	[mod_supernodal=$enableval],
++	[mod_supernodal="yes"])
++AC_MSG_RESULT([$mod_supernodal])
++
++if test "x$mod_check" = "xno"; then
++	AC_DEFINE([NCHECK], [], [Define to disable the Check module])
++	AC_SUBST([CHOLMOD_NCHECK], ["#define NCHECK"])
++fi
++
++if test "x$mod_cholesky" = "xno"; then
++	AC_DEFINE([NCHOLESKY], [], [Define to disable the Cholesky module])
++	AC_SUBST([CHOLMOD_NCHOLESKY], ["#define NCHOLESKY"])
++fi
++
++if test "x$mod_partition" = "xno"; then
++	AC_DEFINE([NPARTITION], [], [Define to disable the Partition module])
++	AC_SUBST([CHOLMOD_NPARTITION], ["#define NPARTITION"])
++fi
++
++if test "x$mod_matrixops" = "xno"; then
++	AC_DEFINE([NMATRIXOPS], [], [Define to disable the MatrixOps module])
++	AC_SUBST([CHOLMOD_NMATRIXOPS], ["#define NMATRIXOPS"])
++fi
++
++if test "x$mod_modify" = "xno"; then
++	AC_DEFINE([NMODIFY], [], [Define to disable the Modify module])
++	AC_SUBST([CHOLMOD_NMODIFY], ["#define NMODIFY"])
++fi
++
++if test "x$mod_supernodal" = "xno"; then
++	AC_DEFINE([NSUPERNODAL], [], [Define to disable the Supernodal module])
++	AC_SUBST([CHOLMOD_NSUPERNODAL], ["#define NSUPERNODAL"])
++fi
++
++LIBS_SAVED=$LIBS
++
++AC_CHECK_LIB([m], [sqrt])
++
++if test "x$mod_cholesky" = "xyes"; then
++	AC_CHECK_HEADERS([amd.h])
++	AC_CHECK_LIB([amd], [amd_info],
++		[],
++		[AC_MSG_ERROR([cannot find libamd (required by mod-cholesky)])])
++	
++	AC_CHECK_HEADERS([colamd.h])
++	AC_CHECK_LIB([colamd], [colamd_recommended],
++		[],
++		[AC_MSG_ERROR([cannot find libcolamd (required by mod-cholesky)])])
++fi
++
++if test "x$mod_partition" = "xyes"; then
++	PKG_PROG_PKG_CONFIG
++	if test -n "$PKG_CONFIG"; then
++		PKG_CHECK_MODULES([METIS], [metis])
++	else
++		AC_CHECK_HEADERS([metis.h])
++		AC_CHECK_LIB([metis], [METIS_NodeND],
++			[METIS_LIBS=-lmetis],
++			[AC_MSG_ERROR([cannot find libmetis (required by mod-partition)])])
++	fi
++
++	AC_CHECK_HEADERS([ccolamd.h])
++	AC_CHECK_LIB([ccolamd], [ccolamd_report],
++		[],
++		[AC_MSG_ERROR([cannot find libccolamd (required by mod-partition)])])
++
++	AC_CHECK_HEADERS([camd.h])
++	AC_CHECK_LIB([camd], [camd_info],
++		[],
++		[AC_MSG_ERROR([cannot find libcamd (required by mod-partition)])])
++fi
++
++if test "x$mod_supernodal" = "xyes"; then
++	sinclude([acx_blas.m4])
++	sinclude([acx_lapack.m4])
++	ACX_LAPACK
++
++	if test "x$BLAS_LIBS" = "x"; then
++		AC_MSG_ERROR([cannot find blas (required by mod-supernodal)])
++	fi
++
++	if test "x$LAPACK_LIBS" = "x"; then
++		AC_MSG_ERROR([cannot find lapack (required by mod-supernodal)])
++	fi
++fi
++
++AC_CHECK_HEADERS([stddef.h stdlib.h string.h])
++AC_CHECK_HEADERS([UFconfig.h])
++
++AC_TYPE_SIZE_T
++
++AC_FUNC_MALLOC
++AC_CHECK_FUNCS([sqrt])
++
++LIBS=$LIBS_SAVED
++
++AM_CONDITIONAL([MOD_CHECK], [test "x$mod_check" = "xyes"])
++AM_CONDITIONAL([MOD_CHOLESKY], [test "x$mod_cholesky" = "xyes"])
++AM_CONDITIONAL([MOD_PARTITION], [test "x$mod_partition" = "xyes"])
++AM_CONDITIONAL([MOD_MATRIXOPS], [test "x$mod_matrixops" = "xyes"])
++AM_CONDITIONAL([MOD_MODIFY], [test "x$mod_modify" = "xyes"])
++AM_CONDITIONAL([MOD_SUPERNODAL], [test "x$mod_supernodal" = "xyes"])
++
++AC_CONFIG_FILES([
++	Makefile
++	Check/Makefile
++	Cholesky/Makefile
++	Core/Makefile
++	Demo/Makefile
++	Doc/Makefile
++	Include/cholmod_config.h
++	Include/Makefile
++	MATLAB/Makefile
++	MatrixOps/Makefile
++	Modify/Makefile
++	Partition/Makefile
++	Supernodal/Makefile])
++AC_OUTPUT
diff --git a/libraries/CHOLMOD/slack-desc b/libraries/CHOLMOD/slack-desc
new file mode 100644
index 0000000000..cf68da832a
--- /dev/null
+++ b/libraries/CHOLMOD/slack-desc
@@ -0,0 +1,19 @@
+# HOW TO EDIT THIS FILE:
+# The "handy ruler" below makes it easier to edit a package description.  Line
+# up the first '|' above the ':' following the base package name, and the '|'
+# on the right side marks the last column you can put a character in.  You must
+# make exactly 11 lines for the formatting to be correct.  It's also
+# customary to leave one space after the ':'.
+
+       |-----handy-ruler------------------------------------------------------|
+CHOLMOD: CHOLMOD (sparse matrix factorizing routines)
+CHOLMOD:
+CHOLMOD: CHOLMOD is a set of ANSI C routines for sparse Cholesky
+CHOLMOD: factorization and update/downdate.
+CHOLMOD:
+CHOLMOD:
+CHOLMOD:
+CHOLMOD:
+CHOLMOD:
+CHOLMOD:
+CHOLMOD: