academic/RBio: Added (sparse matrix I/O routines)

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

5 files changed, 303 insertions, 0 deletions

diff --git a/academic/RBio/RBio.SlackBuild b/academic/RBio/RBio.SlackBuild
new file mode 100644
index 000000000000..eb0baa0876d4
--- /dev/null
+++ b/academic/RBio/RBio.SlackBuild
@@ -0,0 +1,76 @@
+#!/bin/sh
+
+# Slackware build script for RBio
+# Written by Kyle Guinn <elyk03@gmail.com>
+
+PRGNAM=RBio
+VERSION=${VERSION:-2.0.0}
+BUILD=${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=${OUTPUT:-/tmp}
+
+DOCS="README.txt Doc/ChangeLog Doc/License.txt Doc/gpl.txt"
+
+if [ "$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.tar.gz
+cd $PRGNAM
+chown -R root:root .
+chmod -R u+w,go+r-w,a-st .
+
+patch -p1 < $CWD/autotoolize.diff
+autoreconf -vif
+
+CFLAGS="$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
+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.${PKGTYPE:-tgz}
diff --git a/academic/RBio/RBio.info b/academic/RBio/RBio.info
new file mode 100644
index 000000000000..da7767316d0f
--- /dev/null
+++ b/academic/RBio/RBio.info
@@ -0,0 +1,10 @@
+PRGNAM="RBio"
+VERSION="2.0.0"
+HOMEPAGE="http://www.cise.ufl.edu/research/sparse/RBio/"
+DOWNLOAD="http://www.cise.ufl.edu/research/sparse/RBio/current/RBio.tar.gz"
+MD5SUM="c27563fce30d45b5a0ee33ccde035005"
+DOWNLOAD_x86_64=""
+MD5SUM_x86_64=""
+MAINTAINER="Kyle Guinn"
+EMAIL="elyk03@gmail.com"
+APPROVED="dsomero"
diff --git a/academic/RBio/README b/academic/RBio/README
new file mode 100644
index 000000000000..5b5398cd52eb
--- /dev/null
+++ b/academic/RBio/README
@@ -0,0 +1,7 @@
+RBio - MATLAB toolbox for reading/writing sparse matrices in the
+Rutherford/Boeing format, and for reading/writing problems in the UF
+Sparse Matrix Collection from/to a set of files in a directory.
+
+This package is part of SuiteSparse.
+
+Requires UFconfig.
diff --git a/academic/RBio/autotoolize.diff b/academic/RBio/autotoolize.diff
new file mode 100644
index 000000000000..709474efa6a3
--- /dev/null
+++ b/academic/RBio/autotoolize.diff
@@ -0,0 +1,191 @@
+diff --git a/Demo/Makefile.am b/Demo/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Demo/Makefile.am
+@@ -0,0 +1,16 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++LDADD = $(top_builddir)/Source/librbio.la -lufconfig
++
++check_PROGRAMS = \
++	RBdemo
++
++RBdemo_SOURCES = RBdemo.c
++
++RB = \
++	../RBio/private/west0479.rua
++
++check-local: $(check_PROGRAMS) $(RB)
++	./RBdemo < ../RBio/private/west0479.rua
++
++clean-local:
++	-$(RM) temp.rb
+diff --git a/Makefile.am b/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Makefile.am
+@@ -0,0 +1,3 @@
++SUBDIRS = Source RBio/private Demo Tcov
++EXTRA_DIST = README.txt Doc/ChangeLog Doc/License.txt Doc/gpl.txt
++include_HEADERS = Include/RBio.h
+diff --git a/RBio/private/Makefile.am b/RBio/private/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/RBio/private/Makefile.am
+@@ -0,0 +1,7 @@
++dist_noinst_DATA = \
++	bcsstk01.rb \
++	farm.rb \
++	lap_25.pse \
++	lap_25.rb \
++	west0479.rb \
++	west0479.rua
+diff --git a/Source/Makefile.am b/Source/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Source/Makefile.am
+@@ -0,0 +1,16 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++
++RBIOSRC = \
++	RBio.c
++
++lib_LTLIBRARIES = librbio.la
++noinst_LTLIBRARIES = librbioi.la librbiol.la
++
++librbioi_la_SOURCES = $(RBIOSRC)
++librbioi_la_CPPFLAGS = $(AM_CPPFLAGS) -DINT
++
++librbiol_la_SOURCES = $(RBIOSRC)
++
++librbio_la_SOURCES =
++librbio_la_LIBADD = librbioi.la librbiol.la
++librbio_la_LDFLAGS = -no-undefined -version-info 2:0:0
+diff --git a/Tcov/Makefile.am b/Tcov/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Tcov/Makefile.am
+@@ -0,0 +1,94 @@
++AM_CC = gcc
++AM_CFLAGS = -O0 -g --coverage
++AM_CPPFLAGS = -I$(top_srcdir)/Include
++LDADD = -lufconfig
++
++dist_noinst_DATA = \
++	matrices/Tina_DisCog.tar.gz \
++	matrices/dwg961a.tar.gz \
++	matrices/m4.rb \
++	matrices/m4b.rb \
++	matrices/mhd1280a.tar.gz \
++	matrices/mhd1280b.tar.gz \
++	matrices/plskz362.tar.gz \
++	matrices/qc324.tar.gz \
++	matrices/s4.rb \
++	matrices/west0067.tar.gz \
++	mangled/1.rb \
++	mangled/2.rb \
++	mangled/3.rb \
++	mangled/4.rb \
++	mangled/5.rb \
++	mangled/6.rb \
++	mangled/7.rb \
++	mangled/8.rb \
++	mangled/9.rb \
++	mangled/10.rb \
++	mangled/11.rb \
++	mangled/12.rb \
++	mangled/13.rb \
++	mangled/14.rb \
++	mangled/15.rb
++
++check_PROGRAMS = \
++	RBdemo \
++	RBtest
++
++RBio.c: ../Source/RBio.c
++	$(LN_S) -f $< $@
++
++RBdemo.c: ../Demo/RBdemo.c
++	$(LN_S) -f $< $@
++
++RBdemo_SOURCES = RBdemo.c RBio.c
++RBtest_SOURCES = RBtest.c RBio.c
++
++TAR = tar -O -xvvzf
++
++RB = \
++	../RBio/private/bcsstk01.rb \
++	../RBio/private/farm.rb \
++	../RBio/private/lap_25.pse \
++	../RBio/private/lap_25.rb \
++	../RBio/private/west0479.rb \
++	../RBio/private/west0479.rua \
++	$(dist_noinst_DATA)
++
++check-local: $(check_PROGRAMS) $(RB)
++	-./RBdemo ../RBio/private/bcsstk01.rb
++	-./RBdemo ../RBio/private/farm.rb
++	-./RBdemo ../RBio/private/lap_25.pse
++	-./RBdemo ../RBio/private/lap_25.rb
++	-./RBdemo ../RBio/private/west0479.rb
++	-./RBdemo ../RBio/private/west0479.rua
++	-$(TAR) matrices/dwg961a.tar.gz  dwg961a/dwg961a.rb     | ./RBdemo
++	-$(TAR) matrices/mhd1280a.tar.gz mhd1280a/mhd1280a.rb   | ./RBdemo
++	-$(TAR) matrices/mhd1280b.tar.gz mhd1280b/mhd1280b.rb   | ./RBdemo
++	-$(TAR) matrices/qc324.tar.gz    qc324/qc324.rb         | ./RBdemo
++	-$(TAR) matrices/plskz362.tar.gz plskz362/plskz362.rb   | ./RBdemo
++	-$(TAR) matrices/west0067.tar.gz west0067/west0067.rb   | ./RBdemo
++	-$(TAR) matrices/Tina_DisCog.tar.gz Tina_DisCog/Tina_DisCog.rb | ./RBdemo
++	-./RBdemo matrices/m4.rb
++	-./RBdemo matrices/s4.rb
++	-./RBdemo matrices/m4b.rb
++	-./RBdemo mangled/1.rb
++	-./RBdemo mangled/2.rb
++	-./RBdemo mangled/3.rb
++	-./RBdemo mangled/4.rb
++	-./RBdemo mangled/5.rb
++	-./RBdemo mangled/6.rb
++	-./RBdemo mangled/7.rb
++	-./RBdemo mangled/8.rb
++	-./RBdemo mangled/9.rb
++	-./RBdemo mangled/10.rb
++	-./RBdemo mangled/11.rb
++	-./RBdemo mangled/12.rb
++	-./RBdemo mangled/13.rb
++	-./RBdemo mangled/14.rb
++	-./RBdemo mangled/15.rb
++	-./RBtest
++	-gcov *.c > gcov.out
++	-grep "#####" RBio.c.gcov | wc -l
++
++clean-local:
++	-$(RM) gcov.out *.gcov *.gcda *.gcno temp*.rb
+diff --git a/configure.ac b/configure.ac
+new file mode 100644
+--- /dev/null
++++ b/configure.ac
+@@ -0,0 +1,25 @@
++AC_PREREQ([2.65])
++AC_INIT([RBio], [2.0.0], [davis@cise.ufl.edu])
++AC_CONFIG_SRCDIR([Source/RBio.c])
++AC_CONFIG_HEADER([config.h])
++AM_INIT_AUTOMAKE([foreign])
++LT_INIT
++
++AC_PROG_INSTALL
++AC_PROG_CC
++
++LIBS_SAVED=$LIBS
++
++AC_CHECK_LIB([ufconfig], [UFmalloc])
++
++AC_CHECK_HEADERS([stddef.h stdlib.h string.h])
++
++LIBS=$LIBS_SAVED
++
++AC_CONFIG_FILES([
++	Makefile
++	Demo/Makefile
++	RBio/private/Makefile
++	Source/Makefile
++	Tcov/Makefile])
++AC_OUTPUT
diff --git a/academic/RBio/slack-desc b/academic/RBio/slack-desc
new file mode 100644
index 000000000000..6522449794c0
--- /dev/null
+++ b/academic/RBio/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------------------------------------------------------|
+RBio: RBio (sparse matrix I/O routines)
+RBio:
+RBio: RBio - MATLAB toolbox for reading/writing sparse matrices in the
+RBio: Rutherford/Boeing format, and for reading/writing problems in the
+RBio: UF Sparse Matrix Collection from/to a set of files in a directory.
+RBio:
+RBio:
+RBio:
+RBio:
+RBio:
+RBio: