academic/rbio: Renamed and moved from libraries.

Signed-off-by: Robby Workman <rworkman@slackbuilds.org>

5 files changed, 387 insertions, 0 deletions

diff --git a/academic/rbio/README b/academic/rbio/README
new file mode 100644
index 0000000000..c30b708df3
--- /dev/null
+++ b/academic/rbio/README
@@ -0,0 +1,5 @@
+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.
diff --git a/academic/rbio/autotoolize.diff b/academic/rbio/autotoolize.diff
new file mode 100644
index 0000000000..4c495922ee
--- /dev/null
+++ b/academic/rbio/autotoolize.diff
@@ -0,0 +1,246 @@
+diff --git a/Demo/Makefile.am b/Demo/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Demo/Makefile.am
+@@ -0,0 +1,22 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
++LDADD = $(top_builddir)/Source/librbio.la $(SUITESPARSECONFIG_LIBS)
++
++EXTRA_DIST = \
++	RBdemo.out
++
++# Disable the .out implicit pattern rule.  Prevents GNU make from
++# adding bogus dependencies for the .out files listed above.
++%.out: %
++
++check_PROGRAMS = \
++	RBdemo
++
++RBdemo_SOURCES = RBdemo.c
++
++RB = \
++	$(top_srcdir)/RBio/private/west0479.rua
++
++check-local: $(check_PROGRAMS) $(RB)
++	./RBdemo < $(top_srcdir)/RBio/private/west0479.rua
++
++CLEANFILES = temp.rb
+diff --git a/Include/Makefile.am b/Include/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Include/Makefile.am
+@@ -0,0 +1 @@
++pkginclude_HEADERS = RBio.h
+diff --git a/Makefile.am b/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Makefile.am
+@@ -0,0 +1,5 @@
++SUBDIRS = Include Source RBio Demo Tcov
++EXTRA_DIST = README.txt Doc/ChangeLog Doc/License.txt Doc/gpl.txt
++
++pkgconfigdir = $(libdir)/pkgconfig
++pkgconfig_DATA = rbio.pc
+diff --git a/RBio/Makefile.am b/RBio/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/RBio/Makefile.am
+@@ -0,0 +1,3 @@
++SUBDIRS = private
++dist_noinst_DATA = \
++	mywest
+diff --git a/RBio/private/Makefile.am b/RBio/private/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/RBio/private/Makefile.am
+@@ -0,0 +1,7 @@
++dist_noinst_DATA = \
++	bcsstk01.rb \
++	farm.rb \
++	lap_25.pse \
++	lap_25.rb \
++	west0479.rb \
++	west0479.rua
+diff --git a/Source/Makefile.am b/Source/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Source/Makefile.am
+@@ -0,0 +1,18 @@
++AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
++
++RBIOSRC = \
++	RBio.c
++
++lib_LTLIBRARIES = librbio.la
++noinst_LTLIBRARIES = librbioi.la librbiol.la
++
++librbioi_la_SOURCES = $(RBIOSRC)
++librbioi_la_LIBADD = $(SUITESPARSECONFIG_LIBS)
++librbioi_la_CPPFLAGS = $(AM_CPPFLAGS) -DINT
++
++librbiol_la_SOURCES = $(RBIOSRC)
++librbiol_la_LIBADD = $(SUITESPARSECONFIG_LIBS)
++
++librbio_la_SOURCES =
++librbio_la_LIBADD = librbioi.la librbiol.la
++librbio_la_LDFLAGS = -no-undefined -version-number 2:1:1
+diff --git a/Tcov/Makefile.am b/Tcov/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Tcov/Makefile.am
+@@ -0,0 +1,92 @@
++AM_CC = gcc
++AM_CFLAGS = -O0 -g --coverage
++AM_CPPFLAGS = -I$(top_srcdir)/Include $(SUITESPARSECONFIG_CFLAGS)
++LDADD = $(SUITESPARSECONFIG_LIBS)
++
++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
++
++RBdemo_SOURCES = $(top_srcdir)/Source/RBio.c $(top_srcdir)/Demo/RBdemo.c
++RBtest_SOURCES = $(top_srcdir)/Source/RBio.c RBtest.c
++
++TAR = tar -O -xvvzf
++
++RB = \
++	$(top_srcdir)/RBio/private/bcsstk01.rb \
++	$(top_srcdir)/RBio/private/farm.rb \
++	$(top_srcdir)/RBio/private/lap_25.pse \
++	$(top_srcdir)/RBio/private/lap_25.rb \
++	$(top_srcdir)/RBio/private/west0479.rb \
++	$(top_srcdir)/RBio/private/west0479.rua \
++	$(addprefix $(srcdir)/,$(dist_noinst_DATA))
++
++COV = \
++	$(top_srcdir)/Source/RBio.c \
++	$(top_srcdir)/Demo/RBdemo.c \
++	$(srcdir)/RBtest.c
++
++check-local: $(check_PROGRAMS) $(RB) $(COV)
++	-./RBdemo $(top_srcdir)/RBio/private/bcsstk01.rb
++	-./RBdemo $(top_srcdir)/RBio/private/farm.rb
++	-./RBdemo $(top_srcdir)/RBio/private/lap_25.pse
++	-./RBdemo $(top_srcdir)/RBio/private/lap_25.rb
++	-./RBdemo $(top_srcdir)/RBio/private/west0479.rb
++	-./RBdemo $(top_srcdir)/RBio/private/west0479.rua
++	-$(TAR) $(srcdir)/matrices/dwg961a.tar.gz  dwg961a/dwg961a.rb     | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/mhd1280a.tar.gz mhd1280a/mhd1280a.rb   | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/mhd1280b.tar.gz mhd1280b/mhd1280b.rb   | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/qc324.tar.gz    qc324/qc324.rb         | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/plskz362.tar.gz plskz362/plskz362.rb   | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/west0067.tar.gz west0067/west0067.rb   | ./RBdemo
++	-$(TAR) $(srcdir)/matrices/Tina_DisCog.tar.gz Tina_DisCog/Tina_DisCog.rb | ./RBdemo
++	-./RBdemo $(srcdir)/matrices/m4.rb
++	-./RBdemo $(srcdir)/matrices/s4.rb
++	-./RBdemo $(srcdir)/matrices/m4b.rb
++	-./RBdemo $(srcdir)/mangled/1.rb
++	-./RBdemo $(srcdir)/mangled/2.rb
++	-./RBdemo $(srcdir)/mangled/3.rb
++	-./RBdemo $(srcdir)/mangled/4.rb
++	-./RBdemo $(srcdir)/mangled/5.rb
++	-./RBdemo $(srcdir)/mangled/6.rb
++	-./RBdemo $(srcdir)/mangled/7.rb
++	-./RBdemo $(srcdir)/mangled/8.rb
++	-./RBdemo $(srcdir)/mangled/9.rb
++	-./RBdemo $(srcdir)/mangled/10.rb
++	-./RBdemo $(srcdir)/mangled/11.rb
++	-./RBdemo $(srcdir)/mangled/12.rb
++	-./RBdemo $(srcdir)/mangled/13.rb
++	-./RBdemo $(srcdir)/mangled/14.rb
++	-./RBdemo $(srcdir)/mangled/15.rb
++	-./RBtest
++	-gcov -o $(builddir) $(COV) > gcov.out
++	-grep -c "#####" RBio.c.gcov
++
++CLEANFILES = gcov.out *.gcov *.gcda *.gcno temp*.rb
+diff --git a/configure.ac b/configure.ac
+new file mode 100644
+--- /dev/null
++++ b/configure.ac
+@@ -0,0 +1,41 @@
++#                                               -*- Autoconf -*-
++# Process this file with autoconf to produce a configure script.
++
++AC_PREREQ([2.69])
++AC_INIT([RBio],[2.1.1],[DrTimothyAldenDavis@gmail.com],[rbio],[http://www.suitesparse.com/])
++AC_CONFIG_SRCDIR([Source/RBio.c])
++AC_CONFIG_HEADERS([config.h])
++AM_INIT_AUTOMAKE([foreign])
++LT_INIT
++
++# Checks for programs.
++AC_PROG_INSTALL
++AC_PROG_CC
++
++LIBS_SAVED=$LIBS
++
++# Checks for libraries.
++PKG_PROG_PKG_CONFIG
++PKG_CHECK_MODULES([SUITESPARSECONFIG],[suitesparseconfig],
++	[],
++	[AC_MSG_ERROR([cannot find suitesparseconfig])])
++
++# Checks for header files.
++AC_CHECK_HEADERS([stddef.h stdlib.h string.h])
++
++# Checks for typedefs, structures, and compiler characteristics.
++
++# Checks for library functions.
++
++LIBS=$LIBS_SAVED
++
++AC_CONFIG_FILES([
++	rbio.pc
++	Makefile
++	Demo/Makefile
++	Include/Makefile
++	RBio/Makefile
++	RBio/private/Makefile
++	Source/Makefile
++	Tcov/Makefile])
++AC_OUTPUT
+diff --git a/rbio.pc.in b/rbio.pc.in
+new file mode 100644
+--- /dev/null
++++ b/rbio.pc.in
+@@ -0,0 +1,12 @@
++prefix=@prefix@
++exec_prefix=@exec_prefix@
++libdir=@libdir@
++includedir=@includedir@
++
++Name: @PACKAGE_NAME@
++Description: Toolbox for reading/writing sparse matrices in Rutherford/Boeing format
++Version: @PACKAGE_VERSION@
++URL: @PACKAGE_URL@
++Requires.private: suitesparseconfig
++Libs: -L${libdir} -lrbio
++Cflags: -I${includedir}/rbio
diff --git a/academic/rbio/rbio.SlackBuild b/academic/rbio/rbio.SlackBuild
new file mode 100644
index 0000000000..4403638e46
--- /dev/null
+++ b/academic/rbio/rbio.SlackBuild
@@ -0,0 +1,107 @@
+#!/bin/sh
+
+# Slackware build script for RBio
+
+# Copyright 2013 Kyle Guinn <elyk03@gmail.com>, USA
+# All rights reserved.
+#
+# Redistribution and use of this script, with or without modification, is
+# permitted provided that the following conditions are met:
+#
+# 1. Redistributions of this script must retain the above copyright
+# notice, this list of conditions and the following disclaimer.
+#
+# THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
+# WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
+# MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO
+# EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+# SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
+# PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
+# OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
+# WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
+# OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
+# ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+
+PRGNAM=rbio
+SRCNAM=RBio
+VERSION=${VERSION:-2.1.1}
+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 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 [ "$ARCH" = "x86_64" ]; then
+  SLKCFLAGS="-O2 -fPIC"
+  LIBDIRSUFFIX="64"
+else
+  SLKCFLAGS="-O2"
+  LIBDIRSUFFIX=""
+fi
+
+# Recommended by SuiteSparse
+SLKCFLAGS="$SLKCFLAGS -fexceptions -D_FILE_OFFSET_BITS=64 -D_LARGEFILE64_SOURCE"
+
+set -e
+
+rm -rf $PKG
+mkdir -p $TMP $PKG $OUTPUT
+cd $TMP
+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 {} \;
+
+patch -p1 < $CWD/autotoolize.diff
+autoreconf -vif
+
+CFLAGS="$SLKCFLAGS" \
+./configure \
+  --prefix=/usr \
+  --libdir=/usr/lib${LIBDIRSUFFIX} \
+  --sysconfdir=/etc \
+  --localstatedir=/var \
+  --mandir=/usr/man \
+  --infodir=/usr/info \
+  --docdir=/usr/doc/$PRGNAM-$VERSION \
+  --enable-shared \
+  --disable-static \
+  --disable-dependency-tracking \
+  --build=$ARCH-slackware-linux
+
+make
+make check
+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 0000000000..f00a7e82bf
--- /dev/null
+++ b/academic/rbio/rbio.info
@@ -0,0 +1,10 @@
+PRGNAM="rbio"
+VERSION="2.1.1"
+HOMEPAGE="https://www.cise.ufl.edu/research/sparse/RBio/"
+DOWNLOAD="https://www.cise.ufl.edu/research/sparse/RBio/RBio-2.1.1.tar.gz"
+MD5SUM="07495e73e29683a8b348811a34e0e396"
+DOWNLOAD_x86_64=""
+MD5SUM_x86_64=""
+REQUIRES="suitesparseconfig"
+MAINTAINER="Kyle Guinn"
+EMAIL="elyk03@gmail.com"
diff --git a/academic/rbio/slack-desc b/academic/rbio/slack-desc
new file mode 100644
index 0000000000..20e9a950bb
--- /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 ':' except on otherwise blank lines.
+
+    |-----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: