academic/rbio: Updated for version 2.2.6.

Signed-off-by: Kyle Guinn <elyk03@gmail.com>

1 files changed, 245 insertions, 0 deletions

diff --git a/academic/rbio/patches/autotoolize.diff b/academic/rbio/patches/autotoolize.diff
new file mode 100644
index 0000000000..b20e1a88e5
--- /dev/null
+++ b/academic/rbio/patches/autotoolize.diff
@@ -0,0 +1,245 @@
+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 < $(top_srcdir)/RBio/private/west0479.rua
++
++CLEANFILES = temp.rb
+diff --git a/Include/Makefile.am b/Include/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Include/Makefile.am
+@@ -0,0 +1 @@
++pkginclude_HEADERS = RBio.h
+diff --git a/Makefile.am b/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Makefile.am
+@@ -0,0 +1,4 @@
++SUBDIRS = Include Source RBio Demo Tcov
++EXTRA_DIST = README.txt Doc/ChangeLog Doc/License.txt Doc/gpl.txt
++
++pkgconfig_DATA = rbio.pc
+diff --git a/RBio/Makefile.am b/RBio/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/RBio/Makefile.am
+@@ -0,0 +1,3 @@
++SUBDIRS = private
++dist_noinst_DATA = \
++	mywest
+diff --git a/RBio/private/Makefile.am b/RBio/private/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/RBio/private/Makefile.am
+@@ -0,0 +1,7 @@
++dist_noinst_DATA = \
++	bcsstk01.rb \
++	farm.rb \
++	lap_25.pse \
++	lap_25.rb \
++	west0479.rb \
++	west0479.rua
+diff --git a/Source/Makefile.am b/Source/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Source/Makefile.am
+@@ -0,0 +1,18 @@
++AM_CPPFLAGS = -I$(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 -release $(PACKAGE_VERSION)
+diff --git a/Tcov/Makefile.am b/Tcov/Makefile.am
+new file mode 100644
+--- /dev/null
++++ b/Tcov/Makefile.am
+@@ -0,0 +1,92 @@
++AM_CC = gcc
++AM_CFLAGS = -O0 -g --coverage
++AM_CPPFLAGS = -I$(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) $(COV) > gcov.out
++	-grep -c "#####" RBio.c.gcov
++
++CLEANFILES = gcov.out *.gcov *.gcda *.gcno temp*.rb
+diff --git a/configure.ac b/configure.ac
+new file mode 100644
+--- /dev/null
++++ b/configure.ac
+@@ -0,0 +1,41 @@
++#                                               -*- Autoconf -*-
++# Process this file with autoconf to produce a configure script.
++
++AC_PREREQ([2.69])
++AC_INIT([RBio],[2.2.6],[DrTimothyAldenDavis@gmail.com],[rbio],[http://www.suitesparse.com/])
++AC_CONFIG_SRCDIR([Source/RBio.c])
++AC_CONFIG_HEADERS([config.h])
++AM_INIT_AUTOMAKE([foreign])
++LT_INIT
++
++# Checks for programs.
++PKG_PROG_PKG_CONFIG
++AC_PROG_INSTALL
++AC_PROG_CC
++
++AS_VAR_SET([LIBS_SAVED], [$LIBS])
++
++# Checks for libraries.
++PKG_CHECK_MODULES([SUITESPARSECONFIG], [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.
++
++AS_VAR_SET([LIBS], [$LIBS_SAVED])
++
++PKG_INSTALLDIR
++AC_CONFIG_FILES([
++	rbio.pc
++	Makefile
++	Demo/Makefile
++	Include/Makefile
++	RBio/Makefile
++	RBio/private/Makefile
++	Source/Makefile
++	Tcov/Makefile
++])
++AC_OUTPUT
+diff --git a/rbio.pc.in b/rbio.pc.in
+new file mode 100644
+--- /dev/null
++++ b/rbio.pc.in
+@@ -0,0 +1,12 @@
++prefix=@prefix@
++exec_prefix=@exec_prefix@
++libdir=@libdir@
++includedir=@includedir@
++
++Name: @PACKAGE_NAME@
++Description: Toolbox for reading/writing sparse matrices in Rutherford/Boeing format
++Version: @PACKAGE_VERSION@
++URL: @PACKAGE_URL@
++Requires.private: suitesparseconfig
++Libs: -L${libdir} -lrbio
++Cflags: -I${includedir}/rbio