From 9855d214635ccead0b3966ce147f6f09e793735f Mon Sep 17 00:00:00 2001
From: Petar Petrov <ppetrov@paju.oulu.fi>
Date: Wed, 12 Sep 2012 13:51:02 -0500
Subject: academic/EMBOSS: Updated for version 6.5.7.

Signed-off-by: Robby Workman <rworkman@slackbuilds.org>
---
 academic/EMBOSS/EMBOSS.SlackBuild | 47 ++++++++++++++++++++++++++-------------
 1 file changed, 31 insertions(+), 16 deletions(-)

(limited to 'academic/EMBOSS/EMBOSS.SlackBuild')

diff --git a/academic/EMBOSS/EMBOSS.SlackBuild b/academic/EMBOSS/EMBOSS.SlackBuild
index 0321ba1146..7c18b5d7d2 100644
--- a/academic/EMBOSS/EMBOSS.SlackBuild
+++ b/academic/EMBOSS/EMBOSS.SlackBuild
@@ -1,17 +1,31 @@
 #!/bin/sh
 
 # Slackware build script for EMBOSS
-# Written by Petar Petrov, <ppetrov@paju.oulu.fi> and 
-# hereby submitted to the public domain
 
-# THIS SLACKBUILD IS DISTRIBUTETD IN THE HOPE OF BEING 
-# USEFUL BUT WITHOUT ANY WARRANTY. THE AUTHOR IS _NOT_ 
-# RESPONSIBLE FOR ANY DAMAGE OR DATA LOSS CAUSED BY IT.
-
-PRGNAM=EMBOSS			
-VERSION=${VERSION:-6.4.0}
-BUILD=${BUILD:-3}
-TAG=${TAG:-_SBo}	
+# Copyright 2011-2012  Petar Petrov, ppetrov@paju.oulu.fi
+# All rights reserved.
+#
+# Redistribution and use of this script, with or without modification, is
+# permitted provided that the following conditions are met:
+#
+# 1. Redistributions of this script must retain the above copyright
+#    notice, this list of conditions and the following disclaimer.
+#
+#  THIS SOFTWARE IS PROVIDED BY THE AUTHOR "AS IS" AND ANY EXPRESS OR IMPLIED
+#  WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF
+#  MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED.  IN NO
+#  EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL,
+#  SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO,
+#  PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS;
+#  OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY,
+#  WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR
+#  OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF
+#  ADVISED OF THE POSSIBILITY OF SUCH DAMAGE
+
+PRGNAM=EMBOSS
+VERSION=${VERSION:-6.5.7}
+BUILD=${BUILD:-1}
+TAG=${TAG:-_SBo}
 
 if [ -z "$ARCH" ]; then
   case "$( uname -m )" in
@@ -49,9 +63,6 @@ rm -rf $PRGNAM-$VERSION
 tar xvf $CWD/$PRGNAM-$VERSION.tar.gz
 cd $PRGNAM-$VERSION
 
-# Apply EMBOSS bug-fix set 1-24. Thanks to Alan at ajb@ebi.ac.uk!
-patch -p1 < $CWD/patch-1-24
-
 chown -R root:root .
 find . \
  \( -perm 777 -o -perm 775 -o -perm 711 -o -perm 555 -o -perm 511 \) \
@@ -59,6 +70,9 @@ find . \
  \( -perm 666 -o -perm 664 -o -perm 600 -o -perm 444 -o -perm 440 -o -perm 400 \) \
  -exec chmod 644 {} \;
 
+# We do not need to check for EMBOSS updates
+sed -i "/embossupdate/d" Makefile.am Makefile.in
+
 CFLAGS="$SLKCFLAGS" \
 CXXFLAGS="$SLKCFLAGS" \
 ./configure \
@@ -67,6 +81,7 @@ CXXFLAGS="$SLKCFLAGS" \
   --with-x \
   --sysconfdir=/etc \
   --localstatedir=/var \
+  --docdir=/usr/doc/$PRGNAM-$VERSION \
   --build=$ARCH-slackware-linux
 
 make
@@ -77,14 +92,14 @@ find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | gr
 
 mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
 cp -a \
-  AUTHORS ChangeLog COPYING FAQ INSTALL NEWS README THANKS \
+  AUTHORS ChangeLog COPYING FAQ INSTALL LICENSE NEWS README THANKS \
   $PKG/usr/doc/$PRGNAM-$VERSION
 cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild
 cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References
 
 mkdir -p $PKG/usr/share/{applications,pixmaps}
-cp $CWD/emboss.desktop $PKG/usr/share/applications
-cp $CWD/emboss.png $PKG/usr/share/pixmaps
+cp $CWD/$PRGNAM.desktop $PKG/usr/share/applications
+cp $CWD/$PRGNAM.png $PKG/usr/share/pixmaps
 
 mkdir -p $PKG/install
 cat $CWD/slack-desc > $PKG/install/slack-desc
-- 
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