academic/arka: Added (A GUI for genpak)
Signed-off-by: Niels Horn <niels.horn@slackbuilds.org>
This commit is contained in:
Petar Petrov
Niels Horn
parent
5d75fedb2e
commit
d4353e6dec
|
|
@ -0,0 +1,6 @@
|
|||
Arka is a program that serves as a graphical interface for the tools
|
||||
from the GenPak (GP) package and has some interesting functions on
|
||||
its own. Main scope of Arka is the manipulation and visualisation of
|
||||
DNA / RNA / protein sequences.
|
||||
|
||||
This requires genpak, available on SlackBuilds.org
|
||||
|
|
@ -0,0 +1,97 @@
|
|||
#!/bin/sh
|
||||
|
||||
# Slackware build script for arka
|
||||
# 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=arka
|
||||
VERSION=${VERSION:-0.11}
|
||||
BUILD=${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=${OUTPUT:-/tmp}
|
||||
|
||||
if [ "$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 $PRGNAM-$VERSION
|
||||
tar xvf $CWD/$PRGNAM-$VERSION.tgz
|
||||
cd $PRGNAM-$VERSION
|
||||
# Remove the pre-existing binary, just in case
|
||||
rm arka
|
||||
chown -R root:root .
|
||||
find . \
|
||||
\( -perm 777 -o -perm 775 -o -perm 711 -o -perm 555 -o -perm 511 \) \
|
||||
-exec chmod 755 {} \; -o \
|
||||
\( -perm 666 -o -perm 664 -o -perm 600 -o -perm 444 -o -perm 440 -o -perm 400 \) \
|
||||
-exec chmod 644 {} \;
|
||||
|
||||
# A few path fixes to the Makefile, although it will work anyways.
|
||||
sed "s:/usr/X11R6/bin:/usr/bin:" -i Makefile
|
||||
sed "s:/usr/X11R6/man:/usr/man:" -i Makefile
|
||||
sed "s:/usr/doc/packages:/usr/doc/arka-0.11:" -i Makefile
|
||||
sed "s:/usr/X11R6/include/X11/pixmaps:/usr/share/pixmaps:" -i Makefile
|
||||
|
||||
# Use our CFLAGS
|
||||
sed -i "/^CFLAGS/s/=/+=/" src/Makefile
|
||||
|
||||
CFLAGS="$SLKCFLAGS" \
|
||||
CXXFLAGS="$SLKCFLAGS" \
|
||||
make
|
||||
|
||||
# The Makefile does not support "make DESTDIR install". So...
|
||||
install -D -m755 arka $PKG/usr/bin/arka
|
||||
install -D -m644 arkarc $PKG/etc/arkarc.new
|
||||
install -D -m644 arka.1.gz $PKG/usr/man/man1/arka.1.gz
|
||||
|
||||
# Menu item and icon
|
||||
mkdir -p $PKG/usr/share/{applications,pixmaps}
|
||||
cp $CWD/arka.desktop $PKG/usr/share/applications
|
||||
cp ./icons/arka_100x100.xpm $PKG/usr/share/pixmaps/arka.xpm
|
||||
|
||||
find $PKG -print0 | xargs -0 file | grep -e "executable" -e "shared object" | grep ELF \
|
||||
| cut -f 1 -d : | xargs strip --strip-unneeded 2> /dev/null || true
|
||||
|
||||
mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION
|
||||
cp -a \
|
||||
README.TXT LICENSE.TXT CHANGES.TXT TODO.TXT \
|
||||
$PKG/usr/doc/$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
|
||||
cat $CWD/doinst.sh > $PKG/install/doinst.sh
|
||||
|
||||
cd $PKG
|
||||
/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.${PKGTYPE:-tgz}
|
||||
|
|
@ -0,0 +1,6 @@
|
|||
[Desktop Entry]
|
||||
Categories=Education;
|
||||
Exec=arka
|
||||
Icon=arka.xpm
|
||||
Name=Arka GP
|
||||
Type=Application
|
||||
|
|
@ -0,0 +1,10 @@
|
|||
PRGNAM="arka"
|
||||
VERSION="0.11"
|
||||
HOMEPAGE="http://www.bioinformatics.org/genpak/"
|
||||
DOWNLOAD="http://www.bioinformatics.org/genpak/download/arka-0.11.tgz"
|
||||
MD5SUM="7cedbe3aeb7e71700beb6d4180f60f7c"
|
||||
DOWNLOAD_x86_64=""
|
||||
MD5SUM_x86_64=""
|
||||
MAINTAINER="Petar Petrov"
|
||||
EMAIL="ppetrov@paju.oulu.fi"
|
||||
APPROVED="Niels Horn"
|
||||
|
|
@ -0,0 +1,18 @@
|
|||
config() {
|
||||
NEW="$1"
|
||||
OLD="$(dirname $NEW)/$(basename $NEW .new)"
|
||||
# If there's no config file by that name, mv it over:
|
||||
if [ ! -r $OLD ]; then
|
||||
mv $NEW $OLD
|
||||
elif [ "$(cat $OLD | md5sum)" = "$(cat $NEW | md5sum)" ]; then
|
||||
# toss the redundant copy
|
||||
rm $NEW
|
||||
fi
|
||||
# Otherwise, we leave the .new copy for the admin to consider...
|
||||
}
|
||||
|
||||
config etc/arkarc.new
|
||||
|
||||
if [ -x /usr/bin/update-desktop-database ]; then
|
||||
/usr/bin/update-desktop-database -q usr/share/applications >/dev/null 2>&1
|
||||
fi
|
||||
|
|
@ -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------------------------------------------------------|
|
||||
arka: arka (A GUI for genpak)
|
||||
arka:
|
||||
arka: Arka is a program that serves as a graphical interface for the
|
||||
arka: programs from the GenPak (GP) package and has some interesting
|
||||
arka: functions on its own.
|
||||
arka:
|
||||
arka:
|
||||
arka:
|
||||
arka:
|
||||
arka:
|
||||
arka: Home: http://www.bioinformatics.org/genpak/
|
||||
Loading…
Reference in New Issue