diff options
author | Petar Petrov <ppetrov@paju.oulu.fi> | 2011-09-03 09:17:14 -0300 |
---|---|---|
committer | Niels Horn <niels.horn@slackbuilds.org> | 2011-09-03 09:17:14 -0300 |
commit | d4353e6dec3841394462e0c35de336b52e63d3b5 (patch) | |
tree | 447bde63333a84e0feb38f9d466c49b37da3c02c | |
parent | 5d75fedb2ed7fa7929c48505779832561ab915fc (diff) |
academic/arka: Added (A GUI for genpak)
Signed-off-by: Niels Horn <niels.horn@slackbuilds.org>
-rw-r--r-- | academic/arka/README | 6 | ||||
-rw-r--r-- | academic/arka/arka.SlackBuild | 97 | ||||
-rw-r--r-- | academic/arka/arka.desktop | 6 | ||||
-rw-r--r-- | academic/arka/arka.info | 10 | ||||
-rw-r--r-- | academic/arka/doinst.sh | 18 | ||||
-rw-r--r-- | academic/arka/slack-desc | 19 |
6 files changed, 156 insertions, 0 deletions
diff --git a/academic/arka/README b/academic/arka/README new file mode 100644 index 000000000000..e2f3dd43478d --- /dev/null +++ b/academic/arka/README @@ -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 diff --git a/academic/arka/arka.SlackBuild b/academic/arka/arka.SlackBuild new file mode 100644 index 000000000000..48ee14e6ed39 --- /dev/null +++ b/academic/arka/arka.SlackBuild @@ -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} diff --git a/academic/arka/arka.desktop b/academic/arka/arka.desktop new file mode 100644 index 000000000000..3817a961aa76 --- /dev/null +++ b/academic/arka/arka.desktop @@ -0,0 +1,6 @@ +[Desktop Entry] +Categories=Education; +Exec=arka +Icon=arka.xpm +Name=Arka GP +Type=Application diff --git a/academic/arka/arka.info b/academic/arka/arka.info new file mode 100644 index 000000000000..48683ac39505 --- /dev/null +++ b/academic/arka/arka.info @@ -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" diff --git a/academic/arka/doinst.sh b/academic/arka/doinst.sh new file mode 100644 index 000000000000..72fe083ba0c9 --- /dev/null +++ b/academic/arka/doinst.sh @@ -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 diff --git a/academic/arka/slack-desc b/academic/arka/slack-desc new file mode 100644 index 000000000000..59220170dbb7 --- /dev/null +++ b/academic/arka/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------------------------------------------------------| +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/ |