diff options
Diffstat (limited to 'academic/meme-suite/meme-suite.SlackBuild')
| -rw-r--r-- | academic/meme-suite/meme-suite.SlackBuild | 73 |
1 files changed, 41 insertions, 32 deletions
diff --git a/academic/meme-suite/meme-suite.SlackBuild b/academic/meme-suite/meme-suite.SlackBuild index a21bb00ea1..e8f7f9c521 100644 --- a/academic/meme-suite/meme-suite.SlackBuild +++ b/academic/meme-suite/meme-suite.SlackBuild @@ -1,8 +1,8 @@ -#!/bin/sh +#!/bin/bash # Slackware build script for meme-suite -# Copyright 2017 Petar Petrov slackalaxy@gmail.com +# Copyright 2017-2023 Petar Petrov slackalaxy@gmail.com # All rights reserved. # # Redistribution and use of this script, with or without modification, is @@ -22,11 +22,15 @@ # OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF # ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. +cd $(dirname $0) ; CWD=$(pwd) + PRGNAM=meme-suite -SRCNAM=meme -VERSION=${VERSION:-4.12.0} +VERSION=${VERSION:-5.5.4} BUILD=${BUILD:-1} TAG=${TAG:-_SBo} +PKGTYPE=${PKGTYPE:-tgz} + +SRCNAM=meme if [ -z "$ARCH" ]; then case "$( uname -m )" in @@ -36,7 +40,14 @@ if [ -z "$ARCH" ]; then esac fi -CWD=$(pwd) +# If the variable PRINT_PACKAGE_NAME is set, then this script will report what +# the name of the created package would be, and then exit. This information +# could be useful to other scripts. +if [ ! -z "${PRINT_PACKAGE_NAME}" ]; then + echo "$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE" + exit 0 +fi + TMP=${TMP:-/tmp/SBo} PKG=$TMP/package-$PRGNAM OUTPUT=${OUTPUT:-/tmp} @@ -60,9 +71,9 @@ set -e rm -rf $PKG mkdir -p $TMP $PKG $OUTPUT cd $TMP -rm -rf ${SRCNAM}_${VERSION} -tar xvf $CWD/${SRCNAM}_${VERSION}.tar.gz -cd ${SRCNAM}_${VERSION} +rm -rf ${SRCNAM}-${VERSION} +tar xvf $CWD/${SRCNAM}-${VERSION}.tar.gz +cd ${SRCNAM}-${VERSION} chown -R root:root . find -L . \ \( -perm 777 -o -perm 775 -o -perm 750 -o -perm 711 -o -perm 555 \ @@ -70,54 +81,52 @@ find -L . \ \( -perm 666 -o -perm 664 -o -perm 640 -o -perm 600 -o -perm 444 \ -o -perm 440 -o -perm 400 \) -exec chmod 644 {} \; -# Fix a few paths -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" Makefile.in -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/css/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/images/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/js/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/examples/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/examples/compute_prior_dist_example_output_files/Makefile.* -sed -i "s:share/doc:doc/$PRGNAM-$VERSION/doc/:g" doc/examples/sample_opal_scripts/Makefile.* -sed -i "s:\\$(libdir)/perl:&/vendor_perl:g" scripts/Makefile.* -sed -i "s:\\$(libdir)/python:$(libdir)/python2.7/site-packages:g" scripts/Makefile.* +# Change name from "meme" to "meme-suite" +sed -i "s:PACKAGE_NAME='meme':PACKAGE_NAME='meme-suite':" configure + +# Do not append the package version to folder names +find . -name "Makefile.*" -exec \ +sed -i 's:${PACKAGE_NAME}-${PACKAGE_VERSION}:${PACKAGE_NAME}:g' {} \; + +# Sometimes the brackets are not curly +find . -name "Makefile.*" -exec \ +sed -i 's:$(PACKAGE_NAME)-${PACKAGE_VERSION}:$(PACKAGE_NAME):g' {} \; + +# Documentation should go to docdir not datadir +sed -i 's:${datadir}/${PACKAGE_NAME}:${docdir}:g' doc/Makefile.* + +# Make empty folders for the databases +mkdir -p $PKG/var/lib/$PRGNAM/{fasta_databases,gomo_databases,motif_databases,tgene_databases} ./configure \ --prefix=/usr \ --libdir=/usr/lib${LIBDIRSUFFIX} \ --docdir=/usr/doc/$PRGNAM-$VERSION \ --with-url="http://meme-suite.org" \ - --datarootdir=/usr/share/$PRGNAM/data \ - --sysconfdir=/usr/share/$PRGNAM/etc \ + --datarootdir=/usr/share \ + --libexecdir=/usr/libexec \ --localstatedir=/var \ + --mandir=/usr/man \ --with-db=/var/lib/$PRGNAM \ - --with-logs=/var/log/$PRGNAM \ --with-temp=/tmp -# CFLAGS should be specified here, otherwise they are not accepted make CFLAGS="$SLKCFLAGS -std=gnu89" - -# The tests are recommended, but take quite some time. Be patient or comment out the line below. -# Also, some tests fail on a 32bit system, therefore it is listed as unsupported. If you find a -# fix, let me know. -make test make install DESTDIR=$PKG 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 -# The databases directory should contain folders for motif, gomo and fasta databases -mkdir -p $PKG/var/lib/$PRGNAM/{motif_databases,gomo_databases,fasta_databases} - mkdir -p $PKG/usr/doc/$PRGNAM-$VERSION cp -a \ AUTHORS COPYING INSTALL README \ $PKG/usr/doc/$PRGNAM-$VERSION cat $CWD/$PRGNAM.SlackBuild > $PKG/usr/doc/$PRGNAM-$VERSION/$PRGNAM.SlackBuild cat $CWD/References > $PKG/usr/doc/$PRGNAM-$VERSION/References +cat $CWD/README.TESTS > $PKG/usr/doc/$PRGNAM-$VERSION/README.TESTS +cat $CWD/README.DATABASES > $PKG/usr/doc/$PRGNAM-$VERSION/README.DATABASES 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} +/sbin/makepkg -l y -c n $OUTPUT/$PRGNAM-$VERSION-$ARCH-$BUILD$TAG.$PKGTYPE |