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148 lines
3.9 KiB
148 lines
3.9 KiB
#!/bin/bash
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# Build script for Slackware
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# Copyright (C) 2009-2012,2018,2020 Damien Goutte-Gattat
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#
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# Redistribution and use of this script, with or without modifications,
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# is permitted provided that the following conditions are met:
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#
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# 1. Redistributions of this script must retain the above copyright
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# notice, this list of conditions and the following disclaimer.
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#
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# THIS SOFTWARE IS PROVIDED BY THE AUTHOR ``AS IS'' AND ANY EXPRESS OR
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# IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED
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# WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
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# DISCLAIMED. IN NO EVENT SHALL THE AUTHOR BE LIABLE FOR ANY DIRECT,
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# INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES
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# (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
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# SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION)
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# HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT,
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# STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING
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# IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
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# POSSIBILITY OF SUCH DAMAGE.
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#
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# Contact: Damien Goutte-Gattat <dgouttegattat@incenp.org
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#
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# Latest EMBOSS sourcecode is available at:
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# <http://emboss.open-bio.org/>.
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#
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# Recommends: ap/postgresql, d/openjdk8
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# Source package infos
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NAMESRC=${NAMESRC:-EMBOSS}
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VERSION=${VERSION:-6.6.0}
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ARCHIVE=${ARCHIVE:-$NAMESRC-$VERSION.tar.gz}
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WGET=${WGET:-ftp://emboss.open-bio.org/pub/EMBOSS/$ARCHIVE}
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# Build infos
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NAMEPKG=${NAMEPKG:-EMBOSS}
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BUILD=${BUILD:-2GGD}
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ARCH=${ARCH:-$(uname -m | sed 's/^i.86$/i486/;s/^arm.*/arm/')}
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EXT=${EXT:-txz}
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JOBS=${JOBS:-1}
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# Directories
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TMP=${TMP:-/tmp}
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OUT=${OUT:-$TMP/build}
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PKG=${PKG:-$OUT/$NAMEPKG}
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CWD=$(pwd)
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set -e
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# Sanity checks
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if [ $UID -eq 0 ]; then
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echo "You should NOT run this script as ROOT!"
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exit 1
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fi
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if [ ! -d $TMP ]; then
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echo "$TMP does not exist or is not a directory!"
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exit 1
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fi
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# Compilation flags
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LIBDIRSUFFIX=""
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case "$ARCH" in
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i?86)
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CPUOPT="-O2 -march=$ARCH -mtune=i686"
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;;
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x86_64)
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CPUOPT="-O2 -fPIC"
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LIBDIRSUFFIX="64"
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;;
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*)
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CPUOPT="-O2"
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;;
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esac
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# Get and verify the source archive
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if [ ! -r $ARCHIVE ]; then
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wget -c -O $ARCHIVE.part "$WGET"
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mv $ARCHIVE.part $ARCHIVE
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fi
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sha256sum -c $ARCHIVE.sha256
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NAME=$(tar ft $ARCHIVE | head -n 1 | cut -d / -f 1)
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# Get REBASE data files
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if [ ! -r rebase.tar.gz ]; then
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wget -O embossre.enz http://rebase.neb.com/rebase/link_emboss_e
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wget -O embossre.sup http://rebase.neb.com/rebase/link_emboss_s
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wget -O embossre.ref http://rebase.neb.com/rebase/link_emboss_r
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tar czf rebase.tar.gz embossre.{enz,sup,ref}
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rm embossre.{enz,sup,ref}
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fi
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# Compile
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cd $TMP
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echo "Building $ARCHIVE..."
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tar xf $CWD/$ARCHIVE
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cd $NAME
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# Disable pointless execution of embossupdate during make install
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patch -p 1 < $CWD/EMBOSS-6.5.7-no-embossupdate.diff
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CFLAGS=$CPUOPT \
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CXXFLAGS=$CPUOPT \
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LDFLAGS="-lexpat" \
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./configure \
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--prefix=/usr \
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--libdir=/usr/lib$LIBDIRSUFFIX \
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--includedir=/usr/include/EMBOSS \
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--disable-dependency-tracking \
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--disable-static \
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--enable-systemlibs \
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--with-java=/usr/lib$LIBDIRSUFFIX/openjdk8/include \
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--with-javaos=/usr/lib$LIBDIRSUFFIX/openjdk8/include/linux
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make -j $JOBS
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make install-strip DESTDIR=$PKG
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# Don't ship .la files
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rm -f $PKG/{,usr}/lib$LIBDIRSUFFIX/*.la
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# Install the documentation
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mkdir -p $PKG/usr/doc/$NAME
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install -m 644 AUTHORS COPYING ChangeLog FAQ LICENSE NEWS \
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README THANKS $PKG/usr/doc/$NAME
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# Install REBASE data
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tar xf $CWD/rebase.tar.gz -C $PKG/usr/share/EMBOSS/data/REBASE
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# Copy slack-desc file
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install -D -m 644 $CWD/slack-desc $PKG/install/slack-desc
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# Add dependency infos
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cat <<EOF > $PKG/install/slack-required
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openjdk8
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postgresql
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EOF
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# Package the tree
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cd $PKG
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mkdir -p $OUT
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PACKAGING="
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chown root:root . -R
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/sbin/makepkg -l y -c n $OUT/$NAMEPKG-$VERSION-$ARCH-$BUILD.$EXT
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rm -rf $PKG
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rm -rf $TMP/$NAME
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"
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if type -p fakeroot ; then
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echo "$PACKAGING" | fakeroot
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else
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su -c "$PACKAGING"
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fi
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