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Script to build nightly versions from the devel branches #2

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79 changes: 79 additions & 0 deletions mknightly
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#!/bin/sh

# github repository to pull from
repname=samtools

# directory to do the pull and build
TMPDIR=`readlink -f $TMPDIR`

# directory to install into
PREFIX=`readlink -f $PREFIX`

# clean up TMPDIR
mkdir -p $TMPDIR
rm -fr $TMPDIR/*
cd $TMPDIR

# build each repository in turn
for repo in htslib htslib-plugins samtools bcftools; do
echo Building $repo
git clone [email protected]:$repname/$repo.git
cd $repo
version=`git log -1 --format="%h"`
date=`date +"%d %B %Y"`
rm -fr .git*
sed -i "s/PACKAGE_VERSION[ ][ ]*=.*/PACKAGE_VERSION = $version/" Makefile
if [ -e htsfile.1 ]; then
sed -i "s/^.TH.*/.TH htsfile 1 \"$date\" \"htslib-$version\" \"Bioinformatics tools\"/" htsfile.1
fi
if [ -e tabix.1 ]; then
sed -i "s/^.TH.*/.TH tabix 1 \"$date\" \"htslib-$version\" \"Bioinformatics tools\"/" tabix.1
fi
if [ -e samtools.1 ]; then
sed -i "s/^.TH.*/.TH samtools 1 \"$date\" \"samtools-$version\" \"Bioinformatics tools\"/" samtools.1
fi
if [ -e misc/wgsim.1 ]; then
sed -i "s/^.TH.*/.TH wgsim 1 \"$date\" \"samtools-$version\" \"Bioinformatics tools\"/" misc/wgsim.1
fi
if [ -e README ]; then
sed -i "s/samtools-.*/samtools-$version # Within the unpacked release directory/" README
sed -i "s/htslib-.*/htslib-$version/" README
fi
if [ -e bam.h ]; then
sed -i "s/BAM_VERSION.*/BAM_VERSION \"$version+\"/" bam.h
fi

if [ -e doc/bcftools.1 ]; then
echo make DOC_VERSION=\"$version\" DOC_DATE=`date +"%Y-%m-%d"` docs
make -n DOC_VERSION=\"$version\" DOC_DATE=`date +"%Y-%m-%d"` docs
fi
cd ..
done

# Build htslib plugins
cd $TMPDIR/htslib-plugins
IRODS_HOME=/software/solexa/pkg/irods/4.1.10/usr HTSDIR=$TMPDIR/htslib make
make prefix=$PREFIX/htslib-plugins/nightly install

# Build htslib
cd $TMPDIR/htslib
autoreconf -i
./configure --prefix=$PREFIX/htslib/nightly --enable-libcurl --enable-plugins --with-plugin-dir=$PREFIX/htslib-plugins/nightly/libexec/htslib
make
make test
make install

# Build samtools
cd $TMPDIR/samtools
autoreconf -i
./configure --prefix=$PREFIX/samtools/nightly --with-htslib=$TMPDIR/htslib
make
make test
make install

# Build bcftools
cd $TMPDIR/bcftools
make HTSDIR=$TMPDIR/htslib
make test
make prefix=$PREFIX/bcftools/nightly install