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#!/bin/sh
# autopkgtest check: Run example test data through AUGUSTUS
# Author: Sascha Steinbiss <sascha@steinbiss.name>
set -e
ORIGDIR=$(pwd)
DATADIR=$ORIGDIR/debian/tests/
WORKDIR=$(mktemp -d)
trap "rm -rf $WORKDIR" 0 INT QUIT ABRT PIPE TERM
cd $WORKDIR
augustus --species=human --UTR=on $ORIGDIR/examples/example.fa | tee out.gff3
[ -s out.gff3 ]
augustus --species=human --hintsfile=$ORIGDIR/examples/hints.gff \
--extrinsicCfgFile=/usr/share/augustus/config/extrinsic/extrinsic.MPE.cfg \
$ORIGDIR/examples/example.fa | tee out2.gff3
[ -s out2.gff3 ]
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