#!/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 ]
