#!/bin/ksh
#
# Description:
#   Test Dotter in nucleotide->protein mode, using the reverse-complemented version of the 
#   reference sequence. Also tests starting up in HSP mode.
#
# Results:
#   Dotter starts up showing HSPs. Enable the pixelmap from the View menu to see if the alignments
#   in the calculated dot-plot match the positions of the HSPs. HSPs for both strands will be shown,
#   but the pixelmap will only show matches for the reverse strand.
#

RC=0

test_name=`basename $0`
test_dir=`dirname $0`
data_dir=$test_dir/../../../data

dotter -q 246634 -r -H -f $data_dir/chr4_protein_align.gff $data_dir/chr4_ref_seq.fasta $data_dir/Q9H8G1.fasta 

# If there was an error, set RC
if [ $? -ne 0 ] 
then
  RC=1
fi

exit $RC