-# check to see if $1 is set and is not start of other cli set args
-OPEN=""
-if [ -n "$ARG1" -a "$ARG1" = "${ARG1#-}" ]; then
- # first argument exists and does not start with a "-"
- OPEN="-open"
-fi
-
-java -jar /usr/share/java/jalview.jar $OPEN "$@"