I am aware of that, everything works fine except this we managed to solve it by modifying the .bashrc like this:

if [ -f ˜/.MyappStartLock ]; then
rm ˜/.MyappStartLock
af-sb-init.sh stop
af-sb-init.sh start
run-standalone.sh Myapp
logout
fi

and then start it like this from our tool :

touch /scratchbox/users/maemo/home/maemo/.MyappStartLock
Xephyr :2 -host-cursor -screen 800x480x16 -dpi 96 -ac -kb > /dev/null&
scratchbox

but we don't like the idea to modify the .bashrc . It would be great if there would be an another solution for that. Thanks!