7 ./search_bonds $1 $2 $3 $4 | grep ' # atoms' | while read a b c d e f; do
9 ca=`echo $c | awk -F/ '{ print $1}'`
10 ma=`echo $d | awk -F/ '{ print $1}'`
12 ./visual_atoms $1 $ca 12.0 5.429 $ma | \
13 grep ^[A-Z] > $5/va_${count}.xyz
17 if [ "$ret" = "0" ]; then
18 ./visualize -w 640 -h 480 -d $5/va_${count}.xyz \
19 -nll -0.76 -0.76 -0.76 -fur 0.76 0.76 0.76 \
20 -b -0.5 -0.5 -0.5 0.5 0.5 0.5 \
21 -c -0.2 -2.0 0.6 -L 0 0 -0.1 \