for i in  01
do
cd PDB/PDB$i
rm prm_1.crd  prm_1.pdb  prm_1.top
/prog/amber9/exe/tleap -f leaprc.ff03 -s -f leap_1_MNK.inp
mv leap.log leap_1.log
/prog/amber9/exe/tleap -f leaprc.ff03 -s -f leap_2_MNK.inp
mv leap.log leap_2.log
cd ../../
echo tleap finished for structure 1 !
done