Ion irradiation has been used to etch or ulter the materials depending on the ion sources and the acceleration energies. High-energy helium ions modify the material properties without any removal. A focused helium ion beam can create a narrow and high-potentiaal barrier for Josephson junctions based on high-temperature cuprate superconductors. My work has demonstrated a simulation result for the barrier dimension, disordered level and stopping depth of ions with support of transport data.