1. A method for correcting overlay error on a substrate comprising: performing a measurement process in a metrology tool on a device film layer deposited on the substrate to obtain a substrate distortion map or an overlay error map; identifying an area of the device film layer of the substrate, based on the substrate distortion map or the overlay error map, having a localized stress profile; determining doping parameters to correct overlay error or substrate distortion by selecting an ion species configured to increase or decrease the localized stress profile; providing a doping recipe to a doping apparatus based on the doping parameters determined to correct substrate distortion or overlay error by modulating a film stress profile of the area having the localized stress profile; performing a doping treatment process to implant a same type of ion as present in a device film layer of the substrate using the determined doping repair recipe to increase stress uniformity across the substrate and improve alignment precision for a subsequent lithographic exposure process; and coating a photoresist layer on the substrate and performing the lithographic exposure process after the doping treatment process.