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Do you want to change the serial number string with a batch file? In the iic files of the FX2 I did this simply by search and replace by a small c program. I think this is also possible with the img file. I tested this with an older SDK and the firmware was correctly downloaded and executed even if I did not adjust the checksum.
But I have to change not only the serial number - descriptor but also a device-version or even a user-changeable descriptor where i don't know the previous content so wouldn't know for what I have to search.