There is an error in the VC709program.cmd file associated with the VC709program.bat file. Without this change, the .bat file will not be able to find the .MCS file.
Line 6 needs to be changed from:
assignfiletoattachedflash -position 1 -file "../project_1/xt_connectivity_trd.runs/impl_1/VC709.mcs"
assignfiletoattachedflash -position 1 -file "./VC709.mcs"
This will be corrected in a later version of the Targeted Reference Design.
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