certutil.exe: function failed: SEC_ERROR_LEGACY_DATABASE: The certificate/key database is in an old, unsupported format

This issue is causing due to the path given for -d option

certutil.exe -A -n "My Server Cert" -t "P,," -i "C:\myfolder\server.cer" -d "C:\myfolder\"

change to 

certutil.exe -A -n "My Server Cert" -t "P,," -i "C:\myfolder\server.cer" -d .