If you have a registered version of WinMLS you can see how to run WinMLS form batch by opening MS-DOS and go to the WinMLS folder. To display the help text type:
WinMLS [/M MeasSetupfile] [/R] [/F FileName]
/M: MeasSetupfile is the short name of a measurement setup to load.\n"
/R: If RunAndExitAfterMeas is set then the measurement start immediately and exits afterwards
/F: Filename is the name of a file to save
Example: WinMLS /M “Room Acoustics_Reverberation Time” /F RAC_Filename /R\n
This example will load the settings in the measurement setup file Room Acoustics_Reverberation Time, perform a measurement and save the result as RAC_Filename before it exits.
Note that in order to automatically save the measurement, Automatic saving has to be selected in Measurement->Measurement Settings... as shown below.