First thing, please download the latest validator v1.4
It sounds like you want to use the CLI (command line interface) and not the gui. Please visit the documentation tab for instructions on how to call OpenCDISC from the command line.
http://www.opencdisc.org/projects/validator/using-opencdisc-validator
Read the section "To use the OpenCDISC Validator CLI (command line interface)"
You will also be interested in item 7. Sample Commands