ShapeWorks5.0

This release involves a better version of source code for command line based prep tools, shapeworks-run and a new visualization tool. ShapeworksRun5.0 includes many bug fixes and a range of new features including adaptive time step based optimization, better handling of constraints - cutting planes and spheres and ability to run multiple domains per shape, as the most prominent ones. Sample batch scripts are included for Prep, Run and Post tools.