Updated some files to handle runinput files with paths

- replace calls to eval(runinputfile) with opt=VB7_getOpts(runinputfile).
- updated files:
  VB7/VB7_getOptions.m
  VB7/VB7_batch_manage.m
  VB7/VB7_batch_run.m
  VB7/VB7_getTrjData.m