Add in option to do dot stage as well from script
Move all reading/writing to files inside try blocks. Prob should use with though...
Rename outputFile(name) to gvFile(name) to distinguish gv from pdf output
Correct shape for initial state particles, also minor edits on formatting
Update .gitignore with lots of annoying ps/eps/txt/gv files
Rename bash script
Some old updates to bash script