Merge pull request #1 from Keverne/master

Added support for multiple scoring functions. Changes are OK, but two changes required after the merge:

- Fix wrong command line message
- Update documentation

Author: brianjimenez

.gitignore

@@ -8,3 +8,6 @@ Cargo.lock
 
 # These are backup files generated by rustfmt
 **/*.rs.bk
+
+# Ignore DDNA source code
+/src/DDNA