Add rebuild option to eda for multiple call on same file use case

[wbuchanan]

When calling the program multiple times on the same file and saving the output to the same directory the dirfile call internally in eda forces the end user to delete all the created files manually. Allow end user to pass the rebuild option directly to the dirfile call to prevent needing to delete all of the files created by previous executions of the program.

[wbuchanan]

Also related to Issue #18