middle of refactoring into libraries
added progress bar and added getopt::euclid and fixed LWP download. still not working state
got to the point that ini files are being generated. next make sure they are correct
refactored and cleaned up xml parsing
removed submission files
Fixed the code to the point that the files are being fully generated and scheduled. Need to check output for correctness
finished making changes. I now need to varifiy that the changes are consistently creating the right results
trying to merge
Fixed bugs - looks a lot better
cleaned up loose ends - fixed bugs
Removing generated file
Merge pull request #13 from SeqWare/feature/aw-refactor

Feature/aw refactor