Testing is not yet finished. Something Supreeth and I noticed is that the "Verify that a pop-up appears asking you to confirm if you would like to replace the file." test only works for file names with a file type in the name, not for just the name alone. The file will overwrite and save, but there will be no pop up.
For example saving a track as SaveFile, then saving another track as SaveFile in the same location does not produce a pop-up. It will replace the existing file.
If I save a track as SaveFile.bed, then save another track as SaveFile.bed in the same location it will produce a pop-up.