compareBed.sh: Error in stats calculation

[renewiegandt]

The log-file from compareBed.sh prints: "number of footprints after subtract: 704669"
The output from compareBed.sh only contains 375342 footprints.

[renewiegandt]

compareBed.sh counts the footprints of the wrong file.
The number it returns is the number of footprints before the smaller footprints are sorted out.
It needs to return another number of the remaining footprints.

[renewiegandt]

Fixed by #79