Fixed bug157: ties not prevented by -iu/-id

detect different sort order and chrom name conventions in sorted and unsorted intersect, and closest. Merged Fisher changes and other arq5x  changes.

Corrected error in reporting amount of overlap (issue #150)

[BUG] fix for issue #140. chromosome boundaries not properly handled when slop values are negative. Thanks to @acdaugherty for the catch.

update NewChromSweep signature to support fisher. May have conflicts with @nkindlon's upcoming changes. Will resolve then.

fix formatting of fisher table