1. Reset BED.strand to be string instead of char in the interest of generality.
	2. Fixed bug in genomeCoverageBed where NULL entries where genome summaries were err. reported with -bga.
	3. Fixed bug in closestBed where NULL entries were err. reported when BED > 6.
	4. Standardized the Open, Get, Close idiom per improvements from Gordon Assaf.
	5. Add "split" logic to bamToBed.

	1. Eliminated redundant code.
	2. Allowed writing to stdout.

	1. Added the -wo option to intersectBed.
	2. Added the -s option to fastaFromBed.

	1. Fixed bugs in parsing command line booleans in fastaFromBed and maskFastaFromBed
	2. Added tabular output to fastaFromBed

extract beyond the length of a chromosome.

	1. Revised usage to 80 chars
	2. GPL headers
	3. Added new stdin logic
	4. Changed logo.
	5. Revised the usage statement.

	Working on maskFastaFromBed, permuteBed and addFlanksBed

	1. Added strandedness to relevant programs (e.g. intersectBed, mergeBed, etc.)
	2. Moved reportBed and reportBedRange to bedFile.cpp to clean up code
	3. Sped up file parsing.  Added lineFileUtilities.cpp
	4. Added peIntersectBed

	1.  Added a README for installation
	2.  Modified intersectBed and windowBed to call one function for
	    finding overlaps.  This function is now called when reading
	    from cin or from a file.
	3.  Added acknowledgements.
	4.  Corrected the PROGRAM_NAME in coverageBed