Detect differently ordered files in chromsweep and closest. Merged Fisher changes.
Correcting merge conflicts in NewChromsweep.h and .cpp
Updated jaccard unit test to reflect chromsweep change
Cleaned up error message for sort order detection of missing chrom
Fix for bug 150, closest hangs with -d and tie first mode
Added tleonardi's changes for bug 150 re: overlap bases with -split in intersect
changes for request #125: return non-zero on errors.
Bug fixes for closest and bug 155
Merge branch 'master' of https://github.com/nkindlon/bedtools2
Forgot a new test file for closest
More sort order unit tests for chromsweep and closest; bug fixes and minor enhancements
Removed large closest tests from repository
Removed test debugging files from repository
Merge pull request #152 from nkindlon/master

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