add getFullName method to sequence interface to give a UCSC style event.sequence name.  use this for maf output
fix brackets warning
oops
allow genome to be null in sequence for unit tests...
add bed targets option for hal2maf
stringstream error flags dont seem to do what they should.  work around
fix maf2hal to write proper sequence names.  ex a sequence name that was once dm3.chrX is now just chrx. the genome name remains dm3.
Merge branch 'development'