whitespace
rename VcfGenotypeMatcher::finalize()

it's now reportCounts(std::ostream&)
remove unused var
make stuff const!
VcfGenotypeMatcher: reorder constructor args
bugfix: vcf-compare was using entry indices instead of file indices
vcf-compare: when constructing output names,

consider only the leaf part of the filename. i'll need to come back
later and enforce that these are unique.