Refactor AreaRequestHandler initialization.
Convert bed and vcf file parsers from old chunk tree to new binary
search stack.
Remove ChunkThreeHandler.
Preprocess with new LineParsers instead of old chunk parsers.
Fix memory leak.
Fix memory leak in the initialization of IndexedFastaHandlerThread and
show SNPs in coverage also without reads.
Add vcf sort tool and don't lose gene search in initialization.
Add vcf sort tool.
More robust link creation.