Mark DePristo 8b01969762 More code cleanup and optimizations to BCF2 writer ... -- Cleanup a few contracts -- BCF2FieldManager uses new VCFHeader accessors for specific info and format fields -- A few simple optimizations -- VCF header samples stored in String[] in the writer for fast access -- getCalledChrCount() uses emptySet instead of allocating over and over empty hashset -- VariantContextWriterStorage now creates a 1MB buffered output writer, which results in 3x performance boost when writing BCF2 files -- A few editorial comments in VCFHeader		2012-06-14 16:42:38 -04:00
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config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	More code cleanup and optimizations to BCF2 writer	2012-06-14 16:42:38 -04:00
test	Final support for variable length lists of strings in BCF2	2012-06-14 16:42:38 -04:00