Mark DePristo 3afbc50511 More BCF2 improvements ... -- Refactored setting of contigs from VCFWriterStub to VCFUtils. Necessary for proper BCF working -- Added VCFContigHeaderLine that manages the order for sorting, so we now emit contigs in the proper order. -- Cleaned up VCFHeader operations -- BCF now uses the right header files correctly when encoding / decoding contigs -- Clean up unused tools -- Refactored header parsing routines to make them more accessible -- More minor header changes from Intellij		2012-05-24 10:56:52 -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 BCF2 improvements	2012-05-24 10:56:52 -04:00
test	Killed two more resource leakers that ignored requests to close wrapped file pointers, and added Unit Tests for each.	2012-05-21 15:41:56 -04:00