Mark DePristo aeab932c63 Actual working version of unflushing VCFWriter ... -- Uses high-performance local writer backed by byte array that writes the entire VCF line in some write operation to the underlying output stream. -- Fixes problems with indexing of unflushed writes while still allowing efficient block zipping -- Same (or better) IO performance as previous implementation -- IndexingVariantContextWriter now properly closes the underlying output stream when it's closed -- Updated compressed VCF output file		2012-12-13 16:15:08 -05:00
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src/org/broadinstitute/sting	Further related bug fixes to GGA mode in the HC: some variants (especially MNPs) were causing problems because they don't have to start at the current location to match the allele being genotyped. Fixed.	2012-12-12 14:53:02 -05:00
test/org/broadinstitute/sting	Actual working version of unflushing VCFWriter	2012-12-13 16:15:08 -05:00