Mark DePristo 5632c13bf2 Resolves GSA-681 / Compressed VCF.gz output is too big because of unnecessary call to flush(). ... -- Now compressed output VCFs are properly blocked compressed (i.e., they are actually smaller than the uncompressed VCF)		2012-12-12 10:27:07 -05:00
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bqsr	Updating tests to handle bad validation data files (that used the wrong qual score encoding); overrides push from stable.	2012-12-03 22:01:07 -05:00
compression/reducereads	Co-Reduction implementation in ReduceReads	2012-11-14 10:33:21 -05:00
genotyper	Resolves GSA-681 / Compressed VCF.gz output is too big because of unnecessary call to flush().	2012-12-12 10:27:07 -05:00
haplotypecaller	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.	2012-12-10 14:47:04 -05:00