Eric Banks 481982202d Fixing the failing RR integration tests. ... * After consulting Tim/David/Mauricio we determined that the md5 changes were due to different encodings of binary arrays in samjdk * However, it made no functional difference to the results (confirmed by Eric) so we agreed to update md5s * Also, the header of one of the test bams was malformed but old picard jar didn't perform checks so it only started failing now * Fixed the bam		2013-02-06 12:40:56 -05:00
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downsampling	-Added Per-Sample Contamination Removal to UnifiedGenotyper: Added an @Advanced option to the StandardCallerArgumentCollection, a file which should	2013-02-04 18:24:36 -05:00
walkers	Fixing the failing RR integration tests.	2013-02-06 12:40:56 -05:00