Mark DePristo c97a361b5d Added realistic BandPassFilterUnitTest that ensures quality results for 1000G phase I VCF and NA12878 VCF ... -- Helped ID more bugs in the ActivityProfile, necessitating a new algorithm for popping off active regions. This new algorithm requires that at least maxRegionSize + prob. propagation distance states have been examined. This ensures that the incremental results are the same as you get reading in an entire profile and running getRegions on the full profile -- TODO is to remove incremental search start algorithm, as this is no longer necessary, and nicely eliminates a state variable I was always uncomfortable with		2013-01-27 14:10:08 -05:00
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commandline	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
gatk	Working version of incremental active region traversals	2013-01-23 13:46:00 -05:00
jna	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
utils	Added realistic BandPassFilterUnitTest that ensures quality results for 1000G phase I VCF and NA12878 VCF	2013-01-27 14:10:08 -05:00
AutoFormattingTimeUnitTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
BaseTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
MD5DB.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
MD5Mismatch.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
StingTextReporter.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
TestNGTestTransformer.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
WalkerTest.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00