Mark DePristo 69e418c3f5 Intermediate commit for v3 NanoScheduling algorithm ... -- This version works but it blocks much more than I'd expect on input. Merging v2 and v3 to make v4 now		2012-09-19 17:03:12 -04:00
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commandline	Revert "Separated out the DoC calculations from the XHMM pipeline, so that CalcDepthOfCoverage can be used for calculating joint coverage on a per-base accounting over multiple samples (e.g., family samples)"	2012-09-10 15:52:39 -04:00
gatk	A couple of bug-fixy changes.	2012-09-11 23:01:00 -04:00
jna	Updated hard limit MathUtils.MAXN number of samples from 11,000 to 50,000.	2012-05-29 11:18:22 -04:00
utils	Intermediate commit for v3 NanoScheduling algorithm	2012-09-19 17:03:12 -04:00
BaseTest.java	Extensive unit tests, contacts, and documentation for RecalDatum	2012-07-31 08:11:03 -04:00
MD5DB.java	Finalizing BCF2 mark III commit	2012-06-21 15:16:27 -04:00
MD5Mismatch.java	Final updates to integration tests for BCF2	2012-05-24 10:58:59 -04:00
StingTextReporter.java	…
WalkerTest.java	Renaming -cnt to -nct for consistency	2012-09-05 21:13:19 -04:00