chartl 21a9a717e4 Some minor changes and test: ... - DepthOfCoverage is now by reference (so locus-by-locus output correctly reports zero-coverage bases) - VariantsToVCF now lets you bind variants with any string except intervals and dbsnp (not just NA######) - A PileupWalker integration test on a particularly nasty FHS site - Two second-base annotation related integration tests on that same site + outputs were all hand-validated in matlab; within a certain tolerance for the annotations git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2197 348d0f76-0448-11de-a6fe-93d51630548a		2009-12-01 15:15:54 +00:00
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config	Provide a default logger, some config settings, and some doc updates.	2009-04-29 02:06:05 +00:00
src/org/broadinstitute/sting	Some minor changes and test:	2009-12-01 15:15:54 +00:00
test/org/broadinstitute/sting	Some minor changes and test:	2009-12-01 15:15:54 +00:00