hanna 4617abf1ff Fix bug in the interval sharder in cases where contigs specified in intervals are not present in any supplied BAM file. ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@3268 348d0f76-0448-11de-a6fe-93d51630548a		2010-04-28 20:42:04 +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	Fix bug in the interval sharder in cases where contigs specified in intervals are not present in any supplied BAM file.	2010-04-28 20:42:04 +00:00
test/org/broadinstitute/sting	Better genotype concordance module. Code refactoring for clarity (please see below/after for educational purposes). Now reports variant sensitivity, concordance, and genotype error rate by default. Also aggregates this data across all samples, so you get a per sample and overall stats for each of these in the allSamples row.	2010-04-28 13:10:11 +00:00