Kristian Cibulskis ab1053e83c It compiles, and produces results! ... fixed NPE when normal contains no reads first integration test (micro) and unit tests, also rename of MuTectHC -> M2 adding in standard GATK license terms incorporated HOSTILE mode to PCR Error Correction removed tumor and normal name parameters and cleaned up internal name handling changes to allow for calling without a matched normal (technically, not true 'tumor-only' calling). Used for panel-of-normals creation additional regression tests, based on DREAM data. Removed accidental addition of TandemRepeatAnnotator to default annotations updated MD5 based on run from GSA4 to fix bamboo issue reverted unneeded visibility changes		2015-03-13 18:28:01 -04:00
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src	It compiles, and produces results!	2015-03-13 18:28:01 -04:00
pom.xml	Faster builds, with updates to documentation generation.	2014-11-05 00:32:23 +08:00