Eric Banks ffaf92f871 Added new functionality to the FastaAlternateReferenceMaker to have it output IUPAC codes for het sites. ... Enable it with the new --useIUPAC argument. Added both unit and integration tests for the new functionality - and fixed up the exising tests once I was in there.		2014-03-12 14:31:57 -04:00
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assembly	Added new utility files used by maven build, including the ant-bridge script.	2014-02-03 13:50:46 -05:00
java	Added new functionality to the FastaAlternateReferenceMaker to have it output IUPAC codes for het sites.	2014-03-12 14:31:57 -04:00
resources	Moved gsalib, R and other resources, Queue GATK extensions generator, Queue version java files.	2014-02-03 13:49:21 -05:00