depristo 00491fcd2e Only see not writing GATK Run Report if you are running with debug enabled ... git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4437 348d0f76-0448-11de-a6fe-93d51630548a		2010-10-06 14:09:21 +00:00
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alignment	Final step in error refactoring. GATK exception is now ReviewedStingException, indicating that this exception is really what one wants. Only use this exception when you have thought about StingException vs. UserException and made a real decision.	2010-09-12 15:07:38 +00:00
analyzecovariates	All exceptions thrown by the GATK have been reviewed and UserErrors replaced where appropriate. Shazam. Another check-in will remove the GATKException and restore the StingException.	2010-09-10 15:25:30 +00:00
commandline	Fix typo and tell people not to post user errors	2010-10-03 18:58:03 +00:00
datasources/pipeline	Updated from SnakeYAML 1.6 to 1.7.	2010-09-22 19:47:49 +00:00
gatk	Only see not writing GATK Run Report if you are running with debug enabled	2010-10-06 14:09:21 +00:00
oneoffprojects	Next iteration on new UG framework:	2010-09-30 21:33:59 +00:00
playground	reverting an accidental change from the dindel merge	2010-10-06 03:08:09 +00:00
queue	For enums generate the full path to the Enum type to avoid collisions such as enum Model and enum Model used in the same class.	2010-09-29 05:28:59 +00:00
utils	A mechanism for supplying attribution text -- mainly useful for external	2010-10-01 18:31:19 +00:00