kshakir 213cc00abe Refactored argument matching to support other plugins in addition to file lists. ... Added plugin support for sending Queue status messages. Argument parsing can store subclasses of java.io.File, for example RemoteFile.		2012-10-15 15:10:45 -04:00
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ArgumentMatchSiteUnitTest.java	Refactored argument matching to support other plugins in addition to file lists.	2012-10-15 15:10:45 -04:00
ArgumentMatchSourceUnitTest.java	Refactored argument matching to support other plugins in addition to file lists.	2012-10-15 15:10:45 -04:00
InvalidArgumentIntegrationTest.java	- New UserExceptions added for when ReadFilters or Walkers specified on the command line are not found. When -rf xxxx cannot find the class corresponding to xxxx, all read filters are printed in a better formatted way, with links to their gatk docs.	2012-09-04 16:41:44 -04:00
ParsingEngineUnitTest.java	Cleanup of VCF header lines and constants, BCF2 bugfixes	2012-06-21 15:16:31 -04:00
RodBindingUnitTest.java	Adding missing import	2011-08-04 21:57:00 -04:00