Mark DePristo b5e843f8f0 Approaching the end for the new RodBinding system ... -- support for explicit naming of bindings (-X:name,type x) -- support for automatic naming of bindings in lists (-X:vcf foo.vcf -X:vcf bar.vcf will generate internal names X and X2) -- ParserEngineUnitTest expanded to cover all of the Rodbinding cases -- RodBindingUnitTest tests all of the low-level accessors -- Parsing engine throws UserExceptions when bad bindings are provided on the command line		2011-08-02 22:00:06 -04:00
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net/sf	Removed annoying FastaSequenceIndexBuilderProgressListener infrastructure that was just a boolean switch on whether to print progress or not.	2011-07-27 22:06:23 -04:00
org/broadinstitute/sting	Approaching the end for the new RodBinding system	2011-08-02 22:00:06 -04:00