Mark DePristo 46e7370128 this.allele, getAlleles(), and getAltAlleles() now return List not set ... -- Changes associated code throughout the codebase -- Updated necessary (but minimal) UnitTests to reflect new behavior -- Much better makealleles() function in VC.java that enforces a lot of key constraints in VC		2011-10-09 11:45:55 -07:00
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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	this.allele, getAlleles(), and getAltAlleles() now return List not set	2011-10-09 11:45:55 -07:00