Chris Hartl 327169b283 Refactor the method that identifies the site overlap type into the type enum class (so it can be used elsewhere potentially). ... Completed todo item: for sites like (eval) 20 12345 A C 20 12345 A AC (comp) 20 12345 A C 20 12345 A ACCC the records will be matched by the presence of a non-empty intersection of alleles. Any leftover records are then paired with an empty variant context (as though the call was unique). This has one somewhat counterintuitive feature, which is that normally (eval) 20 12345 A AC (comp) 20 12345 A ACCC would be classified as 'ALLELES_DO_NOT_MATCH' (and not counted in genotype tables), in the presence of the SNP, they're counted as EVAL_ONLY and TRUTH_ONLY respectively. + integration test		2013-01-15 12:13:45 -05:00
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gatk	Refactor the method that identifies the site overlap type into the type enum class (so it can be used elsewhere potentially).	2013-01-15 12:13:45 -05:00
utils	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00
package-info.java	Updated all JAVA file licenses accordingly	2013-01-10 17:06:41 -05:00