David Roazen 1213b2f8c6 SnpEff 2.0.2 support ... -Rewrote SnpEff support in VariantAnnotator to support the latest SnpEff release (version 2.0.2) -Removed support for SnpEff 1.9.6 (and associated tribble codec) -Will refuse to parse SnpEff output files produced by unsupported versions (or without a version tag) -Correctly matches ref/alt alleles before annotating a record, unlike the previous version -Correctly handles indels (again, unlike the previous version		2011-09-14 07:09:47 -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	SnpEff 2.0.2 support	2011-09-14 07:09:47 -04:00