Karthik Gururaj 018e9e2c5f 1. Cleaned up code ... 2. Split into DebugJNILoglessPairHMM and VectorLoglessPairHMM with base class JNILoglessPairHMM. DebugJNILoglessPairHMM can, in principle, invoke any other child class of JNILoglessPairHMM. 3. Added more profiling code for Java parts of LoglessPairHMM		2014-01-26 19:18:12 -08:00
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src/org/broadinstitute/sting	1. Cleaned up code	2014-01-26 19:18:12 -08:00
test/org/broadinstitute/sting	Allow for additional input data to be used in the VQSR for clustering but don't carry it forward into the output VCF file.	2014-01-02 14:46:04 -05:00