Mark DePristo 0e627bce93 Slight update to Path SW parameters. ... -- Decreasing the match value means that we no longer think that ACTG vs. ATCG is best modeled by 1M1D1M1I1M, since we don't get so much value for the middle C match that we can pay two gap open penalties to get it.		2013-04-12 12:43:52 -04:00
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java	Slight update to Path SW parameters.	2013-04-12 12:43:52 -04:00
scala/test/org/broadinstitute/sting/queue/pipeline/examples	Fix improper dependencies in QScripts used by pipeline tests, and attempt to fix the flawed MisencodedBaseQualityUnitTest	2013-02-27 04:45:53 -05:00