Eric Banks 64d5bf650e Pulled out some hard-coded values from the read-threading and isActive code of the HC, and made them into a single argument. ... In unifying the arguments it was clear that the values were inconsistent throughout the code, so now there's a single value that is intended to be more liberal in what it allows in (in an attempt to increase sensitivity). Very little code actually changes here, but just about every md5 in the HC integration tests are different (as expected). Added another integration test for the new argument. To be used by David R to test his per-branch QC framework: does this commit make the HC look better against the KB?		2014-01-19 01:15:13 -05:00
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java	Pulled out some hard-coded values from the read-threading and isActive code of the HC, and made them into a single argument.	2014-01-19 01:15:13 -05:00
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