David Roazen f6a22e5f50 ExperimentalReadShardBalancerUnitTest was being skipped; fixed ... TestNG skips tests when an exception occurs in a data provider, which is what was happening here. This was due to an AWFUL AWFUL use of a non-final static for ReadShard.MAX_READS. This is fine if you assume only one instance of SAMDataSource, but with multiple tests creating multiple SAMDataSources, and each one overwriting ReadShard.MAX_READS, you have a recipe for problems. As a result of this the test ran fine individually, but not as part of the unit test suite. Quick fix for now to get the tests running -- this "mutable static" interface should really be refactored away though, when I have time.		2012-09-22 01:56:39 -04:00
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commandline	Revert "Separated out the DoC calculations from the XHMM pipeline, so that CalcDepthOfCoverage can be used for calculating joint coverage on a per-base accounting over multiple samples (e.g., family samples)"	2012-09-10 15:52:39 -04:00
gatk	ExperimentalReadShardBalancerUnitTest was being skipped; fixed	2012-09-22 01:56:39 -04:00
jna	Updated hard limit MathUtils.MAXN number of samples from 11,000 to 50,000.	2012-05-29 11:18:22 -04:00
utils	Better run a shorter test -- should take 3 minutes total	2012-09-20 18:54:14 -04:00
BaseTest.java	Extensive unit tests, contacts, and documentation for RecalDatum	2012-07-31 08:11:03 -04:00
MD5DB.java	Finalizing BCF2 mark III commit	2012-06-21 15:16:27 -04:00
MD5Mismatch.java	Final updates to integration tests for BCF2	2012-05-24 10:58:59 -04:00
StingTextReporter.java	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
WalkerTest.java	Renaming -cnt to -nct for consistency	2012-09-05 21:13:19 -04:00