gatk3的最后一个经典版本3.8

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Geraldine Van der Auwera 8fcad6680b Assorted fixes and improvements to gatkdocs -Added docs for ERC mode in HC -Move RecalibrationPerformance walker since to private since it is experimental and unsupported -Updated VR docs and restored percentBad/numBad (but @Hidden) to enable deprecation alert if users try to use them -Improved error msg for conflict between per-interval aggregation and -nt -Minor clean up in exception docs -Added Toy Walkers category for devs and dev supercat (to build out docs for developers) -Added more detailed info to GenotypeConcordance doc based on Chris forum post -Added system to include min/max argument values in gatkdocs (build gatkdocs with 'ant gatkdocs' to test it, see engine and DoC args for in situ examples) -Added tentative min/max argument annotations to DepthOfCoverage and CommandLineGATK arguments (and improved docs while at it) -Added gotoDev annotation to GATKDocumentedFeature to track who is the go-to person in GSA for questions & issues about specific walkers/tools (now discreetly indicated in each gatkdoc)		2014-01-13 17:46:22 -05:00
licensing	deleted old license files	2013-07-02 16:36:47 -04:00
protected	Assorted fixes and improvements to gatkdocs	2014-01-13 17:46:22 -05:00
public	Assorted fixes and improvements to gatkdocs	2014-01-13 17:46:22 -05:00
settings	Assorted fixes and improvements to gatkdocs	2014-01-13 17:46:22 -05:00
.gitignore	Detect stuck lock-acquisition calls, and disable file locking for tests	2013-04-24 22:49:02 -04:00
README.md	Update README file for the 2.6 release	2013-06-20 13:08:29 -04:00
build.xml	Separate tests that access the knowledge base from other tests	2013-12-06 11:31:35 -05:00
intellij_example.tar.bz2	Removed the intellij files from the root and made an example package for new users. This allows users to start at the same page and then change it as they see fit without interfering with the repo (thanks guillermo!)	2012-09-27 11:04:56 -04:00
ivy.xml	Changing from scala 2.9.2 to 2.10.2.	2013-09-23 12:42:22 -04:00

README.md

The Genome Analysis Toolkit

See http://www.broadinstitute.org/gatk/