gatk3的最后一个经典版本3.8

Mark DePristo 7bf1f67273 BQSR optimization: read group x quality score calibration table is thread-local ... -- AdvancedRecalibrationEngine now uses a thread-local table for the quality score table, and in finalizeData merges these thread-local tables into the final table. Radically reduces the contention for RecalDatum in this very highly used table -- Refactored the utility function to combine two tables into RecalUtils, and created UnitTests for this function, as well as all of RecalibrationTables. Updated combine in RecalibrationReport to use this table combiner function -- Made several core functions in RecalDatum into final methods for performance -- Added RecalibrationTestUtils, a home for recalibration testing utilities		2012-12-24 13:35:58 -05:00
licensing	Final final final version of the license.	2012-07-20 18:00:02 -04:00
protected/java	BQSR optimization: read group x quality score calibration table is thread-local	2012-12-24 13:35:58 -05:00
public	BQSR optimization: read group x quality score calibration table is thread-local	2012-12-24 13:35:58 -05:00
settings	Final r119 tribble jar	2012-11-02 14:30:33 -04:00
.gitignore	adding some directories to gitignore	2012-09-27 11:09:41 -04:00
build.xml	Incorporating clover into build.xml	2012-12-24 13:35:57 -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	Use build jars in test classpaths by default	2012-11-28 22:57:04 -05:00