Eric Banks 562f2406d7 Added check that BaseRecalibrator is not being run on a reduced bam. ... - Throws user exception if it is. - Can be turned off with --allow_bqsr_on_reduced_bams_despite_repeated_warnings argument. - Added test to check this is working. - Added docs to BQSRReadTransformer explaining why this check is not performed on PrintReads end. - Added small bug fix to GenomeAnalysisEngine that I uncovered in this process. - Added comment about not changing the program record name, as per reviewer comments. - Removed unused variable.		2013-02-06 10:14:27 -05:00
..
config	Reorganized the codebase beneath top-level public and private directories,	2011-06-28 06:55:19 -04:00
src	Added check that BaseRecalibrator is not being run on a reduced bam.	2013-02-06 10:14:27 -05:00
test	Fixing license on Yossi's file	2013-02-05 11:14:43 -05:00