Mauricio Carneiro bb36cd4adf Quick fixes to BQSRGatherer and GATKReportTable ... * when gathering, be aware that some keys will be missing from some tables. * when a gatktable has no elements, it should still output the header so we know it had no records		2012-03-28 09:07:54 -04:00
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alignment	At chartl's request, add the bwa aln -N and bwa aln -m parameters to the bindings.	2012-01-17 14:47:53 -05:00
analyzecovariates	Active Region Traversal should use GATKSAMRecords everywhere instead of SAMRecords. misc cleanup.	2012-02-03 17:13:52 -05:00
commandline	Merged bug fix from Stable into Unstable	2012-02-27 17:13:17 -05:00
gatk	Quick fixes to BQSRGatherer and GATKReportTable	2012-03-28 09:07:54 -04:00
jna	Device files like /dev/null are now tracked as special by Queue and are not used to generate .out file paths, scattered into a temporary directory, gathered, deleted, etc.	2012-01-23 16:17:04 -05:00
queue	Device files like /dev/null are now tracked as special by Queue and are not used to generate .out file paths, scattered into a temporary directory, gathered, deleted, etc.	2012-01-23 16:17:04 -05:00
utils	Merge branch 'master' of ssh://nickel.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable	2012-03-28 07:42:09 -04:00