kshakir 8040998c15 Renamed the pipeline yaml dbsnpFile to genotypeDbsnp, and added an evalDbsnp. ... Added a genotypeDbsnpType and evalDbsnpType to check the extensions for .vcf or .rod. Moved renaming of "recalibrated" bams to "cleaned" from sed to yaml generation template (see diff for more info). Renamed fCP.q to FCP.q. Though it's still disabled until VariantEval is updated, added changes above to the FCPTest. Removed refseq table from the queue.sh wrapper script. Only specified in the yaml. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5213 348d0f76-0448-11de-a6fe-93d51630548a		2011-02-07 22:01:09 +00:00
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BatchMerge.q	Refactoring the qscript directory; oneoffs, playground, and core	2011-01-19 15:23:40 +00:00
FullCallingPipeline.q	Renamed the pipeline yaml dbsnpFile to genotypeDbsnp, and added an evalDbsnp.	2011-02-07 22:01:09 +00:00
recalibrate.scala	Refactoring the qscript directory; oneoffs, playground, and core	2011-01-19 15:23:40 +00:00