Mauricio Carneiro 4aad135f8c Generic input file name recognition (still need to implement support to FastQ, but it now can at least accept it)		2012-09-24 17:01:17 -04:00
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examples	Added setupRetry() to modify jobs when Queue is run with '-retry' and jobs are about to restart after an error.	2012-08-13 15:43:05 -04:00
lib	Mostly small changes to my own scala scripts: .vcf.gz compatibility for output files, smarter beagle generation, simple script to scatter-gather combine variants. Whole genome indel calling now uses the gold standard indel set.	2012-02-22 17:20:04 -05:00
DataProcessingPipeline.scala	Generic input file name recognition (still need to implement support to FastQ, but it now can at least accept it)	2012-09-24 17:01:17 -04:00
GATKResourcesBundle.scala	Merge branch 'master' of ssh://gsa1.broadinstitute.org/humgen/gsa-scr1/gsa-engineering/git/unstable	2012-03-13 09:28:16 -04:00
MethodsDevelopmentCallingPipeline.scala	Turning off PHONE HOME option in the MDCP	2012-01-27 11:13:30 -05:00
PacbioProcessingPipeline.scala	Disabling indel quals in BaseRecalibrator as it should be, not PrintReads.	2012-08-01 09:23:04 -04:00