kshakir 6ec3dd0f8c Updated GridEngineJobRunner to return status RUNNING instead of PENDING when a job has been sent to GridEngine, even if it hasn't started. ... Added GridEngine to pipeline tests. Removed passing -jobProject since GridEngine projects must be predefined. Writing the HybridSelectionPipelineTest yaml into the temp directory. Disabled job priority as it needs to be refactored for use by GridEngine and LSF. Fixed WholeGenomePipeline variantmergeoption rename to filteredRecordsMergeType. git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@5872 348d0f76-0448-11de-a6fe-93d51630548a		2011-05-25 17:16:44 +00:00
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core	Updated to produce (actual) hg19 resources too	2011-05-25 02:14:55 +00:00
examples	When /etc/mailname is unreadable fall back to the hostname.	2011-04-11 20:22:44 +00:00
lib	Thanks to mark: VCFInfoToTable removed in favor of a more flexible walker. Slight change to the argument structure of the walker to make it play more nicely with Queue: the field list parsing is pushed into the command line system (e.g. the variable is exposed as a List<String> and not a String, so Queue doesn't have to join a list into a string only to have it broken out again. This also allows the user to specify -F field1 -F field2 -F field3 if he/she so desires.	2010-12-15 03:33:36 +00:00
oneoffs	Script to run UG to create annotated all-pop VCF files to use for Phase1 VQSR indel project consensus. Paralleles and generalizes SNP version, so in theory this script can be used for both SNP and Indel consensus.	2011-05-25 16:50:59 +00:00
playground	Updated GridEngineJobRunner to return status RUNNING instead of PENDING when a job has been sent to GridEngine, even if it hasn't started.	2011-05-25 17:16:44 +00:00