# Created: Sun Jun 10 06:21:44 EDT 2012 by cgaadm_deadline
# Job: 110616    server:  http://tcga-gdac-genepattern.broadinstitute.org:8090/gp/
# Module: GDAC_geneListPathwayEnrichment urn:lsid:broadinstitute.org:cancer.genome.analysis:00268:28
# Parameters: 
#    MSigDB_C2 = file:/xchip/cga/reference/MSigDB/c2.cp.v3.0-2.symbols.gmt
#    refseqGeneInfo = file:/xchip/cga/reference/hg18_refseq_download.txt
#    geneList_expr = file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_ConsensusClusteringPipeline/BRCA/1281933/3.GDAC_selectBestcluster.Finished/BRCA.subclassmarkers.txt
#    geneList_gisticAmp = file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/Gistic2_Pipeline/BRCA/1282056/1.Gistic2_Analysis.Finished/amp_genes.conf_99.txt
#    geneList_gisticDel = file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/Gistic2_Pipeline/BRCA/1282056/1.Gistic2_Analysis.Finished/del_genes.conf_99.txt
#    geneList_exprCghCor = file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/getCopyNumberExpCor/BRCA/1311025/1.getCNExpCorrelation.Finished/BRCA.CORS.tsv
#    geneList_mutation = file:/xchip/cga/gdac-prod/tcga-gdac/jobResults/MutSigWithNozzleReport/BRCA/644790/3.MutSigRun.Finished/BRCA.sig_genes.txt
#    outPrefix = pathwayEnrich
