[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/results_sorted.all.txt"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/results_sorted.sig.overlaps.txt"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/MutSig2CV.input.genenames.txt"
[1] "/xchip/cga/reference/MSigDB/c2.cp.v4.0.symbols.gmt"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/results_sorted.all.txt"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/results_sorted.sig.overlaps.txt"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/MutSig2CV.input.genenames.txt"
[1] "/xchip/cga/reference/MSigDB/c2.cp.v4.0.symbols.gmt"
[1] "R version 3.0.1 (2013-05-16)"
[1] "read result table..."
[1] TRUE
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Pathway_Overlaps_HypergeometricTest/UVM-TP/22524515/results_sorted.sig.overlaps.txt"
[1] "results_sorted.sig.overlaps.txt"
[1] "generated heatmap.png"
[1] "generated heatmap.pdf"
[1] "nozzle report generated...!"
