
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> source("/xchip/tcga/gdac_prod/applications/tcga-gdac-genepattern/gp-3.2.4-9272/Tomcat/../../taskLib/GDAC_RPPA_preprocess.10.3451/Rppa_preprocess.R")
> result <- main("-r/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_DataMergerPipeline/LUSC/1675667/2.GDAC_DataMerger.Finished/LUSC.protein_exp__mda_rppa_core__mdanderson_org__Level_3__protein_normalization__data.data.txt", "-a/xchip/cga/reference/tcga/antibody_gene_annotations/2012_05_25/LUSC_rppa_antibody.txt", "-bLUSC", "-c1", "-d3")
> q(save="no")
