Mercurial > repos > testtool > get_gr_set

diff GRsetFromGEO/GRsetFromGEO.R @ 56:d7cf4a35f827 draft

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author testtool
date Thu, 10 Aug 2017 06:42:47 -0400
parents e23909ae6676
children 2382697aad09
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line diff
--- a/GRsetFromGEO/GRsetFromGEO.R	Thu Aug 10 06:26:46 2017 -0400
+++ b/GRsetFromGEO/GRsetFromGEO.R	Thu Aug 10 06:42:47 2017 -0400
@@ -1,13 +1,12 @@
+require(minfi, quietly = TRUE)
+
 options(warn = -1)
-options('download.file.method.GEOquery' = 'wget')
-options('GEOquery.inmemory.gpl'=FALSE)
-
 
 args <- commandArgs(trailingOnly = TRUE)
 input = args[1] 
 output = args[2] 
 
-GRset <- minfi::getGenomicRatioSetFromGEO(input)
+GRset <- getGenomicRatioSetFromGEO(input)
 
 save(GRset,file = output)