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GEOquery error message akolman Bioinformatics 8 06-06-2011 07:26 AM

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Old 10-24-2016, 04:35 PM   #1
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Location: usa

Join Date: Oct 2016
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Default GEOquery


I'm trying to download the soft files for all the samples (GSMs) in a platform using the GEOquery package.

This is the script I'm using

gpl10558 <- getGEO('gpl10558')

gsmids <- Meta(gpl10558)$sample_id
gsmlist <- sapply(gsmids,getGEO)
data <- names(gsmlist)

It starts ok and I get the soft file for a few hundred samples but then I get the following error:

Error in read.table(con, sep = "\t", header = FALSE, nrows = nseries) :
invalid 'nlines' argument

Does anyone has an idea why this is happening?

Thank you
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