[BioC] problem with downloading dataset using GEOquery

Kishor Tappita kishor.tappita at gmail.com
Mon Oct 5 15:03:34 CEST 2009

Dear List,

When I am trying to download  a dataset from GEO. I get the below
error at the end of my
command session.

> dataset2 <- getGEO("GSE12885")

File stored at: C:\DOCUME~1\WELCOM~1\LOCALS~1\Temp\RtmpYy3CGa/GPL5082.soft
Error in txt[i] <- readLines(con, 1) : replacement has length zero

> sessionInfo()
R version 2.9.2 (2009-08-24)

LC_COLLATE=English_United States.1252;LC_CTYPE=English_United
States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base

other attached packages:
[1] GEOquery_2.8.0 RCurl_0.98-1   bitops_1.0-4.1 Biobase_2.4.1

loaded via a namespace (and not attached):
[1] AnnotationDbi_1.6.1 DBI_0.2-4           graph_1.22.2
[4] grid_2.9.2          lattice_0.17-25     RSQLite_0.7-2
[7] SparseM_0.80        tools_2.9.2         topGO_1.12.0


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