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Last seen 10.2 years ago
Anyone else experiencing problems downloading data through the
function getGEO? Is it a problem of GEO or the package?
> gse <- getGEO("GSE508")
Error in function (type, msg, asError = TRUE) :
Server denied you to change to the given directory
> traceback()
7: fun(structure(list(message = msg, call = sys.call()), class =
c(typeName,
"GenericCurlError", "error", "condition")))
6: function (type, msg, asError = TRUE)
{
if (!is.character(type)) {
i = match(type, CURLcodeValues)
typeName = if is.na(i))
character()
else names(CURLcodeValues)[i]
}
typeName = gsub("^CURLE_", "", typeName)
fun = (if (asError)
stop
else warning)
fun(structure(list(message = msg, call = sys.call()), class =
c(typeName,
"GenericCurlError", "error", "condition")))
}(9L, "Server denied you to change to the given directory", TRUE)
5: .Call("R_curl_easy_perform", curl, .opts, isProtected, .encoding,
PACKAGE = "RCurl")
4: curlPerform(curl = curl, .opts = opts, .encoding = .encoding)
3: getURL(sprintf("ftp://ftp.ncbi.nlm.nih.gov/pub/geo/DATA/SeriesMatri
x/%s/",
GEO))
2: getAndParseGSEMatrices(GEO, destdir, AnnotGPL = AnnotGPL)
1: getGEO("GSE508")
>
-- output of sessionInfo():
> sessionInfo()
R version 2.15.0 (2012-03-30)
Platform: x86_64-pc-mingw32/x64 (64-bit)
locale:
[1] LC_COLLATE=English_Australia.1252 LC_CTYPE=English_Australia.1252
LC_MONETARY=English_Australia.1252 LC_NUMERIC=C
LC_TIME=English_Australia.1252
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] GEOquery_2.23.5 Biobase_2.16.0 BiocGenerics_0.2.0
loaded via a namespace (and not attached):
[1] RCurl_1.91-1.1 tools_2.15.0 XML_3.9-4.1
--
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