Ok, so I tried the following:

*source("http://www.bioconductor.org/biocLite.R")
biocLite("GEOquery")
*
Lade nötiges Paket: Biobase

Welcome to Bioconductor

  Vignettes contain introductory material. To view, type
  'browseVignettes()'. To cite Bioconductor, see
  'citation("Biobase")' and for packages 'citation("pkgname")'.

Setting options('download.file.method.
GEOquery'='curl')
Warnmeldung:
'.readRDS' ist veraltet.
Benutzen Sie stattdessen 'readRDS'
Siehe help("Deprecated")

*library(GEOquery)
gds858<- getGEO('GDS858')  #GSEMatrix=TRUE is default
*
File stored at:
C:\DOKUME~1\admin\LOKALE~1\
Temp\RtmpAyyjO2/GDS858.soft.gz
Es gab 50 oder mehr Warnungen (Anzeige der ersten 50 mit warnings())

50 or more warnings? Why?
It was a clean install of R 2.13. on Windows.

2011/9/14 Valerie Obenchain <vobencha@fhcrc.org>

> Hi Andreas,
>
> I'm not able to reproduce your problem. After updating your packages with
> biocLite, does this simple example work for you,
>
> library(GEOquery)
> gds858<- getGEO('GDS858')  #GSEMatrix=TRUE is default
>
> If possible, please provide some code that reproduces your problem and the
> output of your sessionInfo().
>
> Valerie
>
> my sessionInfo() on R-2.13,
>
>   sessionInfo()
>>
> R version 2.13.0 Patched (2011-04-19 r55540)
> Platform: x86_64-unknown-linux-gnu (64-bit)
>
> locale:
> [1] C
>
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
>
> other attached packages:
> [1] GEOquery_2.19.4 Biobase_2.12.1
>
> loaded via a namespace (and not attached):
> [1] RCurl_1.5-0  XML_3.2-0    tools_2.13.0
>
>
>
>
>
>
> On 09/06/11 08:07, Andreas Heider wrote:
>
>> Dear mailing list,
>> when using the GEOquery function getGEO(GSExyz, GSEMatrix=T). I get an
>> error, that featureNames and rownames in exprs slot are different.
>>
>> What would have caused this error? I used this function in version 2.18.0
>> and in version 2.19 it doesn't work anymore.
>>
>> Thanks, Andreas
>>
>> PS: I'm running R 2.13.0 with GEOquery 2.18 and R 2.13.1 with GEOquery
>> 2.19
>>
>>         [[alternative HTML version deleted]]
>>
>> ______________________________ _________________
>> Bioc-devel@r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/bioc-devel
>>
>
>

	[[alternative HTML version deleted]]

