[BioC] Regarding GEOquery

[Fabio Liberante]

Hi Nitish,

I have come across this problem a few times on different systems. I
think it's a problem with cURL, which GEOquery uses to download the
GSEmatrix.
After loading GEOquery try to update or install any package and you
should see that it fails to download. This is because GEOquery changes
the default download option in R to cURL. To change it back to 'auto'
execute the command below and all should be well.

options(download.file.method="auto")

Do let me know how you get on.

Regards,

Fabio Liberante

Analyse Genomics

On 9 June 2011 15:25, Nitish Kumar Mishra <nitishimtech at gmail.com> wrote:
> Hi All,
> I want to download the GSE or SOFT file in Bioconductor using GEOquery but
> its not working. Can any one suggest how can use GEOquery or other module in
> Bioconductor for GSE and SOFT file.
>
> Thanking you.
>
> --
> Nitish Kumar Mishra
> 3104E, CBCB, Biomolecular Sciences Bldg #296
> University of Maryland, College Park, MD 20742
> Phone (Off): 301-405-8218
> Mobile No: 240-898-7311
> nitish at umiacs.umd.edu
> mishran at umd.edu
>
>        [[alternative HTML version deleted]]
>
> _______________________________________________
> Bioconductor mailing list
> Bioconductor at r-project.org
> https://stat.ethz.ch/mailman/listinfo/bioconductor
> Search the archives: http://news.gmane.org/gmane.science.biology.informatics.conductor
>