[BioC] downloading GEO gds files

[Sean Davis]

On Thursday 25 January 2007 14:29, Wall, Dennis Paul wrote:
> I am trying to download the file gds1917 from GEO using getGEO, but am
> receiving an error
>
> > library(GEOquery)
> >
> > gds <- getGEO("gds1917")
>
> trying URL
> 'ftp://ftp.ncbi.nih.gov/pub/geo/data/gds/soft_gz/GDS1917.soft.gz'
>
> Error in download.file(myurl, destfile, mode = mode) :
>
>         cannot open URL
> 'ftp://ftp.ncbi.nih.gov/pub/geo/data/gds/soft_gz/GDS1917.soft.gz'
>
>
>
> it looks like getGEO is looking in the wrong place for the file. The ftp
> address is actually
>
> ftp://ftp.ncbi.nih.gov/pub/geo/DATA/SOFT/GDS/GDS1917.soft.gz
>
>
>
> am I doing something wrong?

Just an update of GEOquery will do the trick.

Sean