[BioC] problem with downloading dataset using GEOquery

[Kishor Tappita]

Dear Sean,

Thank you so much for your reply and for letting me know the reason. I
will eagerly wait
for the GEO team to fix the problem.


Thanks,
Kishor

On Mon, Oct 5, 2009 at 6:46 PM, Sean Davis <seandavi at gmail.com> wrote:
> On Mon, Oct 5, 2009 at 9:03 AM, Kishor Tappita <kishor.tappita at gmail.com> wrote:
>> 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
>
> Hi, Kishor.  This is a problem with the GEO records for GPL5082.  In
> particular, they are empty.  I don't know if GEO meant for this to be
> so or not, but I was not aware that such empty records were acceptable
> in GEO.  I'll follow up with the GEO staff to see what the deal is.
>
> Sean
>