[BioC] Trouble with getGEO retrieving dataset

[Sean Davis]

Saroj Mohapatra wrote:
> Hi friends,
>
> I am having trouble parsing (it is not a download problem) some GEO 
> datasets using GEOquery. First I was using R 2.4.1 (GEOquery 1.8.0), 
> but the error could be reproduced using R 2.5.0 (GEOquery 2.0.3).
>
> In the example below, I could parse dataset GDS1080, but not GDS1082.
>
> Is there anything I am doing wrong?
Hi, Saroj.  You are not doing anything wrong.  GDS1082 is unusual in 
that it contains no SUBSET tags.  I was unaware that such GDS files 
existed, so the code didn't deal with this situation.  I have corrected 
the problem in the development version of GEOquery which should be 
available in the next day or so.  I will be changing the release version 
as well; look for a new version early next week.  Thanks for the bug report.

Sean