On Thu, Oct 25, 2012 at 2:44 PM, Sean Davis <sdavis2@mail.nih.gov> wrote:

>
>
> On Thu, Oct 25, 2012 at 2:27 PM, Brent Pedersen <bpederse@gmail.com>wrote:
>
>> Hi, with a call like
>> > getGEO("GSE15219", destdir="/tmp/", GSEMatrix=TRUE)
>> I get:
>> Found 1 file(s)
>> GSE15219_series_matrix.txt.gz
>>   % Total    % Received % Xferd  Average Speed   Time    Time     Time
>>  Current
>>                                  Dload  Upload   Total   Spent    Left
>>  Speed
>> 100  762k  100  762k    0     0   313k      0  0:00:02  0:00:02 --:--:--
>>  330k
>> 100  762k  100  762k    0     0   301k      0  0:00:02  0:00:02
>> --:--:--  301kFile stored at:
>> /tmp//GPL6255.soft
>> Error in read.table(file = file, header = header, sep = sep, quote =
>> quote,  :
>>   no lines available in input
>>
>>
>> Is there something I can do to get around this error?
>>
>>
> Hi, Brent.
>
> Thanks for the report.  This is due to a change in behavior of NCBI GEO
> with regard to GEO platform records.  I have contacted NCBI GEO staff to
> see if this is a problem on their end or a permanent change in behavior.
>  I'll let you know as soon as I hear.
>
>
Hi, Brent.

There was a glitch at NCBI.  Everything should be working again.

Sean




> Sean
>
>
>
>>
>> > sessionInfo()
>> R version 2.15.1 (2012-06-22)
>> 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_2.23.5    Biobase_2.16.0     BiocGenerics_0.2.0
>>
>> loaded via a namespace (and not attached):
>> [1] RCurl_1.95-1.1 XML_3.95-0.1
>> >
>>
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>>
>
>

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