[BioC] Gviz ideogram error

Thu Aug 8 20:59:54 CEST 2013

On 08/07/2013 12:41 PM, Steve Lianoglou wrote:
> Hi,
>
> On Wed, Aug 7, 2013 at 3:45 AM, Siddharth Sethi <s.sethi at har.mrc.ac.uk> wrote:
>> Hi,
>>
>> I am getting this error for the ideogram track :
>>
>> Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
>> Calls: IdeogramTrack ... browserSession -> new -> initialize -> initialize -> .local
>> Execution halted

there were problems like this in rtracklayer version 1.20.2 and before (1.21.7 
in Bioc devel). So in a current R

   biocLite()

might be helpful.

Martin

>>
>> Command : ideogram <- IdeogramTrack(genome = "mm10", chromosome = "chr6" , background.title = "black")
>>
>>
>> The commands runs fine locally, but gives an error on server. I suspect it might be internet connection problem.
>> Does Gviz needs some particular ports to be open to connect to UCSC?
>> Please help.
>
> First: please provide the output from `sessionInfo()` after you've
> loaded the Gviz library on the machine that is failing.
>
> Second: you can, perhaps, test a general internet access problem by
> seeing if you can "fetch" the main google.com page, eg:
>
> R> library(RCurl)
> R> g <- getURL("http://www.google.com")
>
> Now take a look at g and see if you're talking with The Internet:
>
> R> substr(g, 1, 70)
> [1] "<!doctype html><html itemscope=\"itemscope\" itemtype=\"http://schema.org"
>
> -steve
>

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