[BioC] [devteam-bioc] Failed to obtain \'hguid\' cookie for UCSC browser session

[Anna Sawicka]

On Jul 8, 2013, at 3:40 AM, Dan Tenenbaum wrote:

> On Sun, Jul 7, 2013 at 5:37 AM, Maintainer <maintainer at bioconductor.org> wrote:
>> 
>> Dear All,
>> after I have updated my R and Bioconductor, the makeTranscriptDbFromUCSC function from GenomicFeatures package does not work anymore as it gives the following error: "Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie". I'm using Mac version 10.6.8, the software is updated. Here is the R code that led to an error:
>> 
>>> library(GenomicFeatures)
>>> supportedUCSCtables() ### the tables are listed
>>> getChromInfoFromUCSC("mm9", goldenPath_url = "http://hgdownload.cse.ucsc.edu/goldenPath") ### the chromosomes and their lengths are listed
>>> txdb  = makeTranscriptDbFromUCSC(genome="mm9", tablename="refGene")
>> Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
>> 
>> Does anyone know the solution to this problem? I would be really grateful for your help.
> 
> Archived posts suggest the problem is either a local network/proxy
> configuration issue, or it may have something to do with the new
> European mirror.
> 
> You might try the following (this involves direct slot access and is
> probably not the approved method, but someone can pipe in with a
> better way).
> 
> library(rtracklayer)
> session <- browserSession("UCSC")
> url <- session at url
> session at url <- "http://genome.ucsc.edu/cgi-bin/"
> 

Hi Dan,
Thanks for your e-mail. Unfortunately, the problem persists:
> library(rtracklayer)
> session <- browserSession("UCSC")
Error in .local(.Object, ...) : Failed to obtain 'hguid' cookie
Best,
Ania


> Then retry the line that failed before.
> 
> Dan
> 
>> 
>> 
>> 
>> -- output of sessionInfo():
>> 
>> R version 3.0.1 (2013-05-16)
>> Platform: x86_64-apple-darwin10.8.0 (64-bit)
>> 
>> locale:
>> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
>> 
>> attached base packages:
>> [1] parallel  stats     graphics  grDevices utils     datasets  methods   base
>> 
>> other attached packages:
>> [1] GenomicFeatures_1.12.2 AnnotationDbi_1.22.6   Biobase_2.20.1
>> [4] GenomicRanges_1.12.4   IRanges_1.18.1         BiocGenerics_0.6.0
>> 
>> loaded via a namespace (and not attached):
>> [1] biomaRt_2.16.0     Biostrings_2.28.0  bitops_1.0-5       BSgenome_1.28.0
>> [5] DBI_0.2-7          RCurl_1.95-4.1     Rsamtools_1.12.3   RSQLite_0.11.4
>> [9] rtracklayer_1.20.2 stats4_3.0.1       tools_3.0.1        XML_3.95-0.2
>> [13] zlibbioc_1.6.0
>> 
>> --
>> Sent via the guest posting facility at bioconductor.org.
>> 
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