[BioC] seqinr package - choosebank() function not connecting

[Herve Pages]

Hi Jab,

This looks like a problem with the "seqinr" package itself
or with the server the package is trying to connect to.
Please contact the package authors/maintainers directly since
"seqinr" is not a Bioconductor package.
Thanks,

H.


Jabez Wilson wrote:
> Hi, I've been looking at the new "seqinr" package, for manipulation of sequence data. I can't connect to the databases using the choosebank() function. I get the following error message:
>    
>   Error in socketConnection(host = host, port = port, server = FALSE, blocking = TRUE) : 
>         unable to open connection
> In addition: Warning message:
> pbil.univ-lyon1.fr:5558 cannot be opened 
> Error in choosebank() : I wasn't able to open the socket connection:
>    o Check that your are connected to the internet.
>    o Check that port 5558 is not closed by a firewall.
>    o Try to increase timeout value (current is 5 seconds).
>
>   my computer is connected to the internet, and is behind a firewall, but I start R using the "--internet2" option and have no problems installing R/Bioconductor packages via the internet or querying Entrez via e.g.  dbNames, so assume I can see the outside world via the firewall.
>    
>   Does anyone have any advice?
>    
>   Jab
>    
>    
>
>  		
> ---------------------------------
>
> 	[[alternative HTML version deleted]]
>
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