[BioC] Webbioc error exprSet vs expressionSet

[Balasubramanian Ganesan]

Forgot to add.
We are using R on Mac OS X Panther 10.3.9.
One thought did occur to me - is it a Perl parser issue, as at the  
earlier steps, it is Perl which is involved in reading in the files?
In which case, I did update RSPerl as well, but is this issue already  
resolved in RSPerl?


On Apr 3, 2008, at 1:24 PM, Balasubramanian Ganesan wrote:
> Dear all
> I am  attaching the CGI scripts that we typically use for webbioc  
> on a shared computer.
> I finally had the guts to upgrade R in our machine after running  
> 2.1 for a really long time, as it still was facilitating analysis  
> for naive users.
> I finished completely building R from source and installing all  
> required packages to run on our machine successfully.
> However we still are a little stuck.
> The preprocessing by the aff.cgi script works fine, and I can get  
> normalized data out of it.
> But when I try to run multtest using multtest.cgi, it brings up an  
> error on the web page called "Invalid object class".
> After fishing around for a while, I figured that it is because in  
> earlier versions the normalized data were stored in a session as an  
> "exprSet" object, but now it is stored as an "ExpressionSet"  
> object, and hence does not get recognized.
> How to resolve this issue?
> Any suggestions on what should be tweaked and how are welcome.
>
> Balasubramanian Ganesan
> Research Assistant Professor
> Center for Integrated BioSystems
> Utah State University
> 4700 Old Main Hill
> Logan UT 84322
> balag at cc.usu.edu
>
>
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Balasubramanian Ganesan
Research Assistant Professor
Center for Integrated BioSystems
Utah State University
4700 Old Main Hill
Logan UT 84322
balag at cc.usu.edu