[BioC] GCRMA error

[Puhong Gao]

Hi, Zhijin and Jim,

Thank you both for your quick input.

Indeed, R automatically initiated the installation of "rnu34cdf" and 
"rnu34probe" when I first ran GCRMA. Since I got the posted error, I 
manually  installed rnu34 packages downloaded from Bioconductor site and got 
the same error when GCRMA was run. I did check the package names and found 
no problem. By the way, I ran GCRMA on rgu34a chip data without problem 
yesterday. Is there anything else I should check? Thank you.

Best,

Puhong

----- Original Message ----- 
From: "Zhijin Wu" <zwu at jhsph.edu>
To: "Puhong Gao" <pgao at hunter.cuny.edu>
Cc: <bioconductor at stat.math.ethz.ch>
Sent: Tuesday, May 10, 2005 3:00 PM
Subject: Re: [BioC] GCRMA error


> Please check the probepackage name and cdfpackage name for your chip type
> first.
> The ones provided on bioconductor usually have names like
> "CHIPcdf" and "CHIPprobe" where CHIP is the chip type such as "hgu133a".
> If your probe package is created with a name following different
> convention, gcrma may not recognize it.
>
>
> On Tue, 10 May 2005, Puhong Gao wrote:
>
>> Hi, all,
>>
>> When I ran my old chip data (RN U34 chips) with gcrma, I got the 
>> following error. I had no problem with other chip types. Can someone give 
>> me some inputs on this? Thank you.
>>
>> > gcrma.ob<-gcrma(ob)
>> Computing affinitiesError in get(x, envir, mode, inherits) : variable 
>> "rnu34probe" was not found
>>
>> I am using R 2.0.1 and gcrma 1.1.3.
>>
>> Best,
>>
>> Puhong
>>
>> [[alternative HTML version deleted]]
>>
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