[BioC] question about ath1121501cdf package

[Justin Borevitz]

Hi Wenlei, there are 2 commercial Arabidopsis arrays.  One is ATH1 that has
22k genes, the other is the old one with 8k genes called AG.  You have
downloaded the wrong cdf package because the link is incorrect.  You can
download the Source for ATH1 from bioconductor and install it if you are set
up to do this or get the right Win32 .zip from this link.
http://natural.salk.edu/ath1121501cdf.zip 

Justin
http://naturalvariation.org 

-----Original Message-----
From: bioconductor-bounces at stat.math.ethz.ch
[mailto:bioconductor-bounces at stat.math.ethz.ch] On Behalf Of Wenlei Liu
Sent: Tuesday, June 17, 2003 10:39 AM
To: bioconductor at stat.math.ethz.ch
Subject: [BioC] question about ath1121501cdf package

Dear Sir/Madam,

I'm a researcher at Penn State College of Medicine. I'm trying to use the R
package 'affy' to analyze some affymetrix data. When I tried to view the
data after loading it, I got the following error message:

AffyBatch object
size of arrays=712x712 features (15846 kb)
Error in .local(object, ...) : Information about probe locations for
ATH1-121501  could not be found.
Try downloading the ath1121501cdf package from
http://www.bioconductor.org/data/cdfenvs/cdfenvs.html
Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found

I went to the website and downloaded a package by clicking the "Win32" link
next to "ath1121501cdf". After I installed the package, I got the same error
message as before. The file I downloaded is "agcdf_1.3.2.zip". It is the
same file as the agcdf package. I mean if you click the "Win32" link next to
"agcdf", you will find the same file. Is this a error? Where is the
ath1121501cdf package?

Thanks a lot for your time. Your feedback will be highly appreciated.

Sincerely yours,

Wenlei
 

Wenlei Liu
Assistant Professor
Department of Health Evaluation Sciences
Penn State College of Medicine, A210
suite 2200, 600 centerview Dr. 
Hershey, PA 17033 
Phone: 717-531-6251
Fax: 717-531-3922

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