[BioC] Error message with ReadAffy

Dasgupta, Abhijit (NIH/NCI) dasgupab at mail.nih.gov
Sat Oct 18 00:48:48 MEST 2003

 Why doesn't affy, if it encounters a cel file from a HG-U133A chip, search
first in the affydata library (or try to download it)for the CDF file
instead of giving the error message Xuejun got (and I got earlier). I guess
my question is, why do we have to manually load the affydata library? This
is a point I didn't find in any of the affy vignettes, though if I missed it
I'm sorry.

Abhijit Dasgupta
Division of Cancer Epidemiology and Genetics
National Cancer Institute

-----Original Message-----
From: Xuejun Peng
To: bioconductor at stat.math.ethz.ch
Sent: 10/17/2003 3:00 PM
Subject: [BioC] Error message with ReadAffy

I'm running Bioconductor release 1.2 with R 1.7.1 in a Windows 2000 
environment. I encoutered the following problem when I try to read affy 
data. Can anyone help?
(I did not have this problem with older versions.)



Environment hgu133acdf is not available.
This environment contains needed probe location information.
We will try to download and install the hgu133acdf package.

Note: No specified download type, defaulting to Win32
[1] "Attempting to download hgu133acdf from BIOCcdf/"
Error in download.file(fileURL, destFile, mode = "wb", quiet = TRUE, 
method = method) :
        unsupported URL scheme
Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found

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