On May 1, 2007, at 9:35 AM, David Carter wrote:

> Hi Rich,
> Just s few suggestions:
> 1.  Have you set the working directory to the correct path?
> 2.  Does your chip have MM probes.  The typical Affy 250K mapping
> arrays are PM only, but you seem to have a custom format.  If your
> array does not have MM probes, select the PM only option.
> Sincerely,
> David Carter
>
>

David,

I am using 10k chips. I have tried it with both "PM only" checked and
unchecked.
I believe that the log below shows that I am in the right working
directory (I selected the working directory to be the
same as the directory holding the data. I believe that the log below
shows that I have used the correct
settings, but please let me know if it anything seems wrong). I would
appreciate any further suggestions that you or
other list members might have.

Thanks and best wishes,
Rich

 Found this array type as SNP array

 Read in existing binary CDF file C:\Documents and Settings\Richard\My
Documents\clients\charles\copynumber\SNP data with cell version
4\ax13339.CDF.bin (file format 4)...

 

 Search and extract PM/MM data from 'CEL' files of chip type 'ax13339'
in
C:\Documents and Settings\Richard\My
Documents\clients\charles\copynumber\SNP data with cell version 4..
 Found no files of this type; are the correct data directory, data file
type or CDF file specified?
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