trouble running altanalyze

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Matthias Kirsch

Aug 22, 2019, 3:39:57 PM8/22/19
Dear all,

I have installed Altanalyze 2.1.3 to use it for analyzing .cel files
from Affymetrix ClariomS rat Arrays.
Now I encounter several problems when trying to run the program:
- when trying to add rat as a new species, the program downloads .zip
files (e.g. but then reports "parent directory not found"
- also, when trying to get specifics for the ClariomS Array, a .cdf file
is requested. However, obviously Affymetrix changed its file extensions,
i.e. there is not .cdf file anywhere to be found.
- when using the results viewer to try to open a project, nothing is
found. Does one have to specifically create a project or where this can
be found at the end of the analysis?

Help would be appreciated. Thanks

** Dr. Matthias Kirsch
** Univ. Freiburg, Institut für Anatomie & Zellbiologie
** Abteilung Neuroanatomie
** Zentrum f. Neurowissenschaften, ZfN
** Albertstr. 23
** D-79104 Freiburg
** Tel.: +49-761-203-5381
** Fax: +49-761-203-8433
** e-mail:

Nathan Salomonis

Aug 22, 2019, 3:48:04 PM8/22/19
Hi Matthias,

You are correct in that the current AltAnalyze uses clf and associated files as a special use case in place of cdf files. While it has been a while since I worked with these files, in the below thread I walk through how to proceed with these:

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