ReadAffy couldn't find any CDF file on my computer, even for HG_U95Av2 which is supposed to be included in the Affy package. I got the same error for all of them: > Dilution AffyBatch object size of arrays=640x640 features (12805 kb) Error in .local(object, ...) : Information about probe locations for HG_U95Av2 could not be found. Try downloading the hgu95av2cdf package from http://www.bioconductor.org/data/cdfenvs/cdfenvs.html Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found Has anybody had similar experience? Mingqian Huang -- Mingqian Huang, Ph.D. Neurology Service Massachusetts General Hospital Wellman 425 50 Fruit Street Boston, MA 02114

what version of affy are you using? in the latest released version hgu95av2 is no longer included... the package should be automatically downloaded and installed though. in any case follow the instructions given by the error message and you should be fine. On Fri, 13 Jun 2003, Huang, Mingqian wrote: > ReadAffy couldn't find any CDF file on my computer, even for HG_U95Av2 which is > supposed to be included in the Affy package. I got the same error for all of > them: > > > Dilution > AffyBatch object > size of arrays=640x640 features (12805 kb) > Error in .local(object, ...) : Information about probe locations for HG_U95Av2 > could not be found. > Try downloading the hgu95av2cdf package from > http://www.bioconductor.org/data/cdfenvs/cdfenvs.html > Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found > > Has anybody had similar experience? > > Mingqian Huang > -- > Mingqian Huang, Ph.D. > Neurology Service > Massachusetts General Hospital > Wellman 425 > 50 Fruit Street > Boston, MA 02114 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor >

On Fri, Jun 13, 2003 at 06:46:12PM -0400, Huang, Mingqian wrote: > ReadAffy couldn't find any CDF file on my computer, even for HG_U95Av2 which is > supposed to be included in the Affy package. I got the same error for all of > them: > > > Dilution > AffyBatch object > size of arrays=640x640 features (12805 kb) > Error in .local(object, ...) : Information about probe locations for HG_U95Av2 > could not be found. > Try downloading the hgu95av2cdf package from > http://www.bioconductor.org/data/cdfenvs/cdfenvs.html > Error in inherits(cdf.env, "try-error") : Object "cdf.env" not found > > Has anybody had similar experience? Yes, during a very short time when the version 1.2 was still under "devel". The released version 1.2 should work smoothly. hgu95av2cdf is included in the required package affydata I think. You could load it early in your script. (or rely on the autoload thinggy, as mentioned by Rafael). L. > > Mingqian Huang > -- > Mingqian Huang, Ph.D. > Neurology Service > Massachusetts General Hospital > Wellman 425 > 50 Fruit Street > Boston, MA 02114 > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://www.stat.math.ethz.ch/mailman/listinfo/bioconductor -- -------------------------------------------------------------- currently at the National Yang-Ming University in Taipei, Taiwan -------------------------------------------------------------- Laurent Gautier CBS, Building 208, DTU PhD. Student DK-2800 Lyngby,Denmark tel: +45 45 25 24 89 http://www.cbs.dtu.dk/laurent