Dear all, I am trying to make a CDF package and probe package on a custom chip, which is not inside the affy package. I am using a redhat linux system, with R2.1.0 installed. First I create CDF package using the cdf file. >make.cdf.package(chipx.CDF) Reading CDF file. Creating CDF environment Creating package in /../chipxcdf [1] "chipxcdf" it produce a cdf package subdirectory "chipxcdf" Then on the root terminal I do >R CMD INSTALL chipxcdf * Installing *source* package 'chipxcdf' ... ** R ** data ** help >>> Building/Updating help pages for package 'chipxcdf' Formats: text html latex example ** building package indices ... *DONE (chipxcdf) Then I am trying to create probe package using the makeProbePackage as described and met the problem. > library(matchprobes) Loading required package: Biobase Loading required package: tools > library(chipxcdf) > makeProbePackage("chipxcdf", datafile=gzfile("chipx_probe_.tab.gz", open ="r"),maintainer="me", version="0.0.1" ) Importing the data. Loading required package: affy Loading required package: reposTools Error in library("chipxcdf") : there is no package called 'chipxcdf' I don't know why I have this error message, Could someone point out what's wrong and give a help? Thanks a lot! Kind regards, Liqun [[alternative HTML version deleted]]

Liqun He wrote: >>library(chipxcdf) >>makeProbePackage("chipxcdf", datafile=gzfile("chipx_probe_.tab.gz", I don't know why you are getting the error below. It should really read something like 'there is no package called 'chipxcdfcdf''. Try replacing "chipxcdf" with "chipx" - you are supposed to be passing the name of the probe_tab package here, not the cdfenv. HTH, Jim > open ="r"),maintainer="me", version="0.0.1" ) > Importing the data. > Loading required package: affy > Loading required package: reposTools > Error in library("chipxcdf") : there is no package called 'chipxcdf' > > I don't know why I have this error message, Could someone point out > what's wrong and give a help? > > Thanks a lot! > > Kind regards, > Liqun > > > > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioconductor mailing list > Bioconductor@stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald Affymetrix and cDNA Microarray Core University of Michigan Cancer Center 1500 E. Medical Center Drive 7410 CCGC Ann Arbor MI 48109 734-647-5623