I am trying to install the poplarcdf environment from the source (.tar.gz) package at http://www.bioconductor.org/packages/release/data/annotation/html/popl arcdf.html to use bioconductor to analyse a number of poplar .CEL files. The package seems to be uninstallable (see the output below). Is there a problem with this package? If the package is non-functional, is there another way to use bioconductor to analyze data from poplar chips? > install.packages("./poplarcdf_1.12.0.tar.gz",repos=NULL) Warning in install.packages("./poplarcdf_1.12.0.tar.gz", repos = NULL) : argument 'lib' is missing: using /usr/local/lib/R/site- library * Installing *source* package 'poplarcdf' ... ** R ** data ** help >>> Building/Updating help pages for package 'poplarcdf' Formats: text html latex example geometry text html latex example poplarcdf text html latex ** building package indices ... Error in load(zfile, envir = envir) : ReadItem: unknown type 241 Execution halted ERROR: installing package indices failed ** Removing '/usr/local/lib/R/site-library/poplarcdf' Warning message: installation of package './poplarcdf_1.12.0.tar.gz' had non-zero exit status in: install.packages("./poplarcdf_1.12.0.tar.gz", repos = NULL) > sessionInfo() R version 2.2.1, 2005-12-20, x86_64-pc-linux-gnu attached base packages: [1] "methods" "stats" "graphics" "grDevices" "utils" "datasets" [7] "base" > sessionInfo() R version 2.2.1, 2005-12-20, i486-pc-linux-gnu attached base packages: [1] "tools" "methods" "stats" "graphics" "grDevices" "utils" [7] "datasets" "base" other attached packages: makecdfenv affy Biobase "1.8.0" "1.8.1" "1.8.0"

"Levi Waldron" <levi.waldron at="" utoronto.ca=""> writes: > I am trying to install the poplarcdf environment from the source > (.tar.gz) package at > > http://www.bioconductor.org/packages/release/data/annotation/html/po plarcdf.html The current release of Bioconductor (1.8) is designed expressly for R 2.3.x. >> sessionInfo() > R version 2.2.1, 2005-12-20, x86_64-pc-linux-gnu So a first thing to try is to upgrade your R and BioC packages. Unfortunately, the poplarcdf is new in the 1.8 release. + seth