Hi BioC, When I am trying to get annotations of ALL GENEs on my hgu133plus2 GeneChip. Please see below output...here my R script is hanging on computer. I am using Linux 64 bit with 2 GB RAM memory with 45 CEL files. > AnnTable1 <- aafTableAnn(AllGenes,hgu133plus2,AnnCols[2]); Loading required package: reposTools [1] "You have package hgu133plus2 but the incorrect version" Warning message: cannot open: HTTP status was '404 Not Found' Note: http://www.bioconductor.org/packages/data/annotation/stable/bin/window s/contrib/2.3 does not seem to have a valid repository, skipping Warning message: Failed to read replisting at http://www.bioconductor.org/packages/data/annotation/stable/bin/window s/contrib/2.3 in: getReplisting(repURL, repFile, method = method) ################################################################ Thank you in advance, Saurin

Saurin D. Jani wrote: > Hi BioC, > > When I am trying to get annotations of ALL GENEs on my hgu133plus2 GeneChip. > Please see below output...here my R script is hanging on computer. I am using > Linux 64 bit with 2 GB RAM memory with 45 CEL files. > > >>AnnTable1 <- aafTableAnn(AllGenes,hgu133plus2,AnnCols[2]); > > Loading required package: reposTools > [1] "You have package hgu133plus2 but the incorrect version" > Warning message: > cannot open: HTTP status was '404 Not Found' > Note: > http://www.bioconductor.org/packages/data/annotation/stable/bin/wind ows/contrib/2.3 > does not seem to have a valid repository, skipping > Warning message: > Failed to read replisting at > http://www.bioconductor.org/packages/data/annotation/stable/bin/wind ows/contrib/2.3 > in: getReplisting(repURL, repFile, method = method) > ################################################################ It's trying to get the correct version of hgu133plus2 and failing. You might try: source("http://www.bioconductor.org/biocLite.R") biocLite("hgu133plus2") Another alternative is to go to the devel metaData page on BioC, download the correct tar.gz file and install using R CMD INSTALL. HTH, Jim > Thank you in advance, > Saurin > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor -- James W. MacDonald University of Michigan Affymetrix and cDNA Microarray Core 1500 E Medical Center Drive Ann Arbor MI 48109 734-647-5623 ********************************************************** Electronic Mail is not secure, may not be read every day, and should not be used for urgent or sensitive issues.