Hi all, I am going to be teaching a workshop next week using R and Bioconductor in one of our university's computer labs. They have recently installed R 2.4.1 for me, and I'm checking all my scripts. I just noticed that using the ?somefunction call to access the documentation for that function is not working. On my own PC, the ? call output changed between R 2.3 and 2.4; before it would open some sort of plain text file and now it opens a nice browser with all the functions of that package listed in a side frame and the function documentation listed in the main window. At the computer lab, calling ?somefunction opens the browser with the functions in the side frame, but the main window says "The page cannot be displayed"
If I try help.start(), I get the warnings below, but it does open the html search page. I'm guessing the two are related, and it might have something to do with this message from 2004: http://finzi.psych.upenn.edu/R/Rhelp02a/archive/30360.html What do I do? I'm not sure what to tell the sys admin about how to fix the problem... I should mention that I used this same lab over a year ago with R 2.2.1, and didn't have the ? help problem - probably because it wasn't the new browser version of help. Thanks, Jenny > help.start() updating HTML package listing updating HTML search index Warning messages: 1: cannot update HTML package index in: make.packages.html(.libPaths()) 2: cannot open file 'P:\xpapps\R\R-2.4.1/doc/html/search/index.txt', reason 'Permission denied' If nothing happens, you should open 'P:\xpapps\R\R-2.4.1\doc\html\index.html' yourself Warning message: cannot update HTML search index in: make.search.html(.libPaths()) > sessionInfo() R version 2.4.1 (2006-12-18) i386-pc-mingw32 locale: LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.1252;LC_MONETARY=English_United States.1252;LC_NUMERIC=C;LC_TIME=English_United States.1252 attached base packages: [1] "splines" "tools" "stats" "graphics" "grDevices" "utils" [7] "datasets" "methods" "base" other attached packages: made4 scatterplot3d ade4 affycoretools annaffy "1.8.0" "0.3-24" "1.4-2" "1.7.5" "1.6.1" xtable gcrma matchprobes biomaRt RCurl "1.4-3" "2.6.0" "1.6.0" "1.8.1" "0.8-0" XML GOstats Category genefilter survival "1.4-0" "2.0.4" "2.0.3" "1.12.0" "2.30" KEGG RBGL annotate GO graph "1.14.1" "1.10.0" "1.12.1" "1.14.1" "1.12.0" limma affy affyio Biobase "2.9.8" "1.12.2" "1.2.0" "1.12.2" > Jenny Drnevich, Ph.D. Functional Genomics Bioinformatics Specialist Roy J. Carver Biotechnology Center University of Illinois, Urbana-Champaign 330 ERML 1201 W. Gregory Dr. Urbana, IL 61801 ph: 217-244-7355 fax: 217-265-5066 e-mail: [EMAIL PROTECTED] ______________________________________________ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
