[prev in list] [next in list] [prev in thread] [next in thread] 

List:       r-help
Subject:    [R] problem with help.start and ?somefunction
From:       <drnevich () uiuc ! edu>
Date:       2007-02-28 22:41:18
Message-ID: 20070228164118.ALN76279 () expms1 ! cites ! uiuc ! edu
[Download RAW message or body]

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: drnevich@uiuc.edu

______________________________________________
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.


[prev in list] [next in list] [prev in thread] [next in thread]