Hi everyone,

I just installed R 2.10 using the Windows binary. At some point in 
the past using the Windows binary installation, the default behavior 
of ?functionname changed from plain text to a nice html interface. 
Now with R 2.10, the default behavior has changed back to the plain 
text help. I assume this has some thing to do with these changes 
listed for R 2.10, but I don't quite understand what it's saying or 
how to change my system back to the html-style help:


Package help is now converted from Rd by the R-based converters
         that were first introduced in 2.9.0.  This means

         - Packages that were installed by R-devel after 2009-08-09
           should not be used with earlier versions of R, and most
           aspects of package help (including the runnable examples)
           will be missing if they are so used.

         - Text, HTML and latex help and examples for packages
           installed under the new system are converted on-demand from
           stored parsed Rd files.  (Conversions stored in packages
           installed under R < 2.10.0 are used if no parsed Rd files
           are found.  It is recommended that such packages be
           re-installed.)


     o   HTML help is now generated dynamically using an HTTP server
         running in the R process and listening on the loopback
         interface.

         - Those worried about security implications of such a server
           can disable it by setting the environment variable
           R_DISABLE_HTTPD to a non-empty value.  This disables
           help.start() and HTML help (so text help is shown instead).

         - The Java/Javascript search engine has been replaced by an
           HTML interface to help.search().  help.start() no longer has
           an argument 'searchEngine' as it is no longer needed.

         - The HTML help can now locate cross-references of the form
           \link[pkg]{foo} and \link[pkg:foo]{bar} where 'foo' is an
           alias in the package, rather than the documented (basename
           of a) filename (since the documentation has been much
           ignored).


I'd appreciate any help, as the html-style help is so much more convenient!

Thanks,
Jenny

 > sessionInfo()
R version 2.10.0 (2009-10-26)
i386-pc-mingw32

locale:
[1] LC_COLLATE=English_United States.1252
[2] LC_CTYPE=English_United States.1252
[3] LC_MONETARY=English_United States.1252
[4] LC_NUMERIC=C
[5] LC_TIME=English_United States.1252

attached base packages:
[1] grid      stats     graphics  grDevices datasets  utils     methods
[8] base

other attached packages:
  [1] ath1121501cdf_2.5.0  limma_3.2.1          affyQCReport_1.24.0
  [4] lattice_0.17-26      xtable_1.5-5         simpleaffy_2.22.0
  [7] genefilter_1.28.0    made4_1.20.0         scatterplot3d_0.3-29
[10] gplots_2.7.3         caTools_1.10         bitops_1.0-4.1
[13] gdata_2.6.1          gtools_2.6.1         RColorBrewer_1.0-2
[16] ade4_1.4-11          affyPLM_1.22.0       preprocessCore_1.8.0
[19] gcrma_2.18.0         affycoretools_1.18.0 KEGG.db_2.3.5
[22] GO.db_2.3.5          RSQLite_0.7-3        DBI_0.2-4
[25] AnnotationDbi_1.8.0  affy_1.24.0          Biobase_2.6.0
[28] RWinEdt_1.8-1

loaded via a namespace (and not attached):
  [1] affyio_1.14.0     annaffy_1.18.0    annotate_1.24.0   biomaRt_2.2.0
  [5] Biostrings_2.14.0 Category_2.12.0   GOstats_2.12.0    graph_1.24.0
  [9] GSEABase_1.8.0    IRanges_1.4.0     RBGL_1.20.0       RCurl_1.2-1
[13] splines_2.10.0    survival_2.35-7   tools_2.10.0      XML_2.6-0
 >



Jenny Drnevich, Ph.D.

Functional Genomics Bioinformatics Specialist
W.M. Keck Center for Comparative and Functional Genomics
Roy J. Carver Biotechnology Center
University of Illinois, Urbana-Champaign

330 ERML
1201 W. Gregory Dr.
Urbana, IL 61801
USA

ph: 217-244-7355
fax: 217-265-5066
e-mail: drnevich@illinois.edu 
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