This was my original post, with the code example only slightly modified by
Martin for clarity. Prior to R-2.9.0, this repeated downloading did not
occur, the code worked as intended. In fact, if memory serves me correctly,
it even worked at least during the first 3 months of R-2.0.0 in its
development stage, before release as a numbered version. Is there a reason
for that? Is there a work-around? As I mentioned in my original post, the
code is actually wrapped in a function that checks the date and the date of
the last update, and proceeds to update package once per week. It was quite
handy when it was working, hence my desire for a fix for my code.

Thanks,
Mark
------------------------------------------------------------
Mark W. Kimpel MD  ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine

15032 Hunter Court, Westfield, IN  46074

(317) 490-5129 Work, & Mobile & VoiceMail
(317) 399-1219  Home
Skype:  mkimpel

"The real problem is not whether machines think but whether men do." -- B.
F. Skinner
******************************************************************


On Thu, May 21, 2009 at 2:17 AM, Prof Brian Ripley <ripley@stats.ox.ac.uk>wrote:

> On Wed, 20 May 2009, Martin Morgan wrote:
>
>  A post on the Bioconductor mailing list
>>
>>  https://stat.ethz.ch/pipermail/bioconductor/2009-May/027700.html
>>
>> suggests that install.packages now references .Rprofile (?), whereas
>> in R-2-8 it did not. Is this intentional?
>>
>
> Yes.  And in fact it did in earlier versions, to find the default library
> into which to install.
>
>
>
>> The example is, in .Rprofile
>>
>>  library(utils)
>>  install.packages("Biobase",
>>                  repos="http://bioconductor.org/packages/2.4/bioc")
>>
>> then starting R from the command line results in repeated downloads
>> of Biobase
>>
>> mtmorgan@mm:~/tmp> R --quiet
>> trying URL
>> '
>> http://bioconductor.org/packages/2.4/bioc/src/contrib/Biobase_2.4.1.tar.gz
>> '
>> Content type 'application/x-gzip' length 1973533 bytes (1.9 Mb)
>> opened URL
>> ==================================================
>> downloaded 1.9 Mb
>>
>> trying URL
>> '
>> http://bioconductor.org/packages/2.4/bioc/src/contrib/Biobase_2.4.1.tar.gz
>> '
>> Content type 'application/x-gzip' length 1973533 bytes (1.9 Mb)
>> opened URL
>> ==================================================
>> downloaded 1.9 Mb
>>
>> ^C
>> Execution halted
>>
>>  sessionInfo()
>>>
>> R version 2.9.0 Patched (2009-05-20 r48588)
>> x86_64-unknown-linux-gnu
>>
>> locale:
>>
>> LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
>>
>> attached base packages:
>> [1] stats     graphics  grDevices utils     datasets  methods   base
>>
>> Martin
>> --
>> Martin Morgan
>> Computational Biology / Fred Hutchinson Cancer Research Center
>> 1100 Fairview Ave. N.
>> PO Box 19024 Seattle, WA 98109
>>
>> Location: Arnold Building M1 B861
>> Phone: (206) 667-2793
>>
>> ______________________________________________
>> R-devel@r-project.org mailing list
>> https://stat.ethz.ch/mailman/listinfo/r-devel
>>
>>
> --
> Brian D. Ripley,                  ripley@stats.ox.ac.uk
> Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/<http://www.stats.ox.ac.uk/%7Eripley/>
> University of Oxford,             Tel:  +44 1865 272861 (self)
> 1 South Parks Road,                     +44 1865 272866 (PA)
> Oxford OX1 3TG, UK                Fax:  +44 1865 272595
>
>
> ______________________________________________
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> https://stat.ethz.ch/mailman/listinfo/r-devel
>

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