From mtmorgan at fhcrc.org  Thu May 21 01:50:15 2009
From: mtmorgan at fhcrc.org (Martin Morgan)
Date: Wed, 20 May 2009 16:50:15 -0700
Subject: [Rd] install.packages now intentionally references .Rprofile?
Message-ID: <6ph4ovf1gi0.fsf@gopher4.fhcrc.org>

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?

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 at 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



[Rd] install.packages now intentionally references .Rprofile?
Martin Morgan