[R] having trouble with "R CMD INSTALL"

Uwe Ligges
2011-04-20T08:50:08Z

Not sure what you are really doing, but

R --vanilla CMD INSTALL something

runs in a vanilla style. I just tested with a local .Rprofile under with
R-2.13.0 under Windows.
Perhaps it is specific to the package your are talking about? Perhaps
you can make it available for further inspection of this problem?

Uwe Ligges




On 19.04.2011 01:55, Gene Leynes wrote:
> Hello,
>
> I was having trouble passing in command line options when doing an package
> install earlier.
>
>> From An Introduction in R
>
>> In addition, you can
use25<http://cran.r-project.org/doc/manuals/R-intro.html#fn-25>options
>> --arch=, --no-environ, --no-init-file, --no-site-file and
--vanillabetween
>> R and CMD: these affect any R processes run by the tools. (Here
--vanillais equivalent to --no-environ
>> --no-site-file --no-init-file.)
>>
> R CMD cmd arg
>
>
> When I tried doing this, two unexpected things happened:
>
>     1. --vanilla doesn't have an effect when used with R CMD  (R
--vanilla
>     CMD INSTALL rj_0.5.2-1.tar.gz)
>     2. When loading my functions from "Rprofile.site" that seems
to interfere
>     with the INSTALL command.  I temporarily deleted the Rprofile.site
contents,
>     and the install worked as expected.  Maybe it's because I'm
also parsing the
>     arguments after the --args flag?
>
> The second item is probably "user error" on my part.
> The first item seems like a possible R bug, but I'm not ruling out
"user
> error".  See "?user.error" for a sample error message
>
>
> I finally got the package installed, but wanted to report this if it really
> is a bug.
>
>
>
> The lines below come from a DOS prompt:
>
> c:\Users\gene.leynes\Downloads>dir /B
> gdata_2.8.1.zip
> rj_0.5.2-1.tar.gz
> c:\Users\gene.leynes\Downloads>R --vanilla
>
> R version 2.13.0 (2011-04-13)
> Copyright (C) 2011 The R Foundation for Statistical Computing
> ISBN 3-900051-07-0
> Platform: i386-pc-mingw32/i386 (32-bit)
>
> R is free software and comes with ABSOLUTELY NO WARRANTY.
> You are welcome to redistribute it under certain conditions.
> Type 'license()' or 'licence()' for distribution details.
>
>    Natural language support but running in an English locale
>
> R is a collaborative project with many contributors.
> Type 'contributors()' for more information and
> 'citation()' on how to cite R or R packages in publications.
>
> Type 'demo()' for some demos, 'help()' for on-line help, or
> 'help.start()' for an HTML browser interface to help.
> Type 'q()' to quit R.
>
>> R.Version()
> $platform
> [1] "i386-pc-mingw32"
>
> $arch
> [1] "i386"
>
> $os
> [1] "mingw32"
>
> $system
> [1] "i386, mingw32"
>
> $status
> [1] ""
>
> $major
> [1] "2"
>
> $minor
> [1] "13.0"
>
> $year
> [1] "2011"
>
> $month
> [1] "04"
>
> $day
> [1] "13"
>
> $`svn rev`
> [1] "55427"
>
> $language
> [1] "R"
>
> $version.string
> [1] "R version 2.13.0 (2011-04-13)"
>
>> q()
>
> c:\Users\gene.leynes\Downloads>R --vanilla CMD INSTALL rj_0.5.2-1.tar.gz
> Function_II.R :
> Function_IM.R :
> Function_NAsummary.R :
> Function_YahooAdjCloseAsZoo.R :
> Function_addbg.R :
> Function_bgfun.R :
> Function_boxplot2.R :
> Function_clipdir.R :
> Function_clipper.R :
> Function_clipstar.R :
> Function_comma.R :
> Function_count.na.R :
> Function_dftab.R :
> Function_enclose.R :
> Function_eye.R :
> Function_factors.R :
> Function_finder.R :
> Function_headstr.R :
> Function_inin.R :
> Function_lll.R :
> Function_loader.R :
> Function_ma.R :
> Function_makebm.R :
> Function_makegm.R :
> Function_makegroups.R :
> Function_plot100colors.R :
> Function_plotRunningSd.R :
> Function_saver.R :
> Function_sourcedir.R :
> Function_stacker.R :
> Function_subzoo.R :
> Function_svr.R :
> Function_tictoc.R :
> Function_writexls.R :
> Function_wtt_3.0.R :
> heatplot.R :
> loadfuns.R :
> Opening: nextArgrj_0.5.2-1.tar.gz
> Warning in file(file, "r", encoding = encoding) :
>    cannot open file 'nextArgrj_0.5.2-1.tar.gz': No such file or
directory
> Error in file(file, "r", encoding = encoding) :
>    cannot open the connection
> Calls: source ->  file
> Execution halted
>
> c:\Users\gene.leynes\Downloads>
>
> 	[[alternative HTML version deleted]]
>
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