R devel - Jun 2006 - install.packages() does not warn when 'lib' arg is missing on Linux or Windows

Hello,

Man page for 'install.packages' says that if the 'lib' arg is
missing,
then it "defaults to '.libPaths()[1]' with a warning".
But, given the 'install.packages' source code, it seems that this
warning
is issued only when 'length(.libPaths()) > 1'.
So typically, this warning will appear on Mac OS X but not on a Linux
or Windows systems with default settings.
On my Mac OS X system:

     > .libPaths()
    [1] "/Users/biocbuild/Library/R/Library"
    [2]
"/Library/Frameworks/R.Framework/Versions/2.3/Resources/library"

but on my Linux system:

     > .libPaths()
    [1] "/home/hpages/arch/x86_64/R-2.3.1/library"

I'm using R-2.3.1 on both systems.
Best,


H.

-- 
------------------------
Herv? Pag?s
E-mail: hpages at fhcrc.org
 Phone: (206) 667-5791
   Fax: (206) 667-1319

On Thu, 8 Jun 2006, Herve Pages wrote:
> Hello,
>
> Man page for 'install.packages' says that if the 'lib' arg
is missing,
> then it "defaults to '.libPaths()[1]' with a warning".
> But, given the 'install.packages' source code, it seems that this
warning
> is issued only when 'length(.libPaths()) > 1'.
> So typically, this warning will appear on Mac OS X but not on a Linux
> or Windows systems with default settings.
Yes, and what is the problem with that?
> On my Mac OS X system:
>
>     > .libPaths()
>    [1] "/Users/biocbuild/Library/R/Library"
>    [2]
"/Library/Frameworks/R.Framework/Versions/2.3/Resources/library"
>
> but on my Linux system:
>
>     > .libPaths()
>    [1] "/home/hpages/arch/x86_64/R-2.3.1/library"
>
> I'm using R-2.3.1 on both systems.
> Best,
>
>
> H.
>
>
-- 
Brian D. Ripley,                  ripley at stats.ox.ac.uk
Professor of Applied Statistics,  http://www.stats.ox.ac.uk/~ripley/
University of Oxford,             Tel:  +44 1865 272861 (self)
1 South Parks Road,                     +44 1865 272866 (PA)
Oxford OX1 3TG, UK                Fax:  +44 1865 272595

Herve,

On Jun 8, 2006, at 9:08 PM, Herve Pages wrote:
> Man page for 'install.packages' says that if the 'lib' arg
is missing,
> then it "defaults to '.libPaths()[1]' with a warning".
Where are you quoting from? I read (R 2.3.1):

install.packages can be used to install new packages/bundles. It  
takes a vector of names and a destination library, downloads the  
packages from the repositories and installs them. (If the library is  
omitted it defaults to the first directory in .libPaths(), with a  
warning if there is more than one.)

and that description is correct.

> But, given the 'install.packages' source code, it seems that this  
> warning is issued only when 'length(.libPaths()) > 1'.
This is what the man page says ...

> So typically, this warning will appear on Mac OS X but not on a  
> Linux or Windows systems with default settings.
... and neither on Mac OS X with default settings.

> On my Mac OS X system:
>
>> .libPaths()
>     [1] "/Users/biocbuild/Library/R/Library"
^^ - this is your custom setting, it is not the default
>     [2] "/Library/Frameworks/R.Framework/Versions/2.3/Resources/ 
> library"
>
The default on OS X is

 > .libPaths()
[1] "/Library/Frameworks/R.framework/Resources/library"
 >

in the shell and

 > .libPaths()
[1] "/Library/Frameworks/R.framework/Versions/2.3/Resources/library"
 >

in the GUI (since v1.16).

Cheers,
Simon