[R] is there a way to update both packages if they occur in 2 libraries?

[Uwe Ligges]

On 20.10.2010 13:59, Chris Howden wrote:
> Thanks Uwe,
>
> It may operate like that on most peoples machines, but either its not
> operating like that on mine. Or I have another problem :-(
>
> As u can see from my code below I've run update.packages(checkBuilt=TRUE)
> and my 'private' library is in my LibPaths()...
>
> However when I try to load the foreign package I get an error message
> telling me "package "foreign' was built before R 2.10.0:


Ah, I haven't read your original message carefully enough: Package 
foreign is a base package. Base packages should only be in the R base 
library, not in any other library. They cannot be updated via 
update.packages().

Best wishes,
Uwe


> please re-install
> it". But then if I remove my private library from the search path I can
> load foreign....so this suggests the problem is with the foreign package
> in my 'private library'.
>
> Furthermore, if I look at the description file for foreign it claims to
> have been built for R package 2.9.2. (I've copied it below).
>
> I'm concluding the issue is with the foreign package in my private library
> since it claims to have been built for R 2.9.2&  I can get the package to
> load if I remove my private library from the library search path and laod
> the foreaign package from the base library.
> 	I'm then concluding the problem is due to it not updating since
> the description file 	claims it was built for R version 2.9.2 and due to
> the error message I'm getting ie 	"foreign' was built before R
> 2.10.0: please re-install it"
>
>
> BUT I'm happy to be proven wrong... I just can't think of what else the
> problem could be?????
>
>
>
> FOREIGN DESCRIPTION FILE
> Package: foreign
> Priority: recommended
> Version: 0.8-39
> Date: 2010-01-03
> Title: Read Data Stored by Minitab, S, SAS, SPSS, Stata, Systat, dBase,
>          ...
> Depends: R (>= 2.6.0), stats
> Imports: methods, utils
> Maintainer: R-core<R-core at r-project.org>
> Author: R-core members, Saikat DebRoy<saikat at stat.wisc.edu>, Roger
>          Bivand<Roger.Bivand at nhh.no>  and others: see COPYRIGHTS file in
>          the sources.
> Description: Functions for reading and writing data stored by
>          statistical packages such as Minitab, S, SAS, SPSS, Stata,
>          Systat, ..., and for reading and writing .dbf (dBase) files.
> LazyLoad: yes
> License: GPL (>= 2)
> BugReports: http://bugs.r-project.org
> Packaged: 2010-01-03 10:24:13 UTC; ripley
> Repository: CRAN
> Date/Publication: 2010-01-03 14:06:04
> Built: R 2.9.2; i386-pc-mingw32; 2010-01-03 23:21:40 UTC; windows
>
>
>
>
>
>
> Chris Howden
> Founding Partner
> Tricky Solutions
> Tricky Solutions 4 Tricky Problems
> Evidence Based Strategic Development, IP development, Data Analysis,
> Modelling, and Training
> (mobile) 0410 689 945
> (fax / office) (+618) 8952 7878
> chris at trickysolutions.com.au
>
>
> -----Original Message-----
> From: Uwe Ligges [mailto:ligges at statistik.tu-dortmund.de]
> Sent: Wednesday, 20 October 2010 9:15 PM
> To: Chris Howden
> Cc: r-help
> Subject: Re: [R] is there a way to update both packages if they occur in 2
> libraries?
>
> update.packages() updates all packages in all libraries listed in
> .libPaths() unless you specify an explicit library.
>
> It may happen that the version number has not changed and you just want
> to reinstall for your upgraded R. In that case use:
>
> update.packages(checkBuilt=TRUE)
>
> Best,
> Uwe Ligges
>
>
>
> On 20.10.2010 04:07, Chris Howden wrote:
>> Hi everyone,
>>
>>
>>
>> I've recently added a private library as a way to manage my R libraries.
> And
>> I did this by simply copying my old library to a new folder and then
> linking
>> this to R by setting my R_LIBS  environmental variable in .Renviron.
>>
>>
>>
>> However I have run into a problem.
>>
>>
>>
>> When I update my packages it is not updating those that are current in
> the
>> base R library.
>>
>>
>>
>> This means I can't load packages that are included in base R, since R is
>> looking in my private library first and when it finds the package it
> tries
>> to use it. But it's an outdated version.
>>
>>
>>
>> The easiest solution I can think of is to update both libraries, but
> when I
>> run update.packages(lib.loc="private library location" ask = FALSE,
>> checkBuilt=TRUE) it's not updating them.
>>
>>
>>
>> So I was wondering if there is a way to update all packages  that occur
> in
>> all libraries?
>>
>>
>>
>>
>>
>> (Note that I can think of other solutions to my problem, but they are
> all
>> time consuming and defeats the purpose of why I want a private library
> i.e.
>> it makes updating R easier since I don't need to copy over the library
>> folder each time nor update any environmental variables. So far the best
>> alternative I've come up with is to delete all the duplicate base R
>> libraries from my private library)
>>
>>
>>
>> If anyone is interested the code I used to understand my problem is
> below.
>>
>>
>>
>>
>>
>> Thanks everyone
>>
>>
>>
>>
>>
>>
>>
>>> update.packages(lib.loc="C:\\Program Files\\R\\library", ask = FALSE,
>> checkBuilt=TRUE)
>>
>> --- Please select a CRAN mirror for use in this session ---
>>
>>
>>
>>> update.packages(ask = FALSE, checkBuilt = TRUE)
>>
>>
>>
>> Foreign package won't load
>>
>>> library(foreign)
>>
>> Error: package 'foreign' was built before R 2.10.0: please re-install it
>>
>>
>>
>>> .libPaths()
>>
>> [1] "C:\\Program Files\\R\\library"   "C:/PROGRA~1/R/R-212~1.0/library"
>>
>>
>>
>>> .libPaths("new")
>>
>>
>>
>>> .libPaths()
>>
>> [1] "C:/PROGRA~1/R/R-212~1.0/library"
>>
>>
>>
>> Foreign package will load
>>
>>> library(foreign)
>>
>>
>>
>>
>>
>>
>>
>>
>>
>>
>>
>> Chris Howden
>>
>> Founding Partner
>>
>> Tricky Solutions
>>
>> Tricky Solutions 4 Tricky Problems
>>
>> Evidence Based Strategic Development, IP development, Data Analysis,
>> Modelling, and Training
>>
>> (mobile) 0410 689 945
>>
>> (fax / office) (+618) 8952 7878
>>
>> chris at trickysolutions.com.au
>>
>> 	[[alternative HTML version deleted]]
>>
>>
>>
>>
>> ______________________________________________
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>> https://stat.ethz.ch/mailman/listinfo/r-help
>> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
>> and provide commented, minimal, self-contained, reproducible code.
>
> ______________________________________________
> R-help at r-project.org mailing list
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> PLEASE do read the posting guide http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.