[R] Another issue with the Matrix package *under R-devel*

Prof Brian Ripley ripley at stats.ox.ac.uk
Thu Aug 30 16:36:06 CEST 2007

I suspect you have not using a re-installed Matrix after re-building R.
I can reproduce the problem using a version of Matrix I installed under 
2.5.1, but not with one installed under R-devel this week.

Since R-devel is 'Under development' you may need to reinstall packages 
when it changes.  This is particularly prevalent with S4-using packages, 
as the methods code tends to capture the value of objects as they existed 
when a package was installed.  In this case log() was changed quite a few 
weeks ago, but Matrix needs to be reinstalled after other changes last 

For the record, the packages I know need to reinstalled under a recent 
R-devel are Matrix, distr, kernlab, kinship and matlab (but there may be 

And please use the appropriately named R-devel list for questions about 

On Thu, 30 Aug 2007, Tony Chiang wrote:

> Hi all,
> I am encountering a strange issue with the Matrix package. I have just built
> R-devel from source on my macbook pro, and I wonder if others can reproduce
> this problem. I will give example code to go along:
> Starting a fresh R session:
> R version 2.6.0 Under development (unstable) (2007-08-30 r42697)
> Copyright (C) 2007 The R Foundation for Statistical Computing
> ISBN 3-900051-07-0
> ...
>> log(2)
> [1] 0.6931472
>> library(Matrix)
> Loading required package: lattice
>> log(2)
> Error in log(2) :
>  could not find symbol "base" in environment of the generic function
> There seems to be something wrong here and I cannot figure out what it is.
> Am I doing something wrong or is it an issue with Matrix (which is what I
> have narrowed it down to). I think that it might be a namespace collision or
> something, but I am certainly not sure.
> Here is my sessionInfo() output:
>> sessionInfo()
> R version 2.6.0 Under development (unstable) (2007-08-30 r42697)
> i386-apple-darwin8.10.1
> locale:
> C
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
> other attached packages:
> [1] Matrix_0.99875-2 lattice_0.16-3
> loaded via a namespace (and not attached):
> [1] grid_2.6.0
> Thanks.
> Tony
> 	[[alternative HTML version deleted]]
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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

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