On Fri, 11 Nov 2005, Peter Dalgaard wrote:
Something might have slipped by me, but I got into the following situation
installing Rcmdr:
install.packages() does indeed have code to check for dependencies of
dependencies. I got the message
also installing the dependencies 'acepack', 'scatterplot3d', 'quadprog',
'fBasics', 'Hmisc', 'mlbench', 'randomForest', 'SparseM', 'xtable', 'oz',
'leaps', 'dynlm', 'e1071', 'tseries', 'chron', 'fCalendar', 'its', 'DAAG',
'abind', 'car', 'effects', 'lmtest', 'multcomp', 'mvtnorm', 'relimp',
'sandwich', 'strucchange', 'zoo'
The problem is the ordering. Rcmdr does have mvtnorm in the 'Suggests'
list, and has it after 'multcomp', and install.packages does not check
that the Suggests list does not have inter-dependencies.
So we do `do something smarter', but not smart enough.
< install.packages("Rcmdr",depend=TRUE) >
Oodles of Output, until:
* Installing *source* package 'multcomp' ...
** R
** data
** inst
** preparing package for lazy loading
Error in dyn.load(x, as.logical(local), as.logical(now)) :
unable to load shared library
'/home/bs/pd/Rlibrary/mvtnorm/libs/mvtnorm.so':
/home/bs/pd/Rlibrary/mvtnorm/libs/mvtnorm.so: cannot open shared object file:
No such file or directory
Execution halted
.... Several oodles more for remaining packages ....
** building package indices ...
* DONE (strucchange)
The downloaded packages are in
/tmp/RtmpF23254/downloaded_packages
Warning messages:
1: installation of package 'multcomp' had non-zero exit status in:
install.packages("Rcmdr", depend = TRUE)
2: cannot create HTML package index in: tools:::unix.packages.html(.Library)
OK, so we start Rcmdr
library(Rcmdr)
Loading required package: tcltk
Loading required package: car
it then detects that multcomp is missing and asks for permission to
install it, giving the same result.
The thing appears to be that multcomp depends on mvtnorm, but the
extra dependency goes undetected. Manual installation of the two
works.
A workaround is that John adds mvtnorm to the Suggested list for
Rcmdr, but I wonder if we couldn't do something smarter.
version
_
platform x86_64-unknown-linux-gnu
arch x86_64
os linux-gnu
system x86_64, linux-gnu
status
major 2
minor 2.0
year 2005
month 10
day 06
svn rev 35749
language R
.libPaths()
[1] "/home/bs/pd/Rlibrary" "/usr/lib64/R/library"
--
O__ ---- Peter Dalgaard Øster Farimagsgade 5, Entr.B
c/ /'_ --- Dept. of Biostatistics PO Box 2099, 1014 Cph. K
(*) \(*) -- University of Copenhagen Denmark Ph: (+45) 35327918
~~~~~~~~~~ - ([EMAIL PROTECTED]) FAX: (+45) 35327907
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--
Brian D. Ripley, [EMAIL PROTECTED]
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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