Dear BioC

I am having problems installing gplots and gdata on a Linux Ubuntu 9.10
machine.

The installation runs as far as installing help indices where it runs
out of memory (4Gb) and reports a segmentation error (see below).  

* Installing *source* package ‘gdata’ ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
 >>> Building/Updating help pages for package 'gdata'
     Formats: text html latex example 
  Args                              text    html    latex   example
  ConvertMedUnits                   text    html    latex   example
  MedUnits                          text    html    latex   example
  aggregate.table                   text    html    latex   example
  bindData                          text    html    latex   example
  cbindX                            text    html    latex   example
  combine                           text    html    latex   example
  drop.levels                       text    html    latex   example
  elem                              text    html    latex   example
  env                               text    html    latex   example
  frameApply                        text    html    latex   example
  gdata-package                     text    html    latex
  getDateTimePart                   text    html    latex   example
  humanReadable                     text    html    latex   example
  installXLSXsupport                text    html    latex   example
  interleave                        text    html    latex   example
Out of memory!
Segmentation fault
ERROR: building help failed for package ‘gdata’
* Removing ‘/home/ross/R/i486-pc-linux-gnu-library/2.9/gdata’
* Installing *source* package ‘gplots’ ...
** R
** data
** inst
** preparing package for lazy loading
Warning in library(pkg, character.only = TRUE, logical.return = TRUE,
lib.loc = lib.loc) :
  there is no package called 'gdata'
Error : package 'gdata' could not be loaded
ERROR: lazy loading failed for package ‘gplots’
* Removing ‘/home/ross/R/i486-pc-linux-gnu-library/2.9/gplots’

The downloaded packages are in
	‘/tmp/Rtmp49KOvi/downloaded_packages’
Warning messages:
1: In install.packages(pkgs = pkgs, repos = repos, dependencies =
dependencies,  :
  installation of package 'gdata' had non-zero exit status
2: In install.packages(pkgs = pkgs, repos = repos, dependencies =
dependencies,  :
  installation of package 'gplots' had non-zero exit status


The sessionInfo is as follows:

> sessionInfo()
R version 2.9.2 (2009-08-24) 
i486-pc-linux-gnu 

locale:
LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_AU.UTF-8;LC_IDENTIFICATION=C

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods
base     

other attached packages:
[1] Revobase_0.2-1

loaded via a namespace (and not attached):
[1] tools_2.9.2

Many thanks for your help with this.

Ross

Dr Ross Chapman BSc, MRes, PhD.
EcoGeonomix
PO BOX 8058
Ferntree Gully
Victoria 3156
Australia

www.ecogeonomix.com

	[[alternative HTML version deleted]]

