[R] Ordination plot option missing from PCA dialog

[Bryan Hanson]

Bill, this may be a long shot, but the error you report is extremely close
to what you get on a Mac when trying to load rgl when X11 is missing.  Bryan
**************
Bryan Hanson
Professor of Chemistry & Biochemistry
DePauw University
602 S. College Avenue
Greencastle, IN 46135
PHONE     765-658-4602
FAX     765-658-6084
hanson at depauw.edu
academic.depauw.edu/~hanson/deadpezsociety.html
www.depauw.edu/acad/chemistry/
academic.depauw.edu/~hanson/UMP/index.html




On 10/22/10 12:59 PM, "William C. Nelson, PhD" <wcnelson at usc.edu> wrote:

> 
>    My apologies for the too-brief description of my problem. Let me start
>    again.
>    As I said before, I have R-2.11.1 installed on SLES 10.1. I have installed
>    on top of that Rcmdr v 1.6.0 and many associated packages (the default
>    suggestions during Rcmdr installation).  Upon starting Rcmdr, I get the
>    following in the parent R terminal:
>> library(Rcmdr)
>    Loading required package: tcltk
>    Loading Tcl/Tk interface ... done
>    Loading required package: car
>    Loading required package: MASS
>    Loading required package: nnet
>    Loading required package: survival
>    Loading required package: splines
>    I also get a dialog box saying that rgl is missing and some functions may
>    not  be available (hrm...). If I request that rgl be installed, rgl is
>    downloaded, appears to compile with no errors, but at the end I see:
>    ** testing if installed package can be loaded
>    Error : .onLoad failed in loadNamespace() for 'rgl', details:
>      call: dyn.load(file, DLLpath = DLLpath, ...)
>      error: unable to load shared library
>    '/data/packages/R-2.11.1/library/rgl/libs/rgl.so':
>      libpng14.so.14: cannot open shared object file: No such file or directory
>    ERROR: loading failed
>    * removing ‘/data/packages/R-2.11.1/library/rgl’
>    I would like to be able to create an ordination plot for a PCA. I found a
>    tutorial ([1]R with Rcmdr BASIC INSTRUCTIONS); it seemed like a good place
>    to  start.  Following  along  its  section  on  PCA,  I  navigated  to
>    Statistics:Dimensional Analysis:Principal-components analysis, which brings
>    up a dialog box. In the tutorial there is an image of the dialog box, and
> it
>    shows an option to create an ordination plot, however in the dialog box
> that
>    comes up on my installation, the Ordination Plot option is missing.
>    Is my problem with rgl related to the missing option? Any other suggestions
>    as to why the option is missing?
>    Any ideas as to why rgl won't load?
>    thanks,
>    Bill
> --
> -----------------------------------------------------
> William C. Nelson, PhD
> Research Asst Professor
> University of Southern California,
> College of Letters, Arts and Sciences,
> Department of Biological Sciences,
> Marine Environmental Biology Division,
> Wrigley Institute for Environmental Studies
> 310-510-4097
> [2]wcnelson at usc.edu
> 
> References
> 
>    1. http://www.mzandee.net/%7Ezandee/statistiek/R/Rmanual_paper.pdf
>    2. mailto:wcnelson at usc.edu
> ______________________________________________
> R-help at r-project.org mailing list
> 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.