



Thanks, David,

utils::str(pdf.options()) returns exactly the same results
as yours. The colormodel is set to rgb already. 

The reason I thought this is a bug is that the same plot function
+ col option works fine when pch=0 or other numbers, except for 1 or 16 (empty or
solid circle) or any letter. Therefore, I have reason to believe that this is
not something related to general plotting setting. And also I reproduced the
same problem in different versions of R (both 2.4 and 2.8). Therefore, I don’t
think this is a problem with my specific R version.

Heyi



--- On Fri, 3/20/09, David Winsemius <dwinsemius@comcast.net> wrote:
From: David Winsemius <dwinsemius@comcast.net>
Subject: Re: [R] Bug with the col option in plot function
To: xiaoheyiyh@yahoo.com
Cc: "r-help@r-project.org Help" <r-help@r-project.org>, "R-SIG-Mac Mailing List" <r-sig-mac@stat.math.ethz.ch>
Date: Friday, March 20, 2009, 7:45 PM

Really belongs o R-SIG-Mac list and have copied it there. I cannot reproduce on
my Mac. I get the same colors on the pdf file with that code as I do on the
screen device. I have in in the past needed to set up a device before plotting:
trellis.device(device="postscript", color = TRUE)  ... but you are
not using a trellis function or creating postscript.

What does  utils::str(pdf.options()) return?
On mine I get this
List of 15
 $ width      : num 7
 $ height     : num 7
 $ onefile    : logi TRUE
 $ family     : chr "Helvetica"
 $ title      : chr "R Graphics Output"
 $ fonts      : NULL
 $ version    : chr "1.4"
 $ paper      : chr "special"
 $ encoding   : chr "default"
 $ bg         : chr "transparent"
 $ fg         : chr "black"
 $ pointsize  : num 12
 $ pagecentre : logi TRUE
 $ colormodel : chr "rgb"
 $ useDingbats: logi TRUE


Perhaps this could be a cure?:
 pdf.options(colormodel = "rgb")

You probably ought to update as well before raising the bug-flag.

--David Winsemius, MD
Heritage Laboratories
West Hartford, CT


> sessionInfo()
R version 2.8.1 Patched (2009-01-19 r47650)
i386-apple-darwin9.6.0

locale:
en_US.UTF-8/en_US.UTF-8/C/C/en_US.UTF-8/en_US.UTF-8

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

other attached packages:
[1] termstrc_1.1    Design_2.1-2    Hmisc_3.5-2     survival_2.34-1

loaded via a namespace (and not attached):
[1] cluster_1.11.12 grid_2.8.1      lattice_0.17-20 tools_2.8.1
On Mar 20, 2009, at 6:47 PM, heyi xiao wrote:

> 
> 
> 
> 
> I lose control on colors when I plot points with pch=1 or 16
> (empty or solid circle) or any letter, say "A". For example:
> 
> 
> 
> x=runif(5)
> 
> y=runif(5)
> 
> pdf("plot.pdf")
> 
> plot(x, y,
> type='p', pch=1, col = 1:5) #just black points
> 
> plot(x, y,
> type='p', pch=0, col = 1:5) #points with different colors
> 
> dev.off()
> 
> 
> 
> This problem occurred for different versions of R under Mac
> OS X 10.4. not sure whether this is true for other operating systems. I
used my
> most basic settings of R without any special package loaded. Any
suggestions/ideas
> would be appreciated.
> 
> 
> 
>> sessionInfo()
> 
> R version 2.8.0 (2008-10-20)
> 
> powerpc-apple-darwin8.11.1
> 
> 
> 
> locale:
> 
> C
> 
> 
> 
> attached base packages:
> 
> [1] stats     graphics
> grDevices utils     datasets  methods
> base





      
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