R help - Dec 2010 - pdf() Export Problem: Circles Interpreted as Fonts from ggplot2 Graphics

Good Evening:

I am putting together a large report with plots created in R, V 2.12.0. Most of 
the plots are created using ggplot2 V0.8.9. I use R's pdf() command to
export
the plot to a pdf file. I am exporting the plots and attempting to edit the 
title text in?Inkscape?primarily because ggplot2 does not support superscript or
subscript formatting in the title text. For the report I am working on these 
formats are essential. 


I am running the R version mentioned above and Inkscape 0.48 on a Windows XP 
machine with the following system details:

OS Name Microsoft Windows XP Professional 
Version 5.1.2600 Service Pack 3 Build 2600
System Type X86-based PC 
Processor x86 Family 6 Model 15 Stepping 11 GenuineIntel ~1995 Mhz 
BIOS Version/Date LENOVO 7LETB7WW (2.17 ), 4/25/2008 
Total Physical Memory 4,096.00 MB 
Available Physical Memory 1.62 GB 
Total Virtual Memory 2.00 GB 
Available Virtual Memory 1.96 GB 
Page File Space 8.69 GB 

I do not think this is a ggplot2-specific problem.

I use a simple version of the pdf() command to export the file that includes the
file name and path only. The PDF looks fine actually, it is the restriction on 
text editing caused by Adobe's intepretation of the graphic that is the
problem.

I have attached two files to this email:

1. An R-exported pdf file exactly as it looks as opened in Adobe Reader V9. This
file is named exportforinkscapeforum.pdf.

2. An example of the way the plot appears after I import it into Inkscape. This 
file is named Example of How Imported File Appears in Inkscape.pdf.

The problem I have is that when I import the pdf into Inkscape the solid, filled
circles on the plot are converted to the lower case letter q. I read about 
similar problems on R-help.org and other R-related sites, but the descriptions I
found seemed to indicate that the lower case q was visible in the pdf file when 
opened with Adobe or other viewers. This does not seem to be my problem. 


I posted this problem to the Inkscape forum and received a reply suggesting that
Adobe is interpreting the solid, filled circles not as solid, filled circles but
as font objects. The user who replied suggested that I look for the Zpf Dingbat 
font embedded in the PDF and it is in fact there. This is the font Adobe is 
applying to my solid, filled circles. Apparently there are known issues with 
Inkscape's ability to import fonts via PDF and the problem is documented on 
their bug list.

The Inkscape user asked if there was any way that R could be coerced to use 
actual circles or paths for the points. I am not aware of a way to do this so 
any input from anyone here would be greatly appreciated.

To briefly return to my main problem: if there is another way to edit the main 
title text to include a superscripted character (in my particular case it is 
Unicode character 00AE, the registered trademark sign) I would appreciate the 
insight. 


Any help on this issue would be appreciated.

Adam


      
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You could try using the Symbol font's solid circle as pch ,  octmode  
267,  if I am reading the output from the TestChars function on the  
points help page correctly.

BTW, I opened your document in GIMP and it shows "q"'s as well.

-- 
david.


On Dec 30, 2010, at 5:59 PM, Adam Carr wrote:
> Good Evening:
>
> I am putting together a large report with plots created in R, V  
> 2.12.0. Most of
> the plots are created using ggplot2 V0.8.9. I use R's pdf() command  
> to export
> the plot to a pdf file. I am exporting the plots and attempting to  
> edit the
> title text in Inkscape primarily because ggplot2 does not support  
> superscript or
> subscript formatting in the title text. For the report I am working  
> on these
> formats are essential.
>
>
> I am running the R version mentioned above and Inkscape 0.48 on a  
> Windows XP
> machine with the following system details:
>
> OS Name Microsoft Windows XP Professional
> Version 5.1.2600 Service Pack 3 Build 2600
> System Type X86-based PC
> Processor x86 Family 6 Model 15 Stepping 11 GenuineIntel ~1995 Mhz
> BIOS Version/Date LENOVO 7LETB7WW (2.17 ), 4/25/2008
> Total Physical Memory 4,096.00 MB
> Available Physical Memory 1.62 GB
> Total Virtual Memory 2.00 GB
> Available Virtual Memory 1.96 GB
> Page File Space 8.69 GB
>
> I do not think this is a ggplot2-specific problem.
>
> I use a simple version of the pdf() command to export the file that  
> includes the
> file name and path only. The PDF looks fine actually, it is the  
> restriction on
> text editing caused by Adobe's intepretation of the graphic that is  
> the problem.
>
> I have attached two files to this email:
>
> 1. An R-exported pdf file exactly as it looks as opened in Adobe  
> Reader V9. This
> file is named exportforinkscapeforum.pdf.
>
> 2. An example of the way the plot appears after I import it into  
> Inkscape. This
> file is named Example of How Imported File Appears in Inkscape.pdf.
>
> The problem I have is that when I import the pdf into Inkscape the  
> solid, filled
> circles on the plot are converted to the lower case letter q. I read  
> about
> similar problems on R-help.org and other R-related sites, but the  
> descriptions I
> found seemed to indicate that the lower case q was visible in the  
> pdf file when
> opened with Adobe or other viewers. This does not seem to be my  
> problem.
>
>
> I posted this problem to the Inkscape forum and received a reply  
> suggesting that
> Adobe is interpreting the solid, filled circles not as solid, filled  
> circles but
> as font objects. The user who replied suggested that I look for the  
> Zpf Dingbat
> font embedded in the PDF and it is in fact there. This is the font  
> Adobe is
> applying to my solid, filled circles. Apparently there are known  
> issues with
> Inkscape's ability to import fonts via PDF and the problem is  
> documented on
> their bug list.
>
> The Inkscape user asked if there was any way that R could be coerced  
> to use
> actual circles or paths for the points. I am not aware of a way to  
> do this so
> any input from anyone here would be greatly appreciated.
>
> To briefly return to my main problem: if there is another way to  
> edit the main
> title text to include a superscripted character (in my particular  
> case it is
> Unicode character 00AE, the registered trademark sign) I would  
> appreciate the
> insight.
>
>
> Any help on this issue would be appreciated.
>
> Adam
>
>
> <Example of How Imported PDF Looks in  
> Inkscape 
> .pdf 
> > 
> < 
> exportforinkscapeforum 
> .pdf>______________________________________________
> 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.
David Winsemius, MD
West Hartford, CT

> The Inkscape user asked if there was any way that R could be coerced to use
> actual circles or paths for the points. I am not aware of a way to do this
so
> any input from anyone here would be greatly appreciated.
pdf(..., useDingbats = F)

Hadley

-- 
Assistant Professor / Dobelman Family Junior Chair
Department of Statistics / Rice University
http://had.co.nz/

?points
pdf(file="aplot.pdf")
plot(1,1, pch=183, font=5)
dev.off()


On Dec 30, 2010, at 5:59 PM, Adam Carr wrote:
> Good Evening:
>
> I am putting together a large report with plots created in R, V  
> 2.12.0. Most of
> the plots are created using ggplot2 V0.8.9. I use R's pdf() command  
> to export
> the plot to a pdf file. I am exporting the plots and attempting to  
> edit the
> title text in Inkscape primarily because ggplot2 does not support  
> superscript or
> subscript formatting in the title text. For the report I am working  
> on these
> formats are essential.
>
David Winsemius, MD
West Hartford, CT

Hi Adam:

On Thu, Dec 30, 2010 at 2:59 PM, Adam Carr <adamlcarr@yahoo.com> wrote:
> Good Evening:
>
> I am putting together a large report with plots created in R, V 2.12.0.
> Most of
> the plots are created using ggplot2 V0.8.9. I use R's pdf() command to
> export
> the plot to a pdf file. I am exporting the plots and attempting to edit the
> title text in Inkscape primarily because ggplot2 does not support
> superscript or
> subscript formatting in the title text. For the report I am working on
> these
> formats are essential.
>
I have a counterexample to your claim that ggplot2 does not support
superscript or subscript formatting in the title :)

df <- data.frame(u = (1:10)^2, v = exp(seq(0, 4.5, by = 0.5)))
g <- ggplot(df, aes(u, v))
g + geom_point() + opts(title = expression(x[1]^2~~'and'~~e^y))
g + geom_point() + opts(title = expression(x[1]^2~~'and'~~e^y)) +
     xlab(expression(x[1]^2)) + ylab(expression(e^y))

...unless I'm misunderstanding what you mean by 'formatting'
subscripts and
superscripts. If so, some elaboration of the problem would be helpful.

HTH,
Dennis
>
> I am running the R version mentioned above and Inkscape 0.48 on a Windows
> XP
> machine with the following system details:
>
> OS Name Microsoft Windows XP Professional
> Version 5.1.2600 Service Pack 3 Build 2600
> System Type X86-based PC
> Processor x86 Family 6 Model 15 Stepping 11 GenuineIntel ~1995 Mhz
> BIOS Version/Date LENOVO 7LETB7WW (2.17 ), 4/25/2008
> Total Physical Memory 4,096.00 MB
> Available Physical Memory 1.62 GB
> Total Virtual Memory 2.00 GB
> Available Virtual Memory 1.96 GB
> Page File Space 8.69 GB
>
> I do not think this is a ggplot2-specific problem.
>
> I use a simple version of the pdf() command to export the file that
> includes the
> file name and path only. The PDF looks fine actually, it is the restriction
> on
> text editing caused by Adobe's intepretation of the graphic that is the
> problem.
>
> I have attached two files to this email:
>
> 1. An R-exported pdf file exactly as it looks as opened in Adobe Reader V9.
> This
> file is named exportforinkscapeforum.pdf.
>
> 2. An example of the way the plot appears after I import it into Inkscape.
> This
> file is named Example of How Imported File Appears in Inkscape.pdf.
>
> The problem I have is that when I import the pdf into Inkscape the solid,
> filled
> circles on the plot are converted to the lower case letter q. I read about
> similar problems on R-help.org and other R-related sites, but the
> descriptions I
> found seemed to indicate that the lower case q was visible in the pdf file
> when
> opened with Adobe or other viewers. This does not seem to be my problem.
>
>
> I posted this problem to the Inkscape forum and received a reply suggesting
> that
> Adobe is interpreting the solid, filled circles not as solid, filled
> circles but
> as font objects. The user who replied suggested that I look for the Zpf
> Dingbat
> font embedded in the PDF and it is in fact there. This is the font Adobe is
> applying to my solid, filled circles. Apparently there are known issues
> with
> Inkscape's ability to import fonts via PDF and the problem is
documented on
> their bug list.
>
> The Inkscape user asked if there was any way that R could be coerced to use
> actual circles or paths for the points. I am not aware of a way to do this
> so
> any input from anyone here would be greatly appreciated.
>
> To briefly return to my main problem: if there is another way to edit the
> main
> title text to include a superscripted character (in my particular case it
> is
> Unicode character 00AE, the registered trademark sign) I would appreciate
> the
> insight.
>
>
> Any help on this issue would be appreciated.
>
> Adam
>
>
>
> ______________________________________________
> R-help@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.
>
>
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