R devel - Apr 2016 - R not responding (must force quit) when saving graphic to PDF (bug?)

Dear colleagues,

I wish to report a problem I encounter when trying to save a graphic to
file. When I produce a graphic and try to save it R becomes unresponsive
and I must force quit, and then restart R. The problem occurs when I try to
overwrite an existing graphic: for example when I made changes to the
graphic and want to save the graphic using the original file name. It only
happens when I use the menus to save files, not using script. It doesn't
happen when I save it as a new file. So, like this:

1. Make the graphic
2. Click File -> Save -> click on existing file name
3. Colour wheel appears and R is unresponsive.

Reproducible example:

x <- seq(1,10)
y <- x^2
plot(x,y, type="l") # Save as new file, all fine.

#Change plot and save as old plot file name:

plot(x,y, type="l", col=2)

# Click File -> Save
# 'Save quartz to PDF file' box opens
# Click on existing file name
# Colour wheel

Here is the sessionInfo():

R version 3.2.2 (2015-08-14)
Platform: x86_64-apple-darwin13.4.0 (64-bit)
Running under: OS X 10.11.1 (El Capitan)

locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8

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

I'm not sure if this is worthy of reporting but I was encouraged to submit
a report. It doesn't really make a huge impact on my workflow, but it can
be annoying.

-- 
Cheers,

Neil

Neil French Collier, PhD
Faculty of Sustainability
Leuphana University L?neburg
Rotenbleicher Weg 67
21335 Lueneburg
Germany

Twitter: @foodsecbio
email: collier at leuphana.de
Google Scholar
<https://scholar.google.com.au/citations?hl=en&user=xVdc-dsAAAAJ&view_op=list_works&sortby=pubdate>
Ideas for Sustainability <https://ideas4sustainability.wordpress.com>

	[[alternative HTML version deleted]]

Dear Neil

Have you tried with completely uninstalling your R, and reinstalling a more
recent version (e.g. 3.2.4 right now).
And then the same with your operating system - OS X is currently at 10.11.4.
There is likely not much interest (or benefit) in chasing such things in
obsolete versions.

And I think R-help would be the more appropriate place for this kind of
question.
	Wolfgang
> On Apr 11, 2016, at 18:37 GMT+2, Neil French Collier <neilandertal at
gmail.com> wrote:
> 
> Dear colleagues,
> 
> I wish to report a problem I encounter when trying to save a graphic to
> file. When I produce a graphic and try to save it R becomes unresponsive
> and I must force quit, and then restart R. The problem occurs when I try to
> overwrite an existing graphic: for example when I made changes to the
> graphic and want to save the graphic using the original file name. It only
> happens when I use the menus to save files, not using script. It
doesn't
> happen when I save it as a new file. So, like this:
> 
> 1. Make the graphic
> 2. Click File -> Save -> click on existing file name
> 3. Colour wheel appears and R is unresponsive.
> 
> Reproducible example:
> 
> x <- seq(1,10)
> y <- x^2
> plot(x,y, type="l") # Save as new file, all fine.
> 
> #Change plot and save as old plot file name:
> 
> plot(x,y, type="l", col=2)
> 
> # Click File -> Save
> # 'Save quartz to PDF file' box opens
> # Click on existing file name
> # Colour wheel
> 
> Here is the sessionInfo():
> 
> R version 3.2.2 (2015-08-14)
> Platform: x86_64-apple-darwin13.4.0 (64-bit)
> Running under: OS X 10.11.1 (El Capitan)
> 
> locale:
> [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
> 
> attached base packages:
> [1] stats     graphics  grDevices utils     datasets  methods   base
> 
> I'm not sure if this is worthy of reporting but I was encouraged to
submit
> a report. It doesn't really make a huge impact on my workflow, but it
can
> be annoying.
> 
> -- 
> Cheers,
> 
> Neil
> 
> Neil French Collier, PhD
> Faculty of Sustainability
> Leuphana University L?neburg
> Rotenbleicher Weg 67
> 21335 Lueneburg
> Germany
> 
> Twitter: @foodsecbio
> email: collier at leuphana.de
> Google Scholar
>
<https://scholar.google.com.au/citations?hl=en&user=xVdc-dsAAAAJ&view_op=list_works&sortby=pubdate>
> Ideas for Sustainability <https://ideas4sustainability.wordpress.com>
> 
> 	[[alternative HTML version deleted]]
> 
> ______________________________________________
> R-devel at r-project.org mailing list
> https://stat.ethz.ch/mailman/listinfo/r-devel
Wolfgang

Wolfgang Huber
Principal Investigator, EMBL Senior Scientist
Genome Biology Unit
European Molecular Biology Laboratory (EMBL)
Heidelberg, Germany

wolfgang.huber at embl.de
http://www.huber.embl.de

Dear Wolfgang,

Thanks for your response.

No, I haven't tried doing the complete reinstallation as you suggest. If I
recall correctly, this has happened on previous occasions but like I said
in my email it's not all that disruptive to my workflow. It's more like
a
'first world problem'.

I was encouraged to submit the query because I had correspondence with
someone involved with R development: "this shouldn't be happening"
was the
advice I received. I use R a lot but I'm not deeply knowledgable about
it's
inner workings.

To be frank, I really don't care if this is resolved. I was just trying to
help the R development group after receiving advice that it might be
important.

Again, thanks for your help.

Cheers

Neil

On Mon, Apr 11, 2016 at 6:41 PM, Wolfgang Huber <whuber at embl.de> wrote:
> Dear Neil
>
> Have you tried with completely uninstalling your R, and reinstalling a
> more recent version (e.g. 3.2.4 right now).
> And then the same with your operating system - OS X is currently at
> 10.11.4.
> There is likely not much interest (or benefit) in chasing such things in
> obsolete versions.
>
> And I think R-help would be the more appropriate place for this kind of
> question.
>         Wolfgang
>
> > On Apr 11, 2016, at 18:37 GMT+2, Neil French Collier <
> neilandertal at gmail.com> wrote:
> >
> > Dear colleagues,
> >
> > I wish to report a problem I encounter when trying to save a graphic
to
> > file. When I produce a graphic and try to save it R becomes
unresponsive
> > and I must force quit, and then restart R. The problem occurs when I
try
> to
> > overwrite an existing graphic: for example when I made changes to the
> > graphic and want to save the graphic using the original file name. It
> only
> > happens when I use the menus to save files, not using script. It
doesn't
> > happen when I save it as a new file. So, like this:
> >
> > 1. Make the graphic
> > 2. Click File -> Save -> click on existing file name
> > 3. Colour wheel appears and R is unresponsive.
> >
> > Reproducible example:
> >
> > x <- seq(1,10)
> > y <- x^2
> > plot(x,y, type="l") # Save as new file, all fine.
> >
> > #Change plot and save as old plot file name:
> >
> > plot(x,y, type="l", col=2)
> >
> > # Click File -> Save
> > # 'Save quartz to PDF file' box opens
> > # Click on existing file name
> > # Colour wheel
> >
> > Here is the sessionInfo():
> >
> > R version 3.2.2 (2015-08-14)
> > Platform: x86_64-apple-darwin13.4.0 (64-bit)
> > Running under: OS X 10.11.1 (El Capitan)
> >
> > locale:
> > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
> >
> > attached base packages:
> > [1] stats     graphics  grDevices utils     datasets  methods   base
> >
> > I'm not sure if this is worthy of reporting but I was encouraged
to
> submit
> > a report. It doesn't really make a huge impact on my workflow, but
it can
> > be annoying.
> >
> > --
> > Cheers,
> >
> > Neil
> >
> > Neil French Collier, PhD
> > Faculty of Sustainability
> > Leuphana University L?neburg
> > Rotenbleicher Weg 67
> > 21335 Lueneburg
> > Germany
> >
> > Twitter: @foodsecbio
> > email: collier at leuphana.de
> > Google Scholar
> > <
>
https://scholar.google.com.au/citations?hl=en&user=xVdc-dsAAAAJ&view_op=list_works&sortby=pubdate
> >
> > Ideas for Sustainability
<https://ideas4sustainability.wordpress.com>
> >
> >       [[alternative HTML version deleted]]
> >
> > ______________________________________________
> > R-devel at r-project.org mailing list
> > https://stat.ethz.ch/mailman/listinfo/r-devel
>
> Wolfgang
>
> Wolfgang Huber
> Principal Investigator, EMBL Senior Scientist
> Genome Biology Unit
> European Molecular Biology Laboratory (EMBL)
> Heidelberg, Germany
>
> wolfgang.huber at embl.de
> http://www.huber.embl.de
>
>
>
>
>
>
>
>
>
>

-- 
Cheers,

Neil

Neil French Collier, PhD
Faculty of Sustainability
Leuphana University L?neburg
Rotenbleicher Weg 67
21335 Lueneburg
Germany

Twitter: @foodsecbio
email: collier at leuphana.de
Google Scholar
<https://scholar.google.com.au/citations?hl=en&user=xVdc-dsAAAAJ&view_op=list_works&sortby=pubdate>
Ideas for Sustainability <https://ideas4sustainability.wordpress.com>

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