From |@ke|v|n @end|ng |rom ucd@v|@@edu  Tue Mar  5 08:22:29 2019
From: |@ke|v|n @end|ng |rom ucd@v|@@edu (Lee Steven Kelvin)
Date: Tue, 5 Mar 2019 07:22:29 +0000
Subject: [Rd] R cairo_pdf function does not respect plotting boundaries
In-Reply-To: <581bf016-0b51-977b-200d-bbeef95f9046@stat.auckland.ac.nz>
References: <CAO0anGmxEwS2VtAqT-i6701QrkFCL90cOneB+c_y3uJ_40aG9w@mail.gmail.com>
 <581bf016-0b51-977b-200d-bbeef95f9046@stat.auckland.ac.nz>
Message-ID: <CAO0anGmLgRSFJWaRmYbAnKL-8EwaZXyUjBCu+dBnLMV39wTwGA@mail.gmail.com>

Hi Paul,

Great, thank you for looking in to this, and I'm glad that you're able to reproduce it at your end too.

From your reply, I'm happy that it seems like the fix may be fairly trivial, but I understand the necessity for caution.

If there's anything else I can do to help, please do let me know.

Thank you again,
Best,
Lee


On Monday, 4 March 2019, Paul Murrell <paul at stat.auckland.ac.nz<mailto:paul at stat.auckland.ac.nz>> wrote:
Hi

(cc'ed to r-devel where further discussion should probably take place)

Thanks Lee.  I see that problem.

There is a "+ 1" in the Cairo device code for setting the clipping region
(https://github.com/wch/r-source/blob/ba600867f2a94e46cf9eb75dc8b37f12b08a4561/src/library/grDevices/src/cairo/cairoFns.c#L156)

Remove the "+ 1" and the problem goes away (for your example at least).

The comment on the line above that code suggests that the "+ 1" was modelled on the X11 device code, but X11 deals in integer pixels and Cairo (at the API level) does not, so it would seem that the "+ 1" is just unnecessary.

However, I have a slight nagging worry that we have been here before, so I would like to do some more testing before committing that change.

Paul

On 1/03/19 8:13 AM, Lee Steven Kelvin wrote:
Hello all,

When producing a plot in R using the cairo_pdf device, the resultant plot does not respect the plotting boundaries. Lines and shaded regions will spill over the lower x-axis and the right-side y-axis (sides 1 and 4). I would like to know if it is possible to fix this behaviour when using 'cairo_pdf' in R?

As an example, see the image at this web link: https://i.stack.imgur.com/0lfZd.png

This image is a screenshot of a PDF file constructed using the following minimum working example code:

cairo_pdf(file="test.pdf", width=0.5, height=0.5)
par("mar"=c(0.25,0.25,0.25,0.25))
plot(NA, xlim=c(0,1), ylim=c(0,1), axes=FALSE)
polygon(x=c(-1,-1,2,2), y=c(-1,2,2,-1), density=5, col="green3", lwd=10)
abline(h=0.25, col="red", lwd=5)
abline(h=0.75, col="hotpink", lwd=5, lend=1)
abline(v=0.25, col="blue", lwd=5)
abline(v=0.75, col="cyan", lwd=5, lend=1)
box()
dev.off()

Here I'm plotting a shaded region in green using 'polygon', with boundaries that lie outside the plot. I'm also drawing two sets of horizontal/vertical lines using 'abline'. The first in each pair uses standard rounded line caps, whilst the second in each pair uses butt line caps.

As you can see, the shading lines and the default rounded-end ablines all extend beyond the plotting region along the lower and right-hand side axes. Only when using 'lend=1' am I able to contain the ablines to the plotting region. I know of no such fix for the shading lines however.

I would naively expect the R plotting region to be respected, and for it to be impossible to plot outside of this region unless explicitly specified by the user.

I have tested this on the other cairo devices (SVG and PS), and also reproduce the same behaviour, indicating that this is an issue with the cairo graphics API, or its implementation within R.

This behaviour does not occur when using the standard R 'pdf' graphics device. I would switch to 'pdf' in general, however, 'cairo_pdf' has several advantages over 'pdf', notably, reduced output file sizes on occasion and support for a larger array of UTF-8 characters, so ideally I would prefer to use cairo_pdf.

I should note that I have also posted this message on StackOverflow at this web link: https://stackoverflow.com/questions/54892809/r-cairo-pdf-function-does-not-respect-plotting-boundaries

Thank you in advance for any insights into this issue.

Sincerely,
Lee Kelvin



--
Dr Lee Kelvin
Department of Physics
UC Davis
One Shields Avenue
Davis, CA 95616
USA

Ph: +1 (530) 752-1500
Fax: +1 (530) 752-4717


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Dr Paul Murrell
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--
Dr Lee Kelvin
Department of Physics
UC Davis
One Shields Avenue
Davis, CA 95616
USA

Ph: +1 (530) 752-1500
Fax: +1 (530) 752-4717


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[Rd] R cairo_pdf function does not respect plotting boundaries
Lee Steven Kelvin