[R] Sweave output from print.summary.glm is too wide

[Duncan Mackay]

Hi Peter

If all else fails you can make the space between the columns smaller by 
changing the column spacing in latex
by:

\setlength\tabcolsep{3pt}

The default is 7pt. You may have to go a little higher if it looks cramped. 
I have gone down as far as 2pt using a small font size

Also changing the fontsize for the chunk can work wonders eg for small
\begin{small}
<< >>==
R code
@
\end{small}



HTH

Duncan Mackay
Department of Agronomy and Soil Science
Univeristy of New England
ARMIDALE NSW 2351
Email: home : mackay at northnet.com.au


At 10:10 19/08/2009, you wrote:
>Hi all
>
>I am preparing a document using Sweave; a really useful tool.  But I am 
>having a problem.
>
>Consider this toy example Sweave file:
>
>
>\documentclass{article}
>
>\begin{document}
><<echo=TRUE,results=verbatim>>=
>options(width=40)   # Set width to 40 characters
>hide <- capture.output(example(glm)) # Create an example of the problem, 
>but hide the output
>summary(glm.D93)   # This is where the problem is evident
>@
>\end{document}
>
>The intent of the  options(width=40)  command is to ensure the output does 
>not extend to far to the right of the page, as per the Sweave manual 
>Section A.14.  And in most cases, this does the job.
>
>Now, I run Sweave on the above file, run pdflatex.  Feel free to run the 
>above code to see the actual result, but here is an edited text version of 
>the output:
>
> > options(width = 40)
> > hide <- capture.output(example(glm))
> > summary(glm.D93)
>Call:
>glm(formula = counts ~ outcome + treatment, family = poisson())
>Deviance Residuals:
>1 2 3 4
>-0.67125 0.96272 -0.16965 -0.21999
>5 6 7 8
>-0.95552 1.04939 0.84715 -0.09167
>9
>-0.96656
>Coefficients:
>Estimate Std. Error
>(Intercept) 3.045e+00 1.709e-01
>outcome2 -4.543e-01 2.022e-01
>outcome3 -2.930e-01 1.927e-01
>treatment2 8.717e-16 2.000e-01
>treatment3 4.557e-16 2.000e-01
>z value Pr(>|z|)
>(Intercept) 17.815 <2e-16 ***
>outcome2 -2.247 0.0246 *
>outcome3 -1.520 0.1285
>treatment2 4.36e-15 1.0000
>treatment3 2.28e-15 1.0000
>
>
>The final pdf output file is mostly fine: but not all of the output 
>of  print.summary.glm  obeys the   width=40  command.
>
>The middle parts of the output are suitable wrapped (the coefficients, std 
>error, z and P-value bit), but the bits at the end (not shown) and the 
>start are not; for example, look at the  Call:  section of the output above.
>
>I'd be expecting the initial part of the output to appear something like 
>this, suitably wrapped:
>
>
> > summary(glm.D93)
>Call:
>glm(formula = counts ~ outcome +
>     treatment, family = poisson())
>
>
>As far as I can recall,  print.summary.glm  and  print.summary.lm  are the 
>only times I have seen this behaviour.  I found a similar thread posted 
>June 2009 ("overshoot of formula line in summary output of Sweave"); there 
>appeared no resolution in that thread, or after contacting the originator 
>of the post.
>
>So my question:
>* What can I do to ensure my output is not extending too far to the right 
>with  print.summary.glm?
>
>
>Thanks as always.
>
>P.
>
>
> > sessionInfo()
>R version 2.9.0 (2009-04-17)
>i486-pc-linux-gnu
>
>locale:
>LC_CTYPE=en_AU.UTF-8;LC_NUMERIC=C;LC_TIME=en_AU.UTF-8;LC_COLLATE=en_AU.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_AU.UTF-8;LC_PAPER=en_AU.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_AU.UTF-8;LC_IDENTIFICATION=C
>
>attached base packages:
>[1] stats     graphics  grDevices utils     datasets  methods   base
>
>other attached packages:
>[1] GLMsData_0.7
>
>loaded via a namespace (and not attached):
>[1] tools_2.9.0
> >
>
>
>
>
>
>
>
>Peter Dunn: Biostatistician
>School of Health and Sport Science
>Faculty of Science, Health and Education  ML-34
>University of the Sunshine Coast, Locked Bag 4
>Maroochydore DC Qld 4558
>
>Tel: +61 7 5456 5085
>Fax: +61 7 5430 2896
>Email: pdunn2 at usc.edu.au
>www.usc.edu.au ( http://www.usc.edu.au/ )
>
>CRICOS Provider Number: 01595D
>
>This communication is intended for the recipient only and should not be 
>forwarded, distributed or otherwise read by others without express 
>permission. The views expressed in this email are not necessarily those of 
>the University of the Sunshine Coast.
>
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