[R] Sweave:Figures from plot (LME output) not getting generated(pdf or eps)

[ONKELINX, Thierry]

Dear Girish,

As they are lattice plots, you need to print() them explicitly. It is
FAQ 7.22:
http://cran.r-project.org/doc/FAQ/R-FAQ.html#Why-do-lattice_002ftrellis-
graphics-not-work_003f

<<fig=TRUE>>=
print(plot(fm1, distance ~ fitted(.) | Subject, abline = c(0,1)))
 @ 


------------------------------------------------------------------------
----
ir. Thierry Onkelinx
Instituut voor natuur- en bosonderzoek / Research Institute for Nature
and Forest
Cel biometrie, methodologie en kwaliteitszorg / Section biometrics,
methodology and quality assurance
Gaverstraat 4
9500 Geraardsbergen
Belgium
tel. + 32 54/436 185
Thierry.Onkelinx at inbo.be
www.inbo.be

To call in the statistician after the experiment is done may be no more
than asking him to perform a post-mortem examination: he may be able to
say what the experiment died of.
~ Sir Ronald Aylmer Fisher

The plural of anecdote is not data.
~ Roger Brinner

The combination of some data and an aching desire for an answer does not
ensure that a reasonable answer can be extracted from a given body of
data.
~ John Tukey

-----Oorspronkelijk bericht-----
Van: r-help-bounces at r-project.org [mailto:r-help-bounces at r-project.org]
Namens Girish A.R.
Verzonden: maandag 1 juni 2009 7:46
Aan: r-help at r-project.org
Onderwerp: [R] Sweave:Figures from plot (LME output) not getting
generated(pdf or eps)

Hi,

I seem to be facing a strange problem when I use Sweave for creating a
LaTeX document of the R lme() output --- The EPS and PDF figure files
get created, but are empty. I have attached a reproducible example below
(taken from the R lme() help example).

------------------------------------------------------------------------
------------
\documentclass[a4paper,10pt]{article}
\usepackage{Sweave}
\SweaveOpts{keep.source=TRUE}
\begin{document}

<<>>=
fm1 <- lme(distance ~ age, Orthodont, random = ~ age | Subject) @

<<fig=TRUE>>=
plot(fm1, distance ~ fitted(.) | Subject, abline = c(0,1)) @

\end{document}

------------------------------------------------------------------------
------------

I don't seem to face this problem while plotting other objects. Any help
is appreciated.

Thanks,

-Girish


===========================
> sessionInfo()
R version 2.9.0 (2009-04-17)
i386-pc-mingw32

locale:
LC_COLLATE=English_United States.1252;LC_CTYPE=English_United States.
1252;LC_MONETARY=English_United States.
1252;LC_NUMERIC=C;LC_TIME=English_United States.1252

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

other attached packages:
 [1] RWinEdt_1.8-1      coda_0.13-4        verification_1.29
CircStats_0.2-3
 [5] boot_1.2-36        fields_5.02        spam_0.15-4
waveslim_1.6.1
 [9] lmtest_0.9-23      zoo_1.5-5          psychometric_2.1
multilevel_2.3
[13] MASS_7.2-46        nlme_3.1-92        languageR_0.953
lme4_0.999375-31
[17] Matrix_0.999375-26 zipfR_0.6-5        lattice_0.17-22
gplots_2.7.0
[21] caTools_1.9        bitops_1.0-4.1     gdata_2.4.2
gtools_2.5.0-1
[25] gmodels_2.14.1     ggplot2_0.8.3      reshape_0.8.3
plyr_0.1.8
[29] proto_0.3-8        doBy_3.9           foreign_0.8-34
car_1.2-14
[33] Design_2.1-2       survival_2.35-4    Hmisc_3.6-0

loaded via a namespace (and not attached):
[1] cluster_1.12.0   Formula_0.1-3    kinship_1.1.0-22
plm_1.1-2        sandwich_2.2-1
[6] tools_2.9.0

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