Gavin Simpson
2009-Aug-28 17:10 UTC
[R] Plotmath, sweave and lattice graphics interaction problem
Dear List,
I have hit this problem with using a plotmath expression in an axis
label on a lattice plot I'm including in a Sweave document. The actual
document is far too long and boring (unless you are interested in the
hydrochemistry of upland lakes) to include here, but the following
minimal example reproduces the problem; basically, the PDF produced by
Sweave has missing characters in the plotmath label whilst the eps file
doesn't.
Here is the minimal Rnw document:
\documentclass[a4paper,12pt]{article}
\usepackage{graphicx,xspace}
\usepackage[utf8]{inputenc}
\usepackage[left=1.5cm,top=2cm,bottom=2cm,right=1.5cm]{geometry}
\usepackage{/home/gavin/R/2.9-patched/build/share/texmf/Sweave}
\setkeys{Gin}{width=1\textwidth}
\begin{document}
\title{FOO}
\author{Gavin Simpson}
\maketitle
<<fig=true>>require(lattice)
dat <- data.frame(A = runif(10), B = runif(10))
print(xyplot(A ~ B, data = dat,
ylab = expression(H^"+" ~ (mu*eq ~ L^"-1"))))
@
\end{document}
Note the ylab expression:
ylab = expression(H^"+" ~ (mu*eq ~ L^"-1"))
this produces a ylab like H+ (mueq L-1) when run interactively and on
the eps file, but the pdf file is missing the parentheses and the mu
(micro) symbol.
R session info:
> sessionInfo()
R version 2.9.1 Patched (2009-08-07 r49104)
x86_64-unknown-linux-gnu
locale:
LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_GB.UTF-8;LC_IDENTIFICATION=C
attached base packages:
[1] tools stats graphics grDevices utils datasets
methods
[8] base
other attached packages:
[1] lattice_0.17-25
loaded via a namespace (and not attached):
[1] grid_2.9.1
So I'm running this in a UTF-8 locale. Is it this that is causing the
problem? Any suggestions as to how to proceed?
Thanks in advance,
G
--
%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%
Dr. Gavin Simpson [t] +44 (0)20 7679 0522
ECRC, UCL Geography, [f] +44 (0)20 7679 0565
Pearson Building, [e] gavin.simpsonATNOSPAMucl.ac.uk
Gower Street, London [w] http://www.ucl.ac.uk/~ucfagls/
UK. WC1E 6BT. [w] http://www.freshwaters.org.uk
%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%
Duncan Mackay
2009-Aug-28 23:04 UTC
[R] Plotmath, sweave and lattice graphics interaction problem
Hi Gavin I am running on windows and have no problem R version 2.9.2 (2009-08-24) i386-pc-mingw32 locale: LC_COLLATE=English_Australia.1252;LC_CTYPE=English_Australia.1252;LC_MONETARY=English_Australia.1252;LC_NUMERIC=C;LC_TIME=English_Australia.1252 attached base packages: [1] datasets utils stats graphics grDevices grid methods base other attached packages: [1] Hmisc_3.6-1 R.oo_1.4.8 R.methodsS3_1.0.3 foreign_0.8-37 chron_2.3-30 MASS_7.2-48 lattice_0.17-25 loaded via a namespace (and not attached): [1] cluster_1.12.0 Can forward you my sweave file et al if required Regards Duncan Mackay Department of Agronomy and Soil Science University of New England ARMIDALE NSW 2351 Email home: mackay at northnet.com.au At 03:10 29/08/2009, you wrote:>Dear List, > >I have hit this problem with using a plotmath expression in an axis >label on a lattice plot I'm including in a Sweave document. The actual >document is far too long and boring (unless you are interested in the >hydrochemistry of upland lakes) to include here, but the following >minimal example reproduces the problem; basically, the PDF produced by >Sweave has missing characters in the plotmath label whilst the eps file >doesn't. > >Here is the minimal Rnw document: > >\documentclass[a4paper,12pt]{article} >\usepackage{graphicx,xspace} >\usepackage[utf8]{inputenc} >\usepackage[left=1.5cm,top=2cm,bottom=2cm,right=1.5cm]{geometry} > >\usepackage{/home/gavin/R/2.9-patched/build/share/texmf/Sweave} >\setkeys{Gin}{width=1\textwidth} > >\begin{document} >\title{FOO} >\author{Gavin Simpson} > >\maketitle > ><<fig=true>>>require(lattice) >dat <- data.frame(A = runif(10), B = runif(10)) >print(xyplot(A ~ B, data = dat, > ylab = expression(H^"+" ~ (mu*eq ~ L^"-1")))) >@ > >\end{document} > >Note the ylab expression: > >ylab = expression(H^"+" ~ (mu*eq ~ L^"-1")) > >this produces a ylab like H+ (mueq L-1) when run interactively and on >the eps file, but the pdf file is missing the parentheses and the mu >(micro) symbol. > >R session info: > > > sessionInfo() >R version 2.9.1 Patched (2009-08-07 r49104) >x86_64-unknown-linux-gnu > >locale: >LC_CTYPE=en_GB.UTF-8;LC_NUMERIC=C;LC_TIME=en_GB.UTF-8;LC_COLLATE=en_GB.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_GB.UTF-8;LC_PAPER=en_GB.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_GB.UTF-8;LC_IDENTIFICATION=C > >attached base packages: >[1] tools stats graphics grDevices utils datasets >methods >[8] base > >other attached packages: >[1] lattice_0.17-25 > >loaded via a namespace (and not attached): >[1] grid_2.9.1 > >So I'm running this in a UTF-8 locale. Is it this that is causing the >problem? Any suggestions as to how to proceed? > >Thanks in advance, > >G > >-- >%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% > Dr. Gavin Simpson [t] +44 (0)20 7679 0522 > ECRC, UCL Geography, [f] +44 (0)20 7679 0565 > Pearson Building, [e] gavin.simpsonATNOSPAMucl.ac.uk > Gower Street, London [w] http://www.ucl.ac.uk/~ucfagls/ > UK. WC1E 6BT. [w] http://www.freshwaters.org.uk >%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~%~% > >______________________________________________ >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.