Conflict between xtable and Hmisc when using Sweave? 2005-05-13 - By Sander Oom
Dear Frank,
I have a Sweave document in which I export anova (aov) tables to Latex
and calculate some summary statistics with summarize{Hmisc} for a graph
(as in the example below).
I currently use the following code for the aov tables:
<<results=tex>>=
tmp <- datGrassHC[datGrassHC$Loc > 0 & datGrassHC$Loc < 9 ,]
tmpAov <- aov(Height~Geology*Altitude*Origin*BinInOut , data=tmp)
tmpTable <- xtable (tmpAov ,
caption="ANOVA table for vegetation height.",
label="tab:AnovaHeight"
)
print.xtable(tmpTable, type="latex", floating=TRUE,
table.placement="ht", caption.placement="top",
latex.environments=c("center"))
)
@
I used xtables, because it has a working aov example. I would be happy
to use an alternative if I knew how! Would you have sample code to
illustrate how to export an aov table to Latex using latex{Hmisc}.
Thanks very much for your help,
Sander.
Frank E Harrell Jr wrote:
> Sander Oom wrote:
>> Dear R users,
>>
>> The Sweave code below runs fine, as it is. However, an error occurs
>> when the line 'library(xtable)' is uncommented:
>> Error: chunk 1
>> Error in "label<-"(`*tmp*`, value = "month") :
>> no applicable method for "label<-"
>>
>> Is anybody aware of this and knows a workaround?
>>
>> Thanks,
>>
>> Sander.
>>
>> *******************
>>
>> \documentclass[a4paper]{article}
>> \title{Sweave Test for summarize}
>> \author{Sander Oom}
>>
>> \usepackage{a4wide}
>>
>> \begin{document}
>>
>> \maketitle
>>
>> \begin{figure}[ht]
>> \begin{center}
>> <<fig=TRUE,echo=FALSE>>=
>> # library(xtable)
>> library(Hmisc)
>> set.seed(111)
>> dfr <- expand.grid(month=1:12, year=c(1997,1998), reps=1:100)
>> month <- dfr$month
>> year <- dfr$year
>> y <- abs(month-6.5) + 2*runif(length(month)) + year-1997
>> s <- summarize(y, llist(month,year), smedian.hilow, conf.int=.5)
>> print(xYplot(Cbind(y,Lower,Upper) ~ month, groups=year, data=s,
>> keys='lines', method='alt', type='b'))
>> @
>> \end{center}
>> \end{figure}
>>
>> \end{document}
>>
>> ************************
>>
>>
>>
>> > version
>> _
>> platform i686-pc-linux-gnu
>> arch i686
>> os linux-gnu
>> system i686, linux-gnu
>> status
>> major 2
>> minor 1.0
>> year 2005
>> month 04
>> day 18
>> language R
>>
>>
>
> I feel this is an xtable problem because Hmisc has being using label and
> label<- since 1991.
>
> Frank
>
--
--------------------------------------------
Dr. Sander P. Oom
Animal, Plant and Environmental Sciences,
University of the Witwatersrand
Private Bag 3, Wits 2050, South Africa
Tel (work) +27 (0)11 717 64 04
Tel (home) +27 (0)18 297 44 51
Fax +27 (0)18 299 24 64
Email sander@(protected)
Web www.oomvanlieshout.net/sander
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