similar to: Sweave issue: quotes in verbatim-like output print incorrectly

Hi all I have just downloaded the sma package from CRAN. On installing on my linux machine, I get the message > library(sma) > data(MouseArray) Warning message: file 'MouseArray.RData' has magic number 'RDX1' Use of save versions prior to 2 is deprecated Hereafter, MouseArray is not found: > MouseArray Error: object "MouseArray" not found We were

Hi all I know about producing a minimal example to show my problem. But I'm having trouble producing a minimal example that displays this behaviour, so please bear with me to begin with. Observe: I create an array called model.mat. Some details on this: > str(model.mat) num [1:18, 1:4] -0.170 -0.304 -2.617 2.025 -1.610 ... - attr(*, "dimnames")=List of 2 ..$ : chr

Hi all I'm using Sweave and find it a treat. But one question: I use Sweave to create my pictures which are automatically included into LaTeX. For example, in the file test.Snw, I may have: % LaTeX stuff \begin{figure} <<fig=true,width=5,height=5>>= x1 <- seq(1,5, length=10) x2 <- sin(x1) plot(x1,x2) @ \caption{Plot} \end{figure} % More LaTeX This produces the LaTeX

Hi all I was playing with termplot(), and came across what appears to be an inconsistency. It would appreciate if someone could enlighten me: > # First, generate some data: > y <- rnorm(100) > x <- runif(length(y),1,2) > # Now find the log of x: > logx <- log(x) > > # Now fit two models that are exactly the same, but specified differently: > m1 <-

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) #

Hi all After posting what follows, Duncan Murdoch suggested perhaps a bug in formatC, or an error on documentation. Any comments? In particular, bug, error or not, any ideas about how I can consistently get two significant figures to print? P. ---------- Original Message ---------- Hi all I am not a C programmer, but I am trying to understand formatC to get consistent printing of

Hi all I'm using Sweave and LaTeX, and love how they interact. But here's a different interaction I'm not sure how to achieve; I hope someone can help. I use a simple example, of course, to demonstrate. Suppose in my LaTeX document I have this: Here is a linear equation: \begin{equation} y = -1 + 3 x \label{EQ:example} \end{equation} This appears in the final product

Hi all I posted a couple of days ago about how to end up with wmf files eventually in R for linux. The short answer was: you (probably) can't...and don't! The journal in question also accepts TIFF files, I am told (it's a physiology journal). So I adjust my question: What is the best way to get TIFF files out of R? It can't create them directly as far as I can tell.

Hi all I have a plot with lines, one specified as (say) lty=1, using standard line types, and another as (say) my own spec: lty="51". I can't get legend to display both. Toy example: > plot(1~1) > legend("topright", lty=c("51",1), legend=c("My own","Standard")) Error in segments(x1, y1, x2, y2, ...) : invalid line type: must be

Hi all I am using R to produce postscript pictures via the postscript command. I have never had any problems... until now, when I want to inlcude my .ps file is a LaTeX document *without* a white background. (If it's important, I'm using the prosper class with the whitecross option, so the background in blue.) I would like my .ps file to have a white background. If I read the help

Hi all Two questions: 1. I note that help for the postscript device claims "The postscript produced by R is EPS (Encapsulated PostScript) compatible...". It does not say it is EPS *compliant*. Indeed, the EPS produced by R includes a \showpage command which I believe (not that I'm an expert!) non-standard EPS. My question: Is there any reason why it is EPS compatible, but

Hi all Suppose I do the following: set.seed(1000) library(xtable) x <- runif( 10 ) y <- 1 + 2*x + rnorm( length(x) ) test.lm <- lm( y ~ x ) summary( test.lm ) xtable ( summary( test.lm ) ) The final xtable output follows: % latex table generated in R 1.8.1 by xtable 1.2-2 package % Tue Jun 22 09:56:36 2004 \begin{table}[ht] \begin{center} \begin{tabular}{rrrrr} \hline &

Hi all I am having troubles making sense of why code (1) below fails but code (2) below works. Code (1): > phi.1 <- 1 > plot(0 ~ 0, + main=substitute(paste("A vaue for ",phi," = ",phival), list(phival=phi.1)) ) Error in paste("The two deviances for ", phi, " = ", 2) : Object "phi" not found But this works: Code (2): >

Hi all I have a question about plotting line types and legends. Here's a short piece of code to demonstrate: x <- y <- seq(1,10) plot(x,y, type ="l", lty="33") lines(x,y+1, lty=1) legend( 8,2,legend=c("lty=1","lty=\"33\""), lty=c(1,"33") ) On my system (see below), the line types in the legend are not the same as in the

Hi all I am doing some stats work for a group of biologists who require windows metafiles (*.wmf) for their publications. To create these, I appear to have two choices: 1. Restart my machine in Windows and use savePlot 2. Keep my machine in linux, save as another format, then convert. I'd rather stay in linux; but how do I get wmf files? I looked at using ImageMagick's convert,

Hi all, I am trying to package a library in R 1.6.1 (Windoze XP). I have read the document "Writing R extensions" and think I have done things correctly (though apparently not). I have searched the mail archives for help to no avail. When I try to attach the library using, eg > library( libname, lib.loc=path.to.library) I get this message: Warning message: NAs introduced by

Hi all I'm having a problem when using Sweave. Here is a minimal example. My input file (eg, test.Snw) looks like this: <<TESTME,echo=FALSE, results=hide,fig=FALSE,keep.source=TRUE>>= data(cars) m1 <- lm( dist~speed, data=cars ); coef( m1 ) @ <<echo=TRUE,results=verbatim,fig=FALSE,keep.source=TRUE>>= <<TESTME>> @ <<TESTME2,echo=FALSE,

Hi all I am trying to package a library in R 1.6.1 (Windoze XP). I have read the document "Writing R extensions" and think I have done things correctly (though apparently not). I have searched the mail archives for help to no avail. I also posted a few days ago and thanks to Peter Dalgaard I have managed to focus my search for errors. I am trying to create a library in R. I run the

Hi all I wish to create a ps file of a picture produced in R. With my limited R, I see two ways: 1. Print direct to the postscript device 2. Print to the screen, and save to ps using dev.print. I want a white (not transparent) background. Option 1 above works fine, but 2 does not: even when I say I want a white background, I get transparent; perhaps I misread the help files. Here's some R

Hi all I'm updating a package for submission to CRAN, and I am getting an error message I never have seen before, and can't find out what it implies or means (and hence, what I need to do to fix it). After running R CMD check, I get this: <snip> * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd