[R] R-2.0.1 Gentoo g77 problem

Hello, I use Gentoo and I can't get R 2.0.1 to compile. I used the portage system, Gentoo's source package sytem, and after it uncompresses the source to R, it says that I don't have a fortran compiler. It told me to use f77 flag and re-emerge gcc, which I did with the f77 and fortran flags,

[R] RMySQL installed but not availalable

Hi I run Linux SuSE 9.1, with MSQL 4.0.18 I installed R 2.0.1 and it is working fine I installed RM 0.5-5 package and verified all installed.packages (see below) but when I tried to use any RMySQL specific comand is gives me the same error messages dbConnect Error: Object dbConnect not found

[R] Using RCC (R to C Compiler)

Hello! I would like to know if anyone has any experience in using RCC (R to C Compiler) [http://hipersoft.cs.rice.edu/rcc/index.html]. I thing I have successfully compiled both RCC and R 1.9.0 following the instructions on the RCC web site. However, I have no idea how to actually use it. I

RE: [R] from long/lat to UTM

I think I recall seeing a limited capability in the PBSmapping package. Tom -Original Message- From: yyan liu [mailto:[EMAIL PROTECTED] Sent: Wednesday, 9 March 2005 1:20 PM To: r-help@stat.math.ethz.ch Subject: [R] from long/lat to UTM Hi: Is there any function in R which

Re: [R] To convert an adjacency list model into a nested set model

Gabor == Gabor Grothendieck [EMAIL PROTECTED] on Tue, 8 Mar 2005 17:19:12 + (UTC) writes: .. Gabor This is not a direct answer to getting a nesting from Gabor an adjacency but the following is easy to do and Gabor gives all the same info. Gabor Note

[R] plot(bclust) what is the 2nd plot?

Hi everyone, Currently i'm trying to understand the bagged clustering algorithm, bclust {e1071}. When I run the given example in the help file (as below) data(iris) bc1 - bclust(iris[,1:4], 3, base.centers=5) plot(bc1) and plot the bclust object, 2 graphs are produced. The first

Re: [R] plot(bclust) what is the 2nd plot?

On Wed, 9 Mar 2005 10:36:49 -, Jacqueline Hall (JH) wrote: Hi everyone, Currently i'm trying to understand the bagged clustering algorithm, bclust {e1071}. When I run the given example in the help file (as below) data(iris) bc1 - bclust(iris[,1:4], 3,

[R] [R-pkgs] msm version 0.5 released

A major update of the msm package for continuous-time Markov and hidden Markov multi-state models is now available from CRAN. Hidden Markov models with general, continuous response distributions are now supported. These models are used for Markov processes which can only be observed through the

[R] Plotting several series on one set of axes

Dear All, I am rather rusty with my R, but I recall being able to do something like plot(x1,...);plot(x2,add=TRUE,...) to plot two series on the same axes. Any suggestions how this may be done will be appreciated. __ R-help@stat.math.ethz.ch mailing

[R] RSPYTHON install failed on Mac

Dear all, I was trying to install RSPYTHON on my Mac OS X 10.3 into R, and got the following errors, is it because of my C compiler or the python I installed? R CMD INSTALL -c Desktop/RSPython_0.5-4.tar.gz * Installing *source* package 'RSPython' ... checking for python... /usr/bin/python

Re: [R] RMySQL installed but not availalable

Did you _load_ the package? R library( RMySQL ) On Thursday 10 March 2005 10:12, Adriano von Sydow wrote: Hi I run Linux SuSE 9.1, with MSQL 4.0.18 I installed R 2.0.1 and it is working fine I installed RM 0.5-5 package and verified all installed.packages (see below) but when I tried to use

[R] Trouble with mixreg

Dear All I am trying to estimate a mixture of regression and get the following error using the mixreg package: Error in y - yhat : non-conformable arrays The instruction I used were: x - as.matrix(LRHUN) y - as.matrix(LRINTER) TS - list(list(beta=c(3.0,1.0),sigsq=1,lambda=0.4),

[R] nnet abstol

Hi, I am using nnet to learn transfer functions. For each transfer function I can estimate the best possible Mean Squared Error (MSE). So, rather than trying to grind the MSE to 0, I would like to use abstol to stop training once the best MSE is reached. Can anyone confirm that the abstol

Re: [R] RSPYTHON install failed on Mac

Without seeing config.log, we have no more idea than you do. This is an Omegahat package, and either its list or the R-sig-mac list would be far more appropriate than this one. But I suspect the answer is clear from config.log -- unpack the package before installing to see it. On Wed, 9 Mar

[R] multiple comparisons for lme using multcomp

Dear R-help list, I would like to perform multiple comparisons for lme. Can you report to me if my way to is correct or not? Please, note that I am not nor a statistician nor a mathematician, so, some understandings are sometimes quite hard for me. According to the previous helps on the

[R] Question about biasing in sd()???

Hi, Can anyone help me with the following. I have been using R for Monte Carlo simulations and got some results I couldn't explain. Therefor I performed following short test: -- mean.sds - NULL sample.sizes - 3:30 for(N in sample.sizes){ dum - NULL for(I in 1:5000){ x -

Re: [R] Plotting several series on one set of axes

On Wed, 2005-03-09 at 11:21 +, [EMAIL PROTECTED] wrote: Dear All, I am rather rusty with my R, but I recall being able to do something like plot(x1,...);plot(x2,add=TRUE,...) to plot two series on the same axes. Any suggestions how this may be done will be appreciated. If you have

[R] Decimal point as a comma in postcript and pdf graphics

Hi, after a lengthy but unsuccessfull search I couldn't come up with a solution to the following problem: I would like to have a comma instead of a point as the decimal point in my graphics, i.e. postscript and pdf files, for I write my thesis in German. My system is: OS: Debian Unstable

RE: [R] Question about biasing in sd()???

Where in the help file of sd() do you see the claim that it produces unbiased estimate? Try the following: sample.sizes - 3:30 reps - 5000 set.seed(1) mean.vars - sapply(sample.sizes, function(n) mean(sd(matrix(rnorm(n*reps), nc=reps))^2)) plot(sample.sizes,mean.vars) I.e.,

[R] function in order to plot the same graph to postscript and pdf

Hi, I've written a function in order to plot the same graph in a postcript and in a pdf file. Unfortunately, the second graph is always empty, i.e.: plot.both - function{myplot, filename}{ pdf(file=paste(filename, .pdf, sep=)) myplot dev.off() postscript(file=paste(filename, .eps,

Re: [R] function in order to plot the same graph to postscript and pdf

On Wed, 9 Mar 2005 14:57:27 +0100 Ronny Klein wrote: Hi, I've written a function in order to plot the same graph in a postcript and in a pdf file. Unfortunately, the second graph is always empty, i.e.: plot.both - function{myplot, filename}{ pdf(file=paste(filename, .pdf, sep=))

Re: [R] Question about biasing in sd()???

Roy Werkman [EMAIL PROTECTED] writes: Hi, Can anyone help me with the following. I have been using R for Monte Carlo simulations and got some results I couldn't explain. Therefor I performed following short test: -- mean.sds - NULL sample.sizes - 3:30 for(N in

Re: [R] R-2.0.1 Gentoo g77 problem

On Wed, Mar 09, 2005 at 04:09:50PM +0800, Gabriel Rossetti wrote: Hello, I use Gentoo and I can't get R 2.0.1 to compile. I used the portage system, Gentoo's source package sytem, and after it uncompresses the source to R, it says that I don't have a fortran compiler. It told me to use f77

Re: [R] function in order to plot the same graph to postscript and pdf

What are the myplot objects? Expressions or graphical objects that are printed? The myplot is something like this: plot(x) text(foo) etc. In any case, a good recommendation for this kind of stuff is to look at Sweave() in the utils package. I guess you're writing your thesis in

Re: [R] Decimal point as a comma in postcript and pdf graphics

Ronny Klein [EMAIL PROTECTED] writes: Hi, after a lengthy but unsuccessfull search I couldn't come up with a solution to the following problem: I would like to have a comma instead of a point as the decimal point in my graphics, i.e. postscript and pdf files, for I write my thesis

Re: [R] Plotting several series on one set of axes

midnightsun at blueyonder.co.uk writes: : I am rather rusty with my R, but I recall being able to do something like : plot(x1,...);plot(x2,add=TRUE,...) : to plot two series on the same axes. : You can use ts.plot to plot multiple ts time series on one set of axes in one command (even if they

Re: [R] function in order to plot the same graph to postscript and pdf

On Wed, 9 Mar 2005 15:24:48 +0100 Ronny Klein wrote: What are the myplot objects? Expressions or graphical objects that are printed? The myplot is something like this: plot(x) text(foo) Aha, I was surprised that this worked for one of the two plots. You could pass myplot as an

[R] Structural equation models with R

Hello useRs, I`m running structural equation models with R, but for one of my models the below error message apears. I`m trying to change startvalues but without success. The manual for sem package did not help me. Does anyone knows how to change startvalues for iteration in sem package? Or it

Re: [R] nnet abstol

From the help page: abstol: Stop if the fit criterion falls below 'abstol', indicating an essentially perfect fit. Now, what the `fit criterion' is depends on the other options that you have not told us, but I don't see MSE mentioned anywhere on that help page, and I do see

Re: [R] Decimal point as a comma in postcript and pdf graphics

On Wed, 9 Mar 2005, Ronny Klein wrote: Hi, after a lengthy but unsuccessfull search I couldn't come up with a solution to the following problem: I would like to have a comma instead of a point as the decimal point in my graphics, i.e. postscript and pdf files, for I write my thesis in German. My

RE: [R] Structural equation models with R

Dear Andre, Is one of the observed variables named ridos or riqdos? I hope this helps, John John Fox Department of Sociology McMaster University Hamilton, Ontario Canada L8S 4M4 905-525-9140x23604 http://socserv.mcmaster.ca/jfox

Re: [R] function in order to plot the same graph to postscript and pdf

Ronny Klein ronny.klein at wiwi.uni-halle.de writes: : : Hi, : : I've written a function in order to plot the same graph in a postcript and in : a pdf file. Unfortunately, the second graph is always empty, i.e.: : : plot.both - function{myplot, filename}{ : pdf(file=paste(filename, .pdf,

[R] Encodebuf? yet another memory question

Hi all, I was surprised to see this memory error: Error in scan(Cn.minex13, nlines = 2, quiet = TRUE) : Could not allocate memory for Encodebuf memory.size(max=TRUE) [1] 256843776 memory.size(FALSE) [1] 180144528 memory.limit() [1] 2147483648 I don't have any objects named

[R] R CMD check errors

Hello, I wrote a library which seems to work on my PC, and on different Unix systems. As it is written in the Writing R Extensions manual, I execute a R CMD check on my library. I have always the same errors messages: * checking S3 generic/method consistency ... WARNING Error in

Re: [R] Decimal point as a comma in postcript and pdf graphics

Peter Dalgaard [EMAIL PROTECTED] 03/09/05 07:18AM Ronny Klein [EMAIL PROTECTED] writes: Hi, after a lengthy but unsuccessfull search I couldn't come up with a solution to the following problem: I would like to have a comma instead of a point as the decimal point in my graphics, i.e.

RE: [R] Decimal point as a comma in postcript and pdf graphics

De : [EMAIL PROTECTED] [mailto:[EMAIL PROTECTED] la part de Peter Dalgaard Envoye : mercredi 9 mars 2005 15:19 Ronny Klein [EMAIL PROTECTED] writes: [...] I would like to have a comma instead of a point as the decimal point in my graphics, i.e. postscript and pdf files, for I write

Re: [R] Encodebuf? yet another memory question

On Wed, 9 Mar 2005, Tim Howard wrote: Hi all, I was surprised to see this memory error: Error in scan(Cn.minex13, nlines = 2, quiet = TRUE) : Could not allocate memory for Encodebuf memory.size(max=TRUE) [1] 256843776 memory.size(FALSE) [1] 180144528 memory.limit() [1] 2147483648 I don't

Re: [R] function in order to plot the same graph to postscript and pdf

The myplot is something like this: plot(x) text(foo) Aha, I was surprised that this worked for one of the two plots. You could pass myplot as an expression, e.g. myplot = expression(plot(x)), and then eval() that in the body of plot.both(). I've followed your advice and changed my

[R] problem using uniroot with integrate

Hi, I'm trying to calculate the value of the variable, dp, below, in the argument to the integral of dnorm(x-dp) * pnorm(x)^(m-1). This corresponds to the estimate of the sensitivity of an observer in an m-alternative forced choice experiment, given the probability of a correct response, Pc, a

RE: [R] function in order to plot the same graph to postscript an d pdf

This works for me: plot.both - function(expr, filename) { pdf(file=paste(filename, .pdf, sep=)) eval(expr) dev.off() postscript(file=paste(filename, .eps, sep=)) eval(expr) dev.off() } plot.both(expression(plot(1:10)), testboth) Andy PS: Please make sure you post

Re: [R] R CMD check errors

In my experience these are usually signs of an error in your NAMESPACE file, such as a function name in the NAMESPACE which does not match the function name in the package. Chris Ollivier TARAMASCO wrote: I wrote a library which seems to work on my PC, and on different Unix systems. As it is

[R] about create a R package

Hello, everyone, I would like to create a package which includes C code. My input data comes from a text file and I will output my solution into a text file too. My question is that I put the input file in src directory or data directory or somewhere else? On the other hand, I want to call this

Re: [R] problem using uniroot with integrate

Ken Knoblauch wrote on 3/9/2005 10:27 AM: Hi, I'm trying to calculate the value of the variable, dp, below, in the argument to the integral of dnorm(x-dp) * pnorm(x)^(m-1). This corresponds to the estimate of the sensitivity of an observer in an m-alternative forced choice experiment, given

Re: [R] problem using uniroot with integrate

At Wednesday 09:27 AM 3/9/2005, Ken Knoblauch wrote: Hi, I'm trying to calculate the value of the variable, dp, below, in the argument to the integral of dnorm(x-dp) * pnorm(x)^(m-1). This corresponds to the estimate of the sensitivity of an observer in an m-alternative forced choice experiment,

RE: [R] function in order to plot the same graph to postscript and pdf

Use substitute() instead of expression(); choose to use either MYPLOT or myplot because they are different variables; and use parentheses around your function arguments instead of braces. -Original Message- From: Ronny Klein [mailto:[EMAIL PROTECTED] Sent: Wednesday, March 09, 2005 12:22

Re: [R] R-2.0.1 Gentoo g77 problem

On Wed, 9 Mar 2005, Gabriel Rossetti wrote: Hello, I use Gentoo and I can't get R 2.0.1 to compile. I used the portage system, Gentoo's source package sytem, and after it uncompresses the source to R, it says that I don't have a fortran compiler. It told me to use f77 flag and re-emerge gcc,

[R] plotting

I have two questions for you. Firstly I'm having troubles trying to plot more then 1 graph. I'm attempting to make a plot with 9 panels, but i have no clue what type of code to use. Secondly i was wondering if there was some code to generate random numbers between two defined intervals and then

[R] about kpss.test()

Hi All, First of all, could you tell me what the KPSS Level in the output of the test means? I have a series, x, of periodic data and tried kpss.test() on it to verify its stationarity. The tests gave me the p-value above 0.1. Since the null hypothesis N0 is that the series _is_ stationary,

Re: [R] function in order to plot the same graph to postscript and pdf

On Wed, 9 Mar 2005 18:21:41 +0100 Ronny Klein wrote: The myplot is something like this: plot(x) text(foo) Aha, I was surprised that this worked for one of the two plots. You could pass myplot as an expression, e.g. myplot = expression(plot(x)), and then eval() that in the body

Re: [R] Trouble with mixreg

Just read your email about mixreg. The problem is the assignment y - as.matrix(LRINTER) The y argument has to be a ***vector***, not a matrix. Deep in the bowels of mixreg, yhat is formed as a matrix of fitted values for all of the models in the mixture. (The first column of yhat

Re: [R] about kpss.test()

On Wed, 9 Mar 2005 13:31:16 -0500 (EST) Weiguang Shi wrote: Hi All, First of all, could you tell me what the KPSS Level in the output of the test means? It means that you tested for level stationarity and gives you the test statistic. I have a series, x, of periodic data and tried

[R] Aid with 3-D scatterplots

I am attempting to classify pixels from a Landsat image by using their associated numbers in bands 2, 3, and 4 (It's from an assignment on classification). To aid me, I want to create a 3-D scatterplot using the cloud command. Due to my ignorance of the finer plotting functions, I am unable

[R] Lattice device page options-margins

I am using lattice to make figures as pdfs: trellis.device(device = pdf,file = Figure6.pdf,color = FALSE) I need to specify some blank space on the left-hand margins (the pages will be bound so we need about 0.5 inch)). I have tried a number of solutions but none seems to work (e.g. par.set). Can

Re: [R] Aid with 3-D scatterplots

On Wednesday 09 March 2005 13:17, Jim and Chana Milks wrote: I am attempting to classify pixels from a Landsat image by using their associated numbers in bands 2, 3, and 4 (It's from an assignment on classification). To aid me, I want to create a 3-D scatterplot using the cloud command. Due

[R] matrix program

I'm attempting to produce a program in which i can multiply a 4x4 matrix by a vector. I would like to have this occur 30 times with the product of the matrix and vector replace the original vector, kind of like population growth. I'm having difficulties with the programing aspect and continuously

Re: [R] Lattice device page options-margins

Bock, Michael wrote on 3/9/2005 1:19 PM: I am using lattice to make figures as pdfs: trellis.device(device = pdf,file = Figure6.pdf,color = FALSE) I need to specify some blank space on the left-hand margins (the pages will be bound so we need about 0.5 inch)). I have tried a number of solutions

RE: [R] how modify object in parent.env

Thank you to Gabor and Mark Schwartz for the answers. Both of them solved the problem I posted, but my actual problem, as I now see, is a little bit more involved. Let me try again. I have a vector 'x'. I want to compute its entries in a loop (yes, I know...). Say x = seq(3) for (i in

[R] How to get standard deviation of rows in a matrix

Hi all, I am trying to find sd of my rows in a matrix and i get column sd inspite of extracting rows. I tried to do the sqrt(var(x)) but that did'nt work as well, Here is my data genes 15 24 63 40 25 42 46 35 23 53 37 45 30 37 50 55 40 51 30 48 x-sd(genes[1:5,])

Re: [R] Lattice device page options-margins

Hi Sundar Dorai-Raj wrote: Bock, Michael wrote on 3/9/2005 1:19 PM: I am using lattice to make figures as pdfs: trellis.device(device = pdf,file = Figure6.pdf,color = FALSE) I need to specify some blank space on the left-hand margins (the pages will be bound so we need about 0.5 inch)). I have

Re: [R] Lattice device page options-margins

On Wednesday 09 March 2005 13:54, Paul Murrell wrote: Hi Sundar Dorai-Raj wrote: Bock, Michael wrote on 3/9/2005 1:19 PM: I am using lattice to make figures as pdfs: trellis.device(device = pdf,file = Figure6.pdf,color = FALSE) I need to specify some blank space on the left-hand

Re: [R] R-2.0.1 Gentoo g77 problem

On Wed, 9 Mar 2005, Gabriel Rossetti wrote: Hello, I use Gentoo and I can't get R 2.0.1 to compile. I used the portage system, Gentoo's source package sytem, and after it uncompresses the source to R, it says that I don't have a fortran compiler. It told me to use f77 flag and re-emerge

[R] need help getting started writing a new varFunc class for lme()

Hello - I've been using R for years, but have always been able to find what I need already available. Now I find that I would like to write a new varFunc class for the lme() or nlme() packages. There is some guidance for this in Problem 4 Chapter 5 of Bates and Pinheiro Mixed Effects Models

Re: [R] How to get standard deviation of rows in a matrix

On Wed, 9 Mar 2005 13:49:44 -0600, Jagarlamudi, Choudary [EMAIL PROTECTED] wrote : Hi all, I am trying to find sd of my rows in a matrix and i get column sd inspite of extracting rows. I tried to do the sqrt(var(x)) but that did'nt work as well, Here is my data genes 15 24 63 40 25 42

Re: [R] R-2.0.1 Gentoo g77 problem

Dimakos said: As I pointed out in a private message to the original poster, g77 is not found in the gentoo system. However, the system does provide f2c which [ Dimakos' full text below] It IS found on my gentoo system: bash-2.05b$ g77 -fversion GNU Fortran (GCC) 3.3.5 (Gentoo Linux 3.3.5-r1,

Re: [R] RSPYTHON install failed on Mac

Dear Prof Brian Ripley, I downloaded RSPython install tar file from other sites and get the same results. After extract the file and configuer, I still get the same error. Here I attached the config.log file. And there's not much information I can get from basic config info. Please advise on

[R] How to use a R package with C code

Hello, everybody, I created a R package which includes C code. But I load this package, and carry out the R function in it. It shows C function is not in load table as follows. Would you tell me what is the problem? Where do I make mistake? Maggie [Previously saved workspace restored]

[R] contrast matrix for aov

How do we specify a contrast interaction matrix for an ANOVA model? We have a two-factor, repeated measures design, with Cue Direction (2) x Brain Hemisphere(2) Each of these has 2 levels, 'left' and 'right', so it's a simple 2x2 design matrix. We have 8 subjects in each cell (a balanced

[R] install R redhat rpm as a normal user

Hi, I wonder if anyone has done this before. I have rpm-build installed in my workstation. Thanks. Eric __ R-help@stat.math.ethz.ch mailing list https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide!

[R] Help with lme Random Factor

Hi, I need help creating a code for a multiple BACI design (Before-After Control-Impact) ANOVA. I'm new to R and basically need to run a complex mixed model ANOVA that treats location as a random factor. Data are from a fire experiment, run 2001-2004 (2 years pre, 2 years post). Response is

Re: [R] How to use a R package with C code

On Wed, 9 Mar 2005 18:54:36 -0500, [EMAIL PROTECTED] wrote : Hello, everybody, I created a R package which includes C code. But I load this package, and carry out the R function in it. It shows C function is not in load table as follows. Would you tell me what is the problem? Where do I make

Re: [R] from long/lat to UTM

Hi Yyan, The proj4R package by Roger Bivand will allow you to project data in many ways and directions. http://spatial.nhh.no/R/Devel/proj4R-pkg.pdf It uses the proj libraries from: http://www.remotesensing.org/proj/ Not sure where you would derive the time zone! Good luck, Sander. yyan liu

[R] Help :plotting 3d images

Hai All, I am very new to R software. I would like to get some help in plotting 3d images in surfaces. What packages can be used to generate these smooth surface of 3d images? thanks lakshmi - [[alternative HTML version deleted]]

[R] two-dimensional integration?

I find the one-dimensional integrate very helpful, but often enough I stumble into problems that require two (or more)-dimensional integrals. I suppose there are no R functions that can do this for me, directly? The ideal thing would be to be able to define say f - function(x) { x1 - x[1] x2 -

[R] How could I catch the R data-output stream and presented by other software func

Dear All R-helper, I wonder to know that could I do the computation staff in R environment and get the R data output stream ,then presented by other software functions in their GUI.(for example: get the R data output streamand present the data using SPSS function in SPSS output GUI). Is there

Re: [R] Multidimensional Scaling (MDS) in R

This nmds seems to be the wrapper function in the labdsv package. Please check the documentation in that package. If I remember correctly, labdsv is geared for cases with large number of points, and then you don't want to get labels because they would be too congested to be seen anyway. The

Re: [R] RMySQL installed but not availalable

Thanks Arne, that was spot on. Cheers, Popolito Arne Henningsen wrote: Did you _load_ the package? R library( RMySQL ) On Thursday 10 March 2005 10:12, Adriano von Sydow wrote: Hi I run Linux SuSE 9.1, with MSQL 4.0.18 I installed R 2.0.1 and it is working fine I installed RM 0.5-5 package and

Re: [R] about kpss.test()

--- Achim Zeileis [EMAIL PROTECTED] wrote: First of all, could you tell me what the KPSS Level in the output of the test means? Thanks. But I meant to also ask about the number after that, e.g., KPSS Level = 0.0027 Please check the references of kpss.test or any book on

[R] urgent request

Hi guys, I want to do weighted conditional logistic regression, but clogit do not accept weights. Would you tell me whether there are any ways to do this? Thanks a lot in advance, Spring __ R-help@stat.math.ethz.ch mailing list

Re: [R] Help with lme Random Factor

Hello Andrew, I strongly suggest that you obtain a copy of the book that documents the use of the package, and read it. Mixed Effects Models in S and S-Plus by Jose C. Pinheiro and Douglas M. Bates Springer Verlag 2000. I hope that this helps, Andrew - Original Message - From: