similar to: incorrect import?

Dear all, I get a bug in the examples of my AFLP package on R-forge (https://r-forge.r-project.org/R/?group_id=1027) but only on the Linux version. The windows version compiles. The Mac version skips the examples and compiles. The strange thing is that the packages compiles on my Ubuntu 10.10 machine with R 2.15.0. Therefore I can't reproduce the error. I have traced the problem at

Dear all, I'm writing a package and I would like to reuse the residuals() function. When I use a function which calls the redefined residuals (for my custom class) I get an error (see below). It looks like the wrong method is used. The strange this is, that when it execute the code manually it get no error. Any suggestions? Best regards, Thierry The entire source code is at

Dear all, I have a list of n matrices which all have the same dimension (r x s). What would be a fast/elegant way to calculate the element wise average? So result[1, 1] <- mean(c(raw[[1]][1, 1] , raw[[2]][1, 1], raw[[...]][1, 1], raw[[n]][1, 1])) Here is my attempt. #create a dummy dataset n <- 3 r <- 5 s <- 6 raw <- lapply(seq_len(n), function(i){ matrix(rnorm(r * s), ncol =

Dear all, One of the functions that I wrote (ggsave.latex) extents the functionality of a function (ggsave) in another package (ggplot2). Instead of copying all the information I would like to create a link in the helpfile of ggsave.latex to the helpfile of ggsave. I tried \code{\link{ggsave}} and \code{\link{ggplot2::ggsave}}, but neither worked. Both cases gave a 'missing link' warning.

Dear all, I'm plotting some points on a graph where both axes need to have the same scale. See the example below. Coord_equal does that trick but in this case it wastes a lot of space on the y-axis. Setting the limits of the y-axis myself was no avail. Any suggestions to solve this problem? library(ggplot2) ds <- data.frame(x = runif(1000, min = 0, max = 300000), y = runif(1000, min =

Dear all, I'm documenting an elaborate analysis as a private package. The package writes all required output to a database. I use a Sweave file to transform all the results from the database into a report. Now I would like to add this Sweave to my package. I'm a bit puzzled on how to do that. It is not a vignette: the data is not available when the package is build and I need to

Dear all, I'm having troubles migrating a large matrix from one system to another. #system 1: Ubuntu 12.04, 64-bit, running R 2.15.2 # do some simulations # save the simulations > save(Output, file = "Simulations.Rdata") #Output is a numeric matrix with 6 columns and about 2M rows. Use ftp to transfer the Simulations.Rdata file to system 2 #system2: Windows XP, 32-bit running

Dear all, I'm using Roxygen for the first time and I'm getting a rather cryptic error message. I must be doing something wrong but I have no clue what is it. Any suggestions? Regards, Thierry roxygenize("AFLP", roxygen.dir = "AFLP", copy.package = FALSE, unlink.target = FALSE) Writing AFLP.outlier to AFLP/man/AFLP.outlier.Rd Writing AFLP.outlier to

Dear all, Could someone point me to a function or algorithm to generate random bivariate binomial data? Some details about what I'm trying to do. I have a dataset of trees who were categorised as not damaged or damaged. Each tree is measured twice (once in two consecutive years). The trees can recover from the damage but the data is clearly correlated. As a (un)damaged tree is more likely

Dear all, My package has Depends: lme4.0 in the DESCRIPTION. I need to extract the fixed effect of a model and their standard errors. I use coef(summary(model)) inside a function to do that. Model is the output of a call to glmer() from the lme4.0 package. coef(summary(model)) throws an error: $ operator is invalid for atomic vectors I have tracked it down to a problem with summary(model)

Dear all, Is it possible to incorporate a nested design in GEE? I have measurements on trees that where measured in two years. The trees are nested in plots. Each plot contains 24 trees. The number of plots is 72. Hence we would expect 2 * 24 * 72 = 3456 data points. A few are missing, so we end up wih 3431 data points. This is what I have tried until now. #assuming independence between trees

Dear all, I'm using zeroinfl() from the pscl-package for zero inflated Poisson regression. I would like to calculate (aproximate) prediction intervals for the fitted values. The package itself does not provide them. Can this be calculated analyticaly? Or do I have to use bootstrap? What I tried until now is to use bootstrap to estimate these intervals. Any comments on the code are welcome.

Dear Michael, my package has setOldClass("inla") and the NAMESPACE contains exportClasses(inla) and importFrom(INLA, inla.posterior.sample) the old version of INLA uses the S3 class "inla" but does not export it. the new version of INLA has setOldClass("inla") and the NAMESPACE contains exportClasses(inla) installing my package in combination with an older INLA

Dear all, predict.lme() throws an error when the fixed part consists of only an intercept and using newdata. See the reproducible example below. I've tracked the error down to asOneFormula() which returns in this case NULL instead of a formula. Changing NULL instead of ~1 in that function (see below) solves the problem in the case of an intercept only model (m1). It does not solve the problem

Hi all, I have managed to create a figure on the screen with multiple plots in it. Something like the example below. When I save that with ggsave(), only the last plot gets saved (pPath in the example) instead of the entire figure. Any suggestions how I can save this kind of figures automated? Thanks, Thierry library(ggplot2) pPoint <- qplot(unemploy/pop, psavert, data=economics) pPath

Dear all, Today I got this error message (R 3.6.1) when installing my package: Error: package or namespace load failed for ?inlatools? in namespaceExport(ns, exports): undefined exports: .__C__inla My package was using setOldClass("inla") and exported the "inla" class via the NAMESPACE. It imports functions from the INLA package. Older versions of the INLA package did not

Dear all, I'm puzzled by the error I get from R CMD check one of my packages. I'm running R CMD check with the --as-cran flag and it get the error both from running it from the command line as from within Rstudio. On the same machine R CMD check on my GRTS package (https://r-forge.r-project.org/R/?group_id=1027) works fine. Any suggestions on how to fix this? I can send the source code

Dear all, I'm trying to connect to an MSAccess database (ArcGIS personal geodatabase). I keep getting an error about the channel when using sqlQuery(). However, sqlTables() does not complain about the channel and lists all tables in the database. If I try sqlFetch(), then R crashes. I'm happy to hear suggestions on how to solve this. Best regards, Thierry > MDB <-

Hi All, I am running an Rscript with a bunch of algorithms that are UNSTABLE under some parameter settings. At a certain point one of them sends error massage and my whole run STOPS! What I would like is to save the error massage in some file or variable and carry on to the next command line without stopping this run... Any help or ideas would be welcome, please, with a concrete example (not

Hello, is it possible to create two uncorrelated random vectors for a given distribution. In fact, I would like to have something like the function "rnorm" or "rlogis" with the extra property that they are uncorrelated. Thanks for your help, Luba [[alternative HTML version deleted]]