search for: phylobase

Hi all, I am attempting to install a package called phylobase from source directory. It all seems to work until the end, at which point it looks like the last compile command fails because the line is too long...perhaps because the g++ command line also includes "Loading ~/.Rprofile...", like this: ============================ g++ -arch i386 -...

Hello all, In one of the packages (phylobase) I'm contributing to, we define a class as follows: setClass("phylo4", representation(edge = "matrix", edge.length = "numeric", label = "character", edge.label = "chara...

...n which the appropriate method is defined is loaded automatically when calling the method. The problem is that if the package is indeed loaded automatically, the appropriate method is not used. An example using the package pixmap (but I obtained similar results with S4 objects from adegenet and phylobase packages): ##### in one R session > library(pixmap) > foo <- new("pixmap") ## here the object is printed with the appropriate show method. > foo Pixmap image Type : pixmap Size : 0x0 Resolution : 0x0 Bounding box : 0 0 0 0 > setClass("myClass", contains=&quo...

...nteers' vacations, there will be minimal support for Windows' binary packages for the next month and in particular package updates may be delayed. Some packages still need updates (apart from those already updated on CRAN extras) for use on Windows with R-devel, notably lossDev mvabund phylobase RInside Rserve xlsReadWrite Brian Ripley -- Brian D. Ripley, ripley at stats.ox.ac.uk Professor of Applied Statistics, http://www.stats.ox.ac.uk/~ripley/ University of Oxford, Tel: +44 1865 272861 (self) 1 South Parks Road, +44 1865 272866 (PA)...

Is there some reason why > (1:2)+(1:3) [1] 2 4 4 Warning message: In (1:2) + (1:3) : longer object length is not a multiple of shorter object length can't be made into an error? I realise it was there in S-PLUS, but since it produces a warning there can't be many examples on CRAN or Bioconductor using it, and I can't think of any situation where it would be used deliberately.

I'm in the process of converting some S3 methods to S4 methods. I have this function : setGeneric("enrichmentCalc", function(rs, organism, seqLen, ...){standardGeneric("enrichmentCalc")}) setMethod("enrichmentCalc", c("GenomeDataList", "BSgenome"), function(rs, organism, seqLen, ...) { ... ... ... })

CRAN (and crantastic) updates this week New packages ------------ * allan (1.0) Alan Lee http://crantastic.org/packages/allan Automates Large Linear Analysis Model Fitting * andrews (1.0) Jaroslav Myslivec http://crantastic.org/packages/andrews Andrews curves for visualization of multidimensional data * anesrake (0.3) Josh Pasek http://crantastic.org/packages/anesrake This