similar to: assigning NULLs to elements of a list

This is a question and maybe an announcement. We've been discussing in the group that it would be nice to have a mechanism for something like "inline" C/C++ function calls in R. I do not want to reinvent the wheel, therefore, if something like that already exists, please give me a hint -- I could not find anything. If not, here is a working solution, please criticise so I could

Dear list: working with date/times I have come across a problem that ISOdate and ISOdatetime are too slow on large vectors of data. I was surprised just until I looked at the implementation and the man page: "ISOdatetime and ISOdate are convenience wrappers for strptime". In other terms, they convert data to character representation first in order to create a POSIXlt object that is then

Hello, is there any one who uses C++ STL classes when programming shared libs for R and has had any problems with STL? In the very simple example below I am constantly getting segfaults when trying to populate the queue. The segfault occurs at what looks like a random index in the loop when pushing another element to the queue. Reproduced on 4 machines. Object x is an Image as in EBImage,

Hi all: we have noticed for quite a while that certain errors cannot be handled by R try, tryCatch etc blocks, but it was fairly difficult to understand what were the conditions for this incorrect behaviour. Finally I stabbed across a very understandable case, which is outlined in the (runnable) example below. The main message is: wrapping an S4 method call in a try block will not help if an

First, thanks to those of you who responded to my previous post about my code that was taking longer and longer to process. After following your suggestions, and I now thinking that the problem was some calls to Rf_duplicate in my C code. So I'm hoping I could get some clarification on what Rf_duplicate actually does. What is the real difference between PROTECT(y=x); and PROTECT (y =

Following my previous post on S3 method despatch, I put debug messages in the code of Axis, Axis.default and plot.default in graphics/R/axis.R and graphics/R/plot.R to print the class of x, at and y on plot. After recompiling R, what I see is that x *lost* its class attribute (at least for classes not known to 'graphics') in Axis, called directly from plot.default and this could be the

The XML package relies on libxml2.dll (e.g., bundled with the CRAN binary) installed in library/XML/libs. Unfortunately, c:/WINDOWS/system32/libxml2.dll will be found and loaded before this. Is there any programatic solution? Thanks, Martin -- Martin Morgan Computational Biology / Fred Hutchinson Cancer Research Center 1100 Fairview Ave. N. PO Box 19024 Seattle, WA 98109 Location: Arnold

Dear lists: I am somewhat puzzled by the use of texi2dvi/pdflatex in R2.7.0. When building EBImage (bioconductor) with 2.7.0 I get the same error both in Windows and Linux, which reads the following: ** building package indices ... * DONE (EBImage) * creating vignettes ... ERROR /usr/bin/texi2dvi: pdflatex exited with bad status, quitting. Error in texi2dvi(file = bft, pdf = TRUE, clean =

Dear All: We have been experiencing networking issues so I don't know if this got through; I can't see it in the archive. My sincere apologies if this appears twice. I may have found an unusual bug and am posting here to see if anyone can reproduce it on their system. First of all, sessionInfo(): > sessionInfo() R version 2.7.1 (2008-06-23) i386-apple-darwin8.10.1 locale:

Hi Community, I have a question about how to pass command line parameters to R script running in the batch mode. The problem is: there is a banch of data files which are to be processed by R script called from a web-server, i.e. in the batch mode. The web server generates data files and passes their names calling 'R CMD BATCH' one by one for every file. Now the question is how to

Hi Everyone, I have a question about for loops. If you have something like: f <- function(x) { y <- rep(NA,10); for( i in 1:10 ) { if ( i > 3 ) { if ( is.na(y[i-3]) == FALSE ) { # some calculation F which depends on one or more of the previously generated values in the series y[i] = y[i-1]+x[i]; } else { y[i] <- x[i]; } } } y } e.g. >

Hi Everyone, I have a question about for loops. If you have something like: f <- function(x) { y <- rep(NA,10); for( i in 1:10 ) { if ( i > 3 ) { if ( is.na(y[i-3]) == FALSE ) { # some calculation F which depends on one or more of the previously generated values in the series y[i] = y[i-1]+x[i]; } else { y[i] <- x[i]; } } } y } e.g. >

Hi, I do not know if everybody finds index pages of the html-formatted R help useful, but I know I am at least not the only one who uses them extensively to get the overview of functions and methods in a package (even for my own package). Problems arise, however, if a lot of S4 methods need to be documented blowing out the index with (generally irrelevant) entries like:

Hi Community, here is the problem, Linux problem (reported to work on Windows). I need to generate graphical output in any of bitmap format under the 'R CMD BATCH'. Whereas the script generating png-s works perfectly in the R session, such things as X11, png and jpeg are not usable in BATCH (they cannot be switched on by --gui-X11 etc) and X11 is prompted to be required for png. At

Hi Community, here is the problem, Linux problem (reported to work on Windows). I need to generate graphical output in any of bitmap format under the 'R CMD BATCH'. Whereas the script generating png-s works perfectly in the R session, such things as X11, png and jpeg are not usable in BATCH (they cannot be switched on by --gui-X11 etc) and X11 is prompted to be required for png. At

Dear developers, has anyone experienced the problem described below? Is it a bug in handling interrupts in R? Best, Oleg -------- Original Message -------- Subject: Re: [BioC] 'recursive default argument' error in GOENTREZID2GO From: Diego Diez <diez at kuicr.kyoto-u.ac.jp> ...steps that use to reach me to that point. It happens with any environment, or at least annotation

Hi, I have an S4 class directly derived from 'array' as shown in the code below (EBImage package of Bioconductor 2.1, devel), it simply contains array adding a couple of slots: setClass ("Image", representation (colormode="integer", filename="character", compression="character", resolution="numeric", features="list" ),

Dear R developers, I've just encountered one "feature" of R-C extensions. If it is known, I would be thankful for any hints why it works this way (I found the way around, which is also mentioned here, but maybe it is not the best one). If it is however unknown, it might be considered for a "wish list". Consider a simple "aka" C function (the original

r-devel, I've been trying to write a C plugin for R, and I'm struggling to understand how dates are represented. I can create a date in R: > mydate<-as.Date(1, origin="1900-01-01") mydate [1] "1900-01-02" When I pass my date to a plugin, though, it's type is that of a real. There doesn't seem to be a date type in Rinternals.h, is there a way to

dear people, i need to code a function in C working in R and receives two R SEXP objects as parameters, where one is a list and another is a vector of integers: void f(SEXP list, SEXP vector) { ... return list; } and it should return the given list with the integer vector concatenated at the end (as the last element of the list). the list can be really big so i would not like to create a