Re: [Rd] trace an Rd conversion error in R cmd check

Hi Spencer, Yes, I have versions that pass, but it is not package specific (i.e., I can download other package sources from CRAN and if I run R CMD check on them, I get the same error). When I run R CMD check using R 2.13.1 or R 2.13.2 it is fine. Using either: compiled from source: R Under dev

Re: [Rd] NOTE: unstated dependencies in examples

You have this in Jevons.Rd: # show as balloonplots if (require(gplots)) { and this in Snow.Rd: %\dontrun{ library(sp) It will certainly be helpful if R CMD check can provide more informative messages (in this case, e.g, point out the Rd files). Regards, Yihui -- Yihui Xie Phone: 515-294-2

Re: [Rd] how to make a true binary package?

On 12/10/2011 3:57 PM, Greg Snow wrote: If you want to hide some code from accidental or casual sight then I have had some success with adding something like this to the .R file for a package (the petals function in TeachingDemos in this case): .onAttach<- function(...) { petals<- petals

Re: [Rd] how to make a true binary package?

If you want to hide some code from accidental or casual sight then I have had some success with adding something like this to the .R file for a package (the petals function in TeachingDemos in this case): .onAttach <- function(...) { petals <- petals attr(petals,'source') <- "Don't Cheat

[Rd] a couple of small problems with current R devel branch

These are small enough problems with R devel branch yesterday I thought I'll just post here and hope somebody will fix them soon (or may have already been fixed today), rather than filing at the bugzilla. - "R CMD check --use-valgrind --use-gct " gives: -- Error in g

Re: [Rd] trace an Rd conversion error in R cmd check

Good luck in tracking down the problem. I won't give any help there. I've seen this sort of error message (or worse) when using system.file() and the desired file didn't exist. If that is the problem, add the newish argument mustWork=TRUE to the call to system.file so you get an error message fr

Re: [Rd] trace an Rd conversion error in R cmd check

Hi, Josh: Have you had a recent version that passed "R CMD check"? If yes, I suggest you save your recent changes then revert to that earlier version and add your recent changes back in again one at a time. I've done that many times. (It's also a major reason I make changes as small

Re: [Rd] trace an Rd conversion error in R cmd check

Thanks to Drs. Murdoch and Ripley for your fast and helpful replies. I did not realize that R CMD check was R code, so that was incredibly useful. I spent the morning working on debugging this, and I think I must have messed up setting up the Windows tool chain, because I get the error even when r

[Rd] NOTE: unstated dependencies in examples

Using R 2.13.1, I am now getting the following NOTE when I run R CMD check on my HistData package * checking for unstated dependencies in examples ... NOTE 'library' or 'require' calls not declared from: gplots sp Under R 2.12.x, I didn't get these notes. I have ~ 25 .Rd files in this packag

Re: [Rd] trace an Rd conversion error in R cmd check

R CMD check is R code: you can run the R code for yourself using R's debugging facilities. In this case start with 'R CMD Rd2pdf pkg-name' (which should give the same error, as that is what R CMD check calls), then run that R code directly (there are comments in the code in R-devel about how t

Re: [Rd] trace an Rd conversion error in R cmd check

On 11-10-12 3:24 AM, Joshua Wiley wrote: Hi All, Apologies if this is a very naive question. Is there a way to see the particular Rd file being processed right before a warning/error occurs? As far as I can tell, all my .Rd files use have names and titles and they are unique between Rd files (

[Rd] trace an Rd conversion error in R cmd check

Hi All, Apologies if this is a very naive question. Is there a way to see the particular Rd file being processed right before a warning/error occurs? As far as I can tell, all my .Rd files use have names and titles and they are unique between Rd files (sometimes in a file I use something like \n

Re: [Rd] BitSet equivalent? Java code usable?

If you don't have NAs in your bits, you might be able to use the raw vector type. A raw value is one byte (8 bits), doesn't support NAs and supports bit operations on all the bits at once: &, |, !, xor You'd probably want to wrap it into a class that allows a more BitSet-like view of it though.

Re: [Rd] [R-sig-hpc] R CMD INSTALL configure.args and CC customization

Thanks! This is a possible solution, but I would argue not a preferable solution. I'd advocate a mechanism that provides transparent support for MPI, analogous to the way that R 2.13.0 and upwards provides transparent support for OpenMP. Expressing a personal opinion, I would stress the importan

[Rd] gettext domain and namespaces

Hi! I thought having a NAMESPACE file in an R package was enough to pass the correct 'domain' argument to gettext(), but it can't get this to work with a Rcommander plugin I'm developing[1]. Is that a know bug? Or is this related to the fact that Rcmdr does some black magic when loading plugins?

Re: [Rd] R CMD INSTALL configure.args and CC customization

One way to deal with this is to install R itself with mpicc. Then all packages are installed with mpicc and get the required MPI libraries and includes by default. I have done this with R-2.13.0 on an Opteron cluster running CentOS-5 a while ago and so far it has worked out great. I crosspost t

Re: [Rd] BitSet equivalent? Java code usable?

> If you don't have NAs in your bits, you might be able to use the raw > vector type. A raw value is one byte (8 bits), doesn't support NAs and > supports bit operations on all the bits at once: > > &, |, !, xor > > You'd probably want to wrap it into a class that allows a more > BitSet-like vi