Re: [Rd] (PR#9328) Error in optim(...) non-finite finite-difference

2006-10-31 Thread ripley
No, this is not a bug in R, but a report to you by R of a problem with your code. It means that the difference of two values of your function evaluated to a non-finite value when doing finite-differencing. Non-finite values are Inf, -Inf or NaN. There is nothing to reproduce here, your version

Re: [Rd] Some R questions

2006-10-31 Thread miguel manese
Hi, Had experience with this on doing SQLiteDF... On 11/1/06, Vladimir Dergachev <[EMAIL PROTECTED]> wrote: > Hi all, > >I am working with some large data sets (1-4 GB) and have some questions > that I hope someone can help me with: > >1. Is there a way to turn off garbage collector from

[Rd] fields appearing in cran descriptions pages

2006-10-31 Thread Gabor Grothendieck
What determines which fields appear in CRAN descriptions pages. For example, for doBy there is no Date: but there is a vignette listed: http://cran.r-project.org/src/contrib/Descriptions/doBy.html whereas for gsubfn there is a Date: but there is no vignette listed (even though it has one).

[Rd] Argument error reporting slowness

2006-10-31 Thread McGehee, Robert
Hello, My work with large datasets slows down a fair amount in R 2.4.0 when I mistakenly pass in a large dataset using an incorrect argument. That is, the same error message for reporting an incorrect argument usage when I pass in a 1e8 length matrix takes 3 minutes on R 2.4.0 versus 0.01 seconds o

[Rd] Error in optim(...) non-finite finite-difference value (PR#9328)

2006-10-31 Thread avbell
Full_Name: Adrian Bell Version: 2.2.0 OS: Windows XP Prof Submission from: (NULL) (169.237.62.194) Mysterious error that I do not know how to get around. Error in optim(...) non-finite finite-difference value For me, this has occurred for methods Nelder-Mead and L-BFGS-B. What does it mean?

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread Peter Kleiweg
Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > Peter Kleiweg <[EMAIL PROTECTED]> writes: > > > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > > > > > Peter Kleiweg <[EMAIL PROTECTED]> writes: > > > > > > > Peter Dalgaard schreef op de 31e

Re: [Rd] setReplaceMethod

2006-10-31 Thread John Chambers
There's a two-level issue here, principle and practice. The principle is that the behavior of basic R functions on basic R data types is considered "sealed". Math functions, arithmetic, etc. on basic vectors are not supposed to be alterable. The function "[<-" is one of those functions. If x

Re: [Rd] missing SIGWINCH?

2006-10-31 Thread Simon Urbanek
Jon, I don't have access to a Mac Pro, so I can't test anything, but based on your report I found a bug in R_system that affects signal handling during "system" calls on Macs. Please test the current R-devel (39754) or R-2-4-branch (39755) to see if it solves your problem. Thanks, Simon On

[Rd] missing SIGWINCH?

2006-10-31 Thread Jon Stearley
I have an R library which uses identify() and system(com="xterm -e less /a/corresponding/file") to view files when I click on an x11() plot. I can successfully resize the xterm on Linux (i486) and Macos 10.4 (G4 and G5), but NOT Macos 10.4 (Intel). For example, on a new mac pro: # in a t

[Rd] Some R questions

2006-10-31 Thread Vladimir Dergachev
Hi all, I am working with some large data sets (1-4 GB) and have some questions that I hope someone can help me with: 1. Is there a way to turn off garbage collector from within C interface ? what I am trying to do is suck data from mysql (using my own C functions) and I

Re: [Rd] Syntax Error in Rcmd check on Windows

2006-10-31 Thread Duncan Murdoch
On 10/31/2006 8:38 AM, Michael Hoehle wrote: > Dear R-developers, > > I am currently developing an R package called RLadyBug. When > developing under Linux "R CMD check ." works fine without a warning. > However, when I do "Rcmd check ." under Windows (version 2.4.0 and > earlier) I get a „syntax

[Rd] help with extended mle package?

2006-10-31 Thread Ben Bolker
A while back, I wrote to the list/engaged in some debate with Peter Dalgaard about the mle() function in the stats4 package -- in particular, I wanted it to have a data= argument so that parameters could be estimated for different sets of data with the same minuslogl function: Peter disagreed, s

[Rd] setReplaceMethod

2006-10-31 Thread Robin Hankin
Hi If x <- 1:10then x[5] <- 1iwill promote x to be a complex vector. Suppose I have an S4 class "brob", and have functions is.brob(), as.brob(), as.numeric() and so forth (minimal self-contained code below). If x is numeric (1:10, say) and y is a brob, what is the best way to make

Re: [Rd] Syntax Error in Rcmd check on Windows

2006-10-31 Thread Michael Hoehle
Hello again, Thank you for the feedback. I put the source File on the net as http://www.statistik.lmu.de/~hoehle/software/RLadyBug/RLadyBug-Ex.zip In case you need the entire "..Rcheck" directory I put this as http://www.statistik.lmu.de/~hoehle/software/RLadyBug/Rcheck.zip The "(" ")" should

Re: [Rd] Syntax Error in Rcmd check on Windows

2006-10-31 Thread Peter Dalgaard
"Michael Hoehle" <[EMAIL PROTECTED]> writes: > Dear R-developers, > > I am currently developing an R package called RLadyBug. When > developing under Linux "R CMD check ." works fine without a warning. > However, when I do "Rcmd check ." under Windows (version 2.4.0 and > earlier) I get a „synta

Re: [Rd] Syntax Error in Rcmd check on Windows

2006-10-31 Thread Duncan Murdoch
On 10/31/2006 8:38 AM, Michael Hoehle wrote: > Dear R-developers, > > I am currently developing an R package called RLadyBug. When > developing under Linux "R CMD check ." works fine without a warning. > However, when I do "Rcmd check ." under Windows (version 2.4.0 and > earlier) I get a „syntax

[Rd] Syntax Error in Rcmd check on Windows

2006-10-31 Thread Michael Hoehle
Dear R-developers, I am currently developing an R package called RLadyBug. When developing under Linux "R CMD check ." works fine without a warning. However, when I do "Rcmd check ." under Windows (version 2.4.0 and earlier) I get a „syntax error" when checking the examples. This puzzles me some

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread p . dalgaard
Peter Kleiweg <[EMAIL PROTECTED]> writes: > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: >=20 > > Peter Kleiweg <[EMAIL PROTECTED]> writes: > >=20 > > > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 20= 06: > > >=20 > > > > [EMAIL PROTECTED] writes:

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread Peter Dalgaard
Peter Kleiweg <[EMAIL PROTECTED]> writes: > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > > > Peter Kleiweg <[EMAIL PROTECTED]> writes: > > > > > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > > > > > > > [EMAIL PROTECTED] writes: > > > >

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread Peter Kleiweg
Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > Peter Kleiweg <[EMAIL PROTECTED]> writes: > > > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > > > > > [EMAIL PROTECTED] writes: > > > > > > > 'make check' fails on d-p-q-r-tests: > > > ... >

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread p . dalgaard
Peter Kleiweg <[EMAIL PROTECTED]> writes: > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: >=20 > > [EMAIL PROTECTED] writes: > >=20 > > > 'make check' fails on d-p-q-r-tests: > > ... > > > --please do not edit the information below-- > > >=20 > > > Version: > > > platfo

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread Peter Dalgaard
Peter Kleiweg <[EMAIL PROTECTED]> writes: > Peter Dalgaard schreef op de 31e dag van de wijnmaand van het jaar 2006: > > > [EMAIL PROTECTED] writes: > > > > > 'make check' fails on d-p-q-r-tests: > > ... > > > --please do not edit the information below-- > > > > > > Version: > > > platform = i

Re: [Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread Peter Dalgaard
[EMAIL PROTECTED] writes: > 'make check' fails on d-p-q-r-tests: ... > --please do not edit the information below-- > > Version: > platform = i686-pc-linux-gnu > arch = i686 > os = linux-gnu > system = i686, linux-gnu > status = > major = 2 > minor = 4.0 > year = 2006 > month = 10 > da

[Rd] lme4 install, was Re: [R] Which executable is associated with R CMD INSTALL?

2006-10-31 Thread Peter Dalgaard
[move to r-devel, put maintainer in loop] Patrick Connolly <[EMAIL PROTECTED]> writes: > On Mon, 30-Oct-2006 at 04:44PM -0500, Duncan Murdoch wrote: > > > |> Try "R CMD printenv R_HOME" and you'll find which R home directory it is > |> using. You can see a lot more with "R CMD printenv" or

[Rd] malformed manual page with 'man R' (PR#9327)

2006-10-31 Thread p . c . j . kleiweg
I get a malformed manual page with 'man R': WARNING:(1)FSFWARNING:(1) NAME WARNING: - a language for data analysis and graphics SYNOPSIS R [options] [< infile] [> outfile] R CMD command [arguments] DESCRIPTION WARNING: ignori

[Rd] 'make check' fails on d-p-q-r-tests (PR#9326)

2006-10-31 Thread p . c . j . kleiweg
'make check' fails on d-p-q-r-tests: > ##-- non central Chi^2 : > xB <- c(2000,1e6,1e50,Inf) > for(df in c(0.1, 1, 10)) + for(ncp in c(0, 1, 10, 100)) stopifnot(pchisq(xB, df=df, ncp=ncp) == 1) Error: pchisq(xB, df = df, ncp = ncp) == 1 is not all TRUE Execution halted Here is some more tes