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

2006-11-06 Thread Prof Brian Ripley
On Mon, 6 Nov 2006, Douglas Bates wrote: [...] > However, I think it exposes a problem with R CMD INSTALL. If there is > a LinkingTo: directive in the DESCRIPTION file and the package's > include directory cannot be found I think that R CMD INSTALL should > abort. That was a deliberate design d

[Rd] rbind with auto-row-named data.frame + list (PR#9346)

2006-11-06 Thread Mark . Bravington
There's a problem new to R2.4.0 when rbinding an auto-row-named data.frame to a list: > rbind( data.frame( x=1), list( x=2)) Error in attr(value, "row.names") <- rlabs : row names must be 'character' or 'integer', not 'double' Works OK with 2 data.frames or 2 lists. Mark Bravington CSIR

[Rd] data frame subscription operator

2006-11-06 Thread Vladimir Dergachev
Hi all, I was looking at the data frame subscription operator (attached in the end of this e-mail) and got puzzled by the following line: class(x) <- attr(x, "row.names") <- NULL This appears to set the class and row.names attributes of the incoming data frame to NULL. So far I was no

Re: [Rd] gc()$Vcells < 0 (PR#9345)

2006-11-06 Thread Vladimir Dergachev
On Monday 06 November 2006 6:12 pm, [EMAIL PROTECTED] wrote: > version.string Version 2.3.0 (2006-04-24) > > > x<-matrix(nrow=44000,ncol=48000) > > y<-matrix(nrow=44000,ncol=48000) > > z<-matrix(nrow=44000,ncol=48000) > > gc() > > used(Mb) gc trigger(Mb) max used(Mb) > Nce

Re: [Rd] gc()$Vcells < 0 (PR#9345)

2006-11-06 Thread Peter Dalgaard
[EMAIL PROTECTED] writes: > Full_Name: Don Maszle > Version: 2.3.0 > OS: x86_64-unknown-linux-gnu > Submission from: (NULL) (206.86.87.3) > > > # On our new 32 GB x86_64 machine > > R : Copyright 2006, The R Foundation for Statistical Computing > Version 2.3.0 (2006-04-24) > ISBN 3-900051-07-0

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread p . dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > Peter, >=20 > I ran the memory limit function you mention below and both versions provi= de > the same result: >=20 > > > > memory.limit(size=3D4095) > NULL > > memory.limit(NA) > [1] 4293918720 > > > I do have 4GB ram on my PC. As a more repr

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Peter Dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > Peter, > > I ran the memory limit function you mention below and both versions provide > the same result: > > > > > memory.limit(size=4095) > NULL > > memory.limit(NA) > [1] 4293918720 > > > I do have 4GB ram on my PC. As a more reproducible

[Rd] gc()$Vcells < 0 (PR#9345)

2006-11-06 Thread dmaszle
Full_Name: Don Maszle Version: 2.3.0 OS: x86_64-unknown-linux-gnu Submission from: (NULL) (206.86.87.3) # On our new 32 GB x86_64 machine R : Copyright 2006, The R Foundation for Statistical Computing Version 2.3.0 (2006-04-24) ISBN 3-900051-07-0 R is free software and comes with ABSOLUTELY NO

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Derek Stephen Elmerick
Peter, I ran the memory limit function you mention below and both versions provide the same result: memory.limit(size=4095) NULL memory.limit(NA) [1] 4293918720 I do have 4GB ram on my PC. As a more reproducible form of the test, I have attached output that uses a randomly generated data

Re: [Rd] allocVector bug ?

2006-11-06 Thread Vladimir Dergachev
Hi Luke, Thank you for the patient reply ! I have looked into the issue a little deeper, comments below: On Thursday 02 November 2006 11:26 pm, Luke Tierney wrote: > On Wed, 1 Nov 2006, Vladimir Dergachev wrote: > > Hi all, > > > > I was looking at the following piece of code in src/ma

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread p . dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > Thanks for the replies. Point taken regarding submission protocol. I have > included a text file attachment that shows the R output with version 2.3.= 0and > 2.4.0. A label distinguishing the version is included in the comments. >=20 > A quick

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Peter Dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > Thanks for the replies. Point taken regarding submission protocol. I have > included a text file attachment that shows the R output with version 2.3.0and > 2.4.0. A label distinguishing the version is included in the comments. > > A quick bac

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Derek Stephen Elmerick
Thanks for the replies. Point taken regarding submission protocol. I have included a text file attachment that shows the R output with version 2.3.0and 2.4.0. A label distinguishing the version is included in the comments. A quick background on the attached example. The dataset has 650,000 record

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread p . dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > thanks for the friendly reply. i think my description was fairly clear: i > import a large dataset and run a model. using the same dataset, the > process worked previously and it doesn't work now. if the new version of R > requires more memory

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Peter Dalgaard
"Derek Stephen Elmerick" <[EMAIL PROTECTED]> writes: > thanks for the friendly reply. i think my description was fairly clear: i > import a large dataset and run a model. using the same dataset, the > process worked previously and it doesn't work now. if the new version of R > requires more memory

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread khansen
It would be helpful to produce a script that reproduces the error on =20 your system. And include details on the size of your data set and =20 what you are doing with it. It is unclear what function is actually =20 causing the error and such. Really, in order to do something about it =20= you need

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Kasper Daniel Hansen
It would be helpful to produce a script that reproduces the error on your system. And include details on the size of your data set and what you are doing with it. It is unclear what function is actually causing the error and such. Really, in order to do something about it you need to show h

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Derek Stephen Elmerick
thanks for the friendly reply. i think my description was fairly clear: i import a large dataset and run a model. using the same dataset, the process worked previously and it doesn't work now. if the new version of R requires more memory and this compromises some basic data analyses, i would label

Re: [Rd] memory issues with new release (PR#9344)

2006-11-06 Thread Peter Dalgaard
[EMAIL PROTECTED] writes: > Full_Name: Derek Elmerick > Version: 2.4.0 > OS: Windows XP > Submission from: (NULL) (38.117.162.243) > > > > hello - > > i have some code that i run regularly using R version 2.3.x . the final step > of > the code is to build a multinomial logit model. the datase

[Rd] memory issues with new release (PR#9344)

2006-11-06 Thread delmeric
Full_Name: Derek Elmerick Version: 2.4.0 OS: Windows XP Submission from: (NULL) (38.117.162.243) hello - i have some code that i run regularly using R version 2.3.x . the final step of the code is to build a multinomial logit model. the dataset is large; however, i have not had issues in the pa

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

2006-11-06 Thread Douglas Bates
On 06 Nov 2006 15:41:11 +0100, Peter Dalgaard <[EMAIL PROTECTED]> wrote: > "Douglas Bates" <[EMAIL PROTECTED]> writes: > > > On 31 Oct 2006 12:05:21 +0100, Peter Dalgaard <[EMAIL PROTECTED]> wrote: > > > > > > [move to r-devel, put maintainer in loop] > > > > > > Patrick Connolly <[EMAIL PROTECTED]

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

2006-11-06 Thread Peter Dalgaard
"Douglas Bates" <[EMAIL PROTECTED]> writes: > On 31 Oct 2006 12:05:21 +0100, Peter Dalgaard <[EMAIL PROTECTED]> wrote: > > > > [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: > > >

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

2006-11-06 Thread Douglas Bates
On 31 Oct 2006 12:05:21 +0100, Peter Dalgaard <[EMAIL PROTECTED]> wrote: > > [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

Re: [Rd] CRAN task views work only once per session (PR#9330)

2006-11-06 Thread Keith Ponting
> -Original Message- > From: Prof Brian Ripley [mailto:[EMAIL PROTECTED] > Sent: 06 November 2006 11:42 > To: Keith Ponting > Cc: r-devel@r-project.org > Subject: Re: [Rd] CRAN task views work only once per session (PR#9330) > > I think the following item in NEWS for R-patched may be rele

Re: [Rd] CRAN task views work only once per session (PR#9330)

2006-11-06 Thread Prof Brian Ripley
I think the following item in NEWS for R-patched may be relevant: o load()ing from a connection had a logic bug in when it closed the connection. (PR#9271) so please try R-patched. On Mon, 6 Nov 2006, Keith Ponting wrote: > Thankyou to those who have replied to this thread. > >

[Rd] CRAN task views work only once per session (PR#9330)

2006-11-06 Thread Keith Ponting
Thankyou to those who have replied to this thread. I have now reproduced similar effects in a way which does not directly involve CRAN task views. (I have also reproduced the original problem on a different machine within our site and using a different mirror.) The following sequence of commands