Re: [Rd] example(smooth.spline) fails when function is NOT byte-compiled

2012-09-19 Thread Prof Brian Ripley
As the posting guide asked of you, try R-patched or R-devel before posting, and check the bug repository. • smooth.spline() used DUP = FALSE which allowed its compiled C code to change the function: this was masked by the default byte-compilation. (PR#14965.) On 19/09/2012 21:4

Re: [Rd] different behavior accessing type-specific as.data.frame inside a function vs inside R shell

2012-09-19 Thread Martin Morgan
Hi Brian -- On 9/19/2012 1:06 PM, brian avants wrote: hello we are developing an R package called ANTsR for which we have some special types. one of these types is an " antsMatrix " type. we implemented a "as.data.frame" function that casts an antsMatrix to a data.frame this works fine in a

[Rd] different behavior accessing type-specific as.data.frame inside a function vs inside R shell

2012-09-19 Thread brian avants
hello we are developing an R package called ANTsR for which we have some special types. one of these types is an " antsMatrix " type. we implemented a "as.data.frame" function that casts an antsMatrix to a data.frame this works fine in a basic shell script. for instance: # install R CMD INST

[Rd] example(smooth.spline) fails when function is NOT byte-compiled

2012-09-19 Thread Hervé Pagès
Hi, example(smooth.spline) fails with the non byte-compiled version of the smooth.spline function: > example(smooth.spline) smth.s> require(graphics) smth.s> attach(cars) smth.s> plot(speed, dist, main = "data(cars) & smoothing splines") [... more output deleted...] smth.s> li

Re: [Rd] CRAN test / avoidance

2012-09-19 Thread Spencer Graves
On 9/19/2012 11:51 AM, Hadley Wickham wrote: The question becomes: how does information get passed along to indicate things that may take a long time to run. The discussion so far has focused on developers setting, or using, some flags to indicate tests and examples that take a long time. Another

Re: [Rd] CRAN test / avoidance

2012-09-19 Thread Hadley Wickham
> The question becomes: how does information get passed along to indicate > things that may take a long time to run. The discussion so far has focused > on developers setting, or using, some flags to indicate tests and examples > that take a long time. Another option would be to have the check/buil

Re: [Rd] R-devel Digest, Vol 115, Issue 18

2012-09-19 Thread Terry Therneau
On 09/19/2012 09:22 AM, Duncan Murdoch wrote: I understand the issue with time constraints on checks, and I think there are discussions in progress about that. My suggestion has been to put in place a way for a tester to say that checks need to be run within a tight time limit, and CRAN as t

[Rd] CRAN test / avoidance

2012-09-19 Thread Paul Gilbert
( subject changed from Re: [Rd] R-devel Digest, Vol 115, Issue 18 ) I have the impression from this, and previous discussions on the subject, that package developers and CRAN maintainers are talking at cross-purposes. Many package maintainers are thinking that they should be responsible for ch

Re: [Rd] R-devel Digest, Vol 115, Issue 18

2012-09-19 Thread Duncan Murdoch
On 19/09/2012 10:08 AM, Terry Therneau wrote: > In general, as a package user, I don't want people to be able to > suppress checks on CRAN. I want things fixed. > > So I am pretty sure there won't ever be a reliable "CRAN-detector" put > into R. It would devalue the brand. > > Duncan Murdoch M

Re: [Rd] R-devel Digest, Vol 115, Issue 18

2012-09-19 Thread Terry Therneau
In general, as a package user, I don't want people to be able to suppress checks on CRAN. I want things fixed. So I am pretty sure there won't ever be a reliable "CRAN-detector" put into R. It would devalue the brand. Duncan Murdoch My problem is that CRAN demands that I suppress a large fra

[Rd] problem with vignettes when S4 classes in packages overlap

2012-09-19 Thread Michael Sumner
Sorry about out of date trip, I appreciate the detailed discussion here and will fix it soon once I catch up On Wednesday, September 19, 2012, Roger Bivand wrote: > On Tue, 18 Sep 2012, Paul Gilbert wrote: > > >> ( A similar problem is also reported by Sebastian P. Luque with >> library(maptools

Re: [Rd] Rcmd check problem

2012-09-19 Thread Uwe Ligges
On 19.09.2012 02:55, Qi Zhang wrote: Hi, all. I was trying to build my R package with R 2.15.1 32bit and win7. I basically follow the routine in Steven Mosher's blog http://stevemosher.wordpress.com/step-10-build/ After I fixed the path, and built the skeleton of the package, I started comma

Re: [Rd] Rcmd check problem

2012-09-19 Thread Duncan Murdoch
On 18/09/2012 8:55 PM, Qi Zhang wrote: Hi, all. I was trying to build my R package with R 2.15.1 32bit and win7. I basically follow the routine in Steven Mosher's blog http://stevemosher.wordpress.com/step-10-build/ After I fixed the path, and built the skeleton of the package, I started comma

[Rd] Rcmd check problem

2012-09-19 Thread Qi Zhang
Hi, all. I was trying to build my R package with R 2.15.1 32bit and win7. I basically follow the routine in Steven Mosher's blog http://stevemosher.wordpress.com/step-10-build/ After I fixed the path, and built the skeleton of the package, I started command prompt and used the following commands

Re: [Rd] problem with vignettes when S4 classes in packages overlap

2012-09-19 Thread Roger Bivand
On Tue, 18 Sep 2012, Paul Gilbert wrote: ( A similar problem is also reported by Sebastian P. Luque with library(maptools) library(trip) in the vignette as below ). Thanks for bringing this up. This is caused by maptools avoiding: Depends: spatstat, which might create circularities. maptoo