Re: [Rd] Mac libgfortran.2.dylib

2013-01-14 Thread Simon Urbanek
Daniel, CRAN only post-processes libraries (dylib/jnilib) and dynamic objects (.so) in packages. However, you seem to have executables (.exe -- really? this not Windows :P) inside your package and those do not get processed. I can add .exe to the list of processed files - that should help in yo

[Rd] Mac libgfortran.2.dylib

2013-01-14 Thread Daniel Fuka
Howdy, I was under the impression that CRAN took care of automagically making sure the CRAN compiled fortran was linked to the fortran libs distributed in R binaries. Today was the first day I was on a mac without Xcode and found my fortran based package has issues, which appears only on the mac.

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Simon Urbanek
On Jan 14, 2013, at 7:55 PM, Oliver Bandel wrote: > > > Am 15.01.2013 um 01:11 schrieb Brian Lee Yung Rowe : > >> >> On Jan 14, 2013, at 6:32 PM, oliver wrote: >> >>> BTW: I looked up the string "wish list" in some of the mentioned docs >>> (mentioned in this thread) >>> but did not fou

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Brian Lee Yung Rowe
Maybe the master Bugzilla is what you are looking for instead: https://bugs.r-project.org/bugzilla3/buglist.cgi?quicksearch=wishlist On Jan 14, 2013, at 7:55 PM, Oliver Bandel wrote: > > > Am 15.01.2013 um 01:11 schrieb Brian Lee Yung Rowe : > >> >> On Jan 14, 2013, at 6:32 PM, oliver w

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Oliver Bandel
Am 15.01.2013 um 01:11 schrieb Brian Lee Yung Rowe : > > On Jan 14, 2013, at 6:32 PM, oliver wrote: > >> BTW: I looked up the string "wish list" in some of the mentioned docs >> (mentioned in this thread) >> but did not found it. >> Can you please point me to it directly? >> Goog

Re: [Rd] Issue with getParserData in R3.0.0

2013-01-14 Thread Brian Lee Yung Rowe
Thanks that seems to work. It looks like other packages explicitly change this to FALSE, so I have to set this to TRUE for each function call. Is there any particular policy for packages that update this option? Should I restore the original value upon function exit? Warm Regards, Brian On Ja

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Brian Lee Yung Rowe
On Jan 14, 2013, at 6:32 PM, oliver wrote: > BTW: I looked up the string "wish list" in some of the mentioned docs > (mentioned in this thread) > but did not found it. > Can you please point me to it directly? > Googling for "R wish list" brings me links to a producer of toys. > >

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread oliver
On Mon, Jan 14, 2013 at 03:50:04PM -0500, Simon Urbanek wrote: > On Jan 14, 2013, at 3:29 PM, oliver wrote: > > > Hello, > > > > I saw Binaries, stable release-souzrces and daily snapshots of R, but > > not something like a repository, visible for the public (like on githb for > > example). > >

Re: [Rd] Regarding the recent changes to @<-

2013-01-14 Thread John Chambers
My guess is that the distinction here is between `@<-` and `slot<-`. The first, but not the second, has been converted to a primitive (the second has an optional argument, making it more of a nuisance to implement.) Previously they did the same check; after the revision of `@<-` they did not; a

Re: [Rd] Patch for setwd() to show path in error message

2013-01-14 Thread Hervé Pagès
Hi, Of course we all want better error messages. What's the point of trying to make a case against that? Even the cd Unix command (a shell built-in in that case) -- and Unix commands are known for their lack of verbosity and minimalist error messages -- manages to report something informative:

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Simon Urbanek
On Jan 14, 2013, at 3:29 PM, oliver wrote: > Hello, > > I saw Binaries, stable release-souzrces and daily snapshots of R, but > not something like a repository, visible for the public (like on githb for > example). > Ehm, I would expect a bit better from someone who is on the list for several

Re: [Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread Joshua Ulrich
On Mon, Jan 14, 2013 at 2:29 PM, oliver wrote: > Hello, > > I saw Binaries, stable release-souzrces and daily snapshots of R, but > not something like a repository, visible for the public (like on githb for > example). > Go to http://www.r-project.org and click the "Developer Page" link in the le

[Rd] Who does develop the R core and libs, and how / where is it hosted?

2013-01-14 Thread oliver
Hello, I saw Binaries, stable release-souzrces and daily snapshots of R, but not something like a repository, visible for the public (like on githb for example). How is the R development handled, what repositories / source code versioning tools are used, who are the developers? And is there so

Re: [Rd] Regarding the recent changes to @<-

2013-01-14 Thread François Michonneau
Hello Martin, Below is a reduced version of our code that doesn't produce an error in r61643 but does in 2.15.2. Thanks, -- François setClass("phylo4", representation(edge="matrix", annote="list"), prototype = list(edge = matrix(nrow = 0, ncol = 2

Re: [Rd] Regarding the recent changes to @<-

2013-01-14 Thread Martin Maechler
> François Michonneau > on Sun, 13 Jan 2013 18:34:36 -0500 writes: > Hello all, > In one of the packages (phylobase) I'm contributing to, we define a class > as follows: > setClass("phylo4", > representation(edge = "matrix", > edge.length

[Rd] debug package calling C++ code using valgrind

2013-01-14 Thread mullahmohammedomar
Hi, I am trying to debug a package which I helped to develop since we were notified by CRAN that our package randomly fails to run its examples. Hence, I reinstalled R with "with-valgrind-instrumentation=2" and installed our package with MAKEFLAGS="CFLAGS='-O0 -g3' CXXFLAGS='-O0 -g3'" R CMD INST

Re: [Rd] Regarding the recent changes to @<-

2013-01-14 Thread François Michonneau
Thanks John. Just to clarify further my previous message, the other slots were returning error messages when provided with objects of the incorrect class, but not the slot that was supposed to be a list. Cheers, -- François On Mon, Jan 14, 2013 at 12:54 PM, John Chambers wrote: > Thank

Re: [Rd] Regarding the recent changes to @<-

2013-01-14 Thread John Chambers
Thanks. No need for a complicated example actually: > C1 <- setClass("C1", slots = c(x = "numeric")) > c1 <- C1() > c1@x <- "Hello" > validObject(c1) Error in validObject(c1) : invalid class "C1" object: invalid object for slot "x" in class "C1": got class "character", should be or extend cla

Re: [Rd] Issue with getParserData in R3.0.0

2013-01-14 Thread Duncan Murdoch
On 13-01-13 8:43 PM, Brian Lee Yung Rowe wrote:> Hello, > > I am migrating my package lambda.r to R3.0.0 and am experiencing some issues with the getParserData function (which replaces the parser package). Basically the function works in the R shell but fails when either called from RUnit or fr

[Rd] Issue with getParserData in R3.0.0

2013-01-14 Thread Brian Lee Yung Rowe
Hello, I am migrating my package lambda.r to R3.0.0 and am experiencing some issues with the getParserData function (which replaces the parser package). Basically the function works in the R shell but fails when either called from RUnit or from R CMD check. I've narrowed it down to the functi