similar to: recursion problem using do.call(rbind, list(..,<S4>,..))

Hi all, this question has already been posted on stackoverflow, however without success, see also http://stackoverflow.com/questions/27886535/proper-way-to-use-cbind-rbind-with-s4-classes-in-package. I have written a package using S4 classes and would like to use the functions rbind, cbind with these defined classes. Since it does not seem to be possible to define rbind and cbind directly as S4

As some of you may have seen / heard in the past, it is not possible to make cbind() and rbind() into proper S4 generic functions, since their first formal argument is '...'. [ BTW: S3-methods for these of course only dispatch on the first argument which is also not really satisfactory in the context of many possible matrix classes.] For this reason, after quite some discussion on

>>>>> Michael Lawrence <lawrence.michael at gene.com> >>>>> on Sat, 24 Jan 2015 06:39:37 -0800 writes: > On Sat, Jan 24, 2015 at 12:58 AM, Mario Annau > <mario.annau at gmail.com> wrote: >> Hi all, this question has already been posted on >> stackoverflow, however without success, see also >>

>>>>> Mario Annau <mario.annau at gmail.com> >>>>> on Wed, 11 Feb 2015 20:18:53 +0100 writes: > sorry - I just got irritated by my different R-versions. > The behaviour I described in the previous mail was discovered using R > 3.1.2 without bind_activation(TRUE). In r67773 all calls are delegated > to r/cbind.matrix and not

>>>>> Michael Lawrence <lawrence.michael at gene.com> >>>>> on Sun, 1 Feb 2015 19:23:06 -0800 writes: > I've implemented the proposed changes in > R-devel. Minimally tested, so please try it. It should > delegate to r/cbind2 when there is at least one S4 > argument and S3 dispatch fails (so you'll probably want to

Are you able to create a reproducible example, somehow? Thanks, Michael On Mon, Feb 9, 2015 at 2:28 PM, Mario Annau <mario.annau at gmail.com> wrote: > Hi Michael, > I've tested your change in r67699 (using r67773) and the function now > correctly dispatches to r/cbind2 within the R-session without > bind_activation(TRUE). However, running unit tests using R CMD check I

I've implemented the proposed changes in R-devel. Minimally tested, so please try it. It should delegate to r/cbind2 when there is at least one S4 argument and S3 dispatch fails (so you'll probably want to add an S3 method for your class to introduce a conflict, otherwise it will dispatch to cbind.data.frame if one of the args is a data.frame). There may no longer be a need for cBind() and

On Sat, Jan 24, 2015 at 12:58 AM, Mario Annau <mario.annau at gmail.com> wrote: > Hi all, > this question has already been posted on stackoverflow, however without > success, see also > http://stackoverflow.com/questions/27886535/proper-way-to-use-cbind-rbind-with-s4-classes-in-package. > > I have written a package using S4 classes and would like to use the > functions

Dear R-developers, Using .Call I pass a S4 class with e.g. the following class definition: setClass("mmatrix",representation( data="matrix") ) On the "C side" i do mat = GET_SLOT(vs,install("data")); and then: printf("%f\n",NUMERIC_POINTER(mat)[1]); The above print statement produces the correct output if xx<- new("mmatrix")

Hi Michael, I've tested your change in r67699 (using r67773) and the function now correctly dispatches to r/cbind2 within the R-session without bind_activation(TRUE). However, running unit tests using R CMD check I figured out that the same function call delegates to r/cbind.matrix (function uses S4 class as first- and matrix as second argument). Is this a bug and/or how can I get function

sorry - I just got irritated by my different R-versions. The behaviour I described in the previous mail was discovered using R 3.1.2 without bind_activation(TRUE). In r67773 all calls are delegated to r/cbind.matrix and not r/cbind2. As a workaround I have now implemented an S3 method for my S4 class which correctly dispatches for both versions (3.1.2 and r67699+) - see also the commit for the h5

I have been asked (by Roger; thank you for the good question, and I hope it's fine to answer to the public) : > with Pi a sparse matrix and x,y, and ones > compatible n-vectors ? when I do: >> c(t(x) %*% Pi %*% ones, t(ones) %*% Pi %*% y ) > [[1]] 1 x 1 Matrix of class "dgeMatrix" > [,1] [1,] > 0.1338527 >

>From a small thread over at the 'R-package-devel' mailing list, this now goes to the R-devel mailing list (CC'ing the original R-package-devel very exceptionally). Note that I, as maintainer("Matrix") had introduced rBind() and cBind() to be used for Matrix package matrices as substitute for rbind() and cbind() because back then it was not reasonably possible to

In a newly downloaded version (today) of R-2-4-0alpha, with all packages from CRAN also installed today, I get: > library(Matrix) Erro en loadNamespace(package, c(which.lib.loc, lib.loc), keep.source = keep.source) : in 'Matrix' methods specified for export, but none defined: BIC, anova, coef, confint, deviance, fitted, fixef, formula, head, lmer, logLik, mcmcsamp, plot,

>>>>> John Chambers <jmc at r-project.org> >>>>> on Sat, 10 Sep 2016 09:16:38 -0700 writes: > (Brief reply, I'm traveling but as per below, this is on my radar right now so wanted to comment.) > Two points regarding "dotsMethods". > 1. To clarify the limitation. It's not that all the arguments have to be of the same

Dear All, I´m using the following code: all1<-gg2[[1]][[1]]; for(i in 1:48){ all1 <- rbind(all1,gg2[[i]][[1]]) } to create a new matrix that contains all the matrices in a list called gg2. gg2 is a list that looks like >> gg2 [[1]] [[1]][[1]] <matrix one> [[2]] [[2]][[1]] <matrix two> . . . [[48]] [[48]][[1]] <matrix 48> Is there a faster way to do the rbind?

I have two questions I would appreciate assistance with: (1) I believe "by" is the command used to split a file. In the following example, "mydat" is the dataframe , "group" the variable I want to split the analysis by & "WK1FREQ,WK2FREQ" the variables attach(mydat) by (GROUP) cor.test (WK1FREQ,WK2FREQ) I have also tried: (by (GROUP) cor.test

Hi, I have sparse (tridiagonal) matrices, and I use the Matrix package for handling them. For certain computations, I need to either set the first row to zero, or double the last row. I find that neither operation preserves sparsity, eg > m <- Diagonal(5) > m 5 x 5 diagonal matrix of class "ddiMatrix" [,1] [,2] [,3] [,4] [,5] [1,] 1 . . . . [2,] . 1

The methods package ?cbind2 includes the instruction to use via methods:::bind_activation(TRUE). This changes the default definition of cbind globally, disrupting proper evaluation in packages not using cbind2. Is cbind2 a hold-over from a time when ... could not be used for dispatch? What is a safe way for a package to use cbind2? This came up in the context of complex package dependencies

(Brief reply, I'm traveling but as per below, this is on my radar right now so wanted to comment.) Two points regarding "dotsMethods". 1. To clarify the limitation. It's not that all the arguments have to be of the same class, but there must be one class that they belong to or subclass. (So, as in the example in the documentation, the method could be defined for a class