From sloiseau at limsi.fr  Wed Aug 26 09:37:34 2009
From: sloiseau at limsi.fr (sloiseau at limsi.fr)
Date: Wed, 26 Aug 2009 09:37:34 +0200 (CEST)
Subject: [Rd] Problem with standard generic methods in Matrix package
Message-ID: <37353.193.51.130.16.1251272254.squirrel@keo.limsi.fr>

I have posted this message on r-lang, but it is perhaps more appropriate
on r-devel:



---



Hello,



I'm puzzled by a problem with call to diag(), rowSums(), rownames() on
objects of class "dgtMatrix", created by sparseMatrix() or spMatrix().



I use Matrix 0.999375-30.



The weird thing is that I don't encounter any problem when I use this
functions on the R prompt, or source()-ing a script file; I encounter
problems when the code is in a package, installed with R CMD INSTALL, and
loaded with library().



I have tried to reduce the package to the bare minimum in order to
discover the problem, but it continue even when reduced up to a single

method, no dependency other than Matrix. The method is defined as:



---

getAdjacentAsSparseMatrix <- function() {

     adjacents <- sparseMatrix(i=1:10, j=1:10, x=1:10)

     print(class(adjacents));

     diagonal <- as.vector(diag(adjacents));

     if (any(diagonal != 0)) {

       diagonal[diagonal > 1] <- 1;

       diag(adjacents) <- diagonal;

      }

     return(adjacents);

}

---



And the Depends field in ./DESCRIPTION :



---

Depends: R (>= 2.5.0), Matrix

---



I have this outputs:



[1] "dgTMatrix"

Erreur dans y[1L + 0L:(m - 1L) * (n + 1L)] <- x :

     types (de S4 a double) incompatibles dans l'ajustement d'affectation de

type

> traceback()

3: diag(adjacents)

2: as.vector(diag(adjacents))

1: getAdjacentAsSparseMatrix(white3)



The same thing happens with the method rowSums(), colnames() and
rownames(). In brief, it looks as if the generic functions were called,

and not the overloaded ones. I can't figure out how to fix that, and will
be interested in any pointers.



Best,

Sylvain



[Rd] Problem with standard generic methods in Matrix package
sloiseau at limsi.fr