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### Define Methods that can be inherited for all subclasses
## This replaces many "d..Matrix" -> "dgeMatrix" ones
## >> but << needs all sub(sub(sub)) classes of "ddenseMatrix" listed
## ----- in ../src/Mutils.c
setAs("ddenseMatrix", "dgeMatrix", ..2dge)
setAs("ddenseMatrix", "matrix",
function(from) as(..2dge(from), "matrix"))
## d(ouble) to l(ogical):
setAs("dgeMatrix", "lgeMatrix", function(from) d2l_Matrix(from, "dgeMatrix"))
setAs("dsyMatrix", "lsyMatrix", function(from) d2l_Matrix(from, "dsyMatrix"))
setAs("dspMatrix", "lspMatrix", function(from) d2l_Matrix(from, "dspMatrix"))
setAs("dtrMatrix", "ltrMatrix", function(from) d2l_Matrix(from, "dtrMatrix"))
setAs("dtpMatrix", "ltpMatrix", function(from) d2l_Matrix(from, "dtpMatrix"))
if(FALSE) ## FIXME, this fails for ("dtpMatrix" -> "CsparseMatrix") where .dense2C() works
setAs("ddenseMatrix", "CsparseMatrix",
function(from) {
if (class(from) != "dgeMatrix") # don't lose symmetry/triangularity/...
as_Csparse(from)
else .Call(dense_to_Csparse, from)
})
## special case
setAs("dgeMatrix", "dgCMatrix",
function(from) .Call(dense_to_Csparse, from))
setMethod("as.numeric", "ddenseMatrix", function(x, ...) ..2dge(x)@x)
## -- see also ./Matrix.R e.g., for a show() method
## These methods are the 'fallback' methods for all dense numeric
## matrices in that they simply coerce the ddenseMatrix to a
## dgeMatrix. Methods for special forms override these.
setMethod("norm", signature(x = "ddenseMatrix", type = "missing"),
function(x, type, ...) norm(..2dge(x)))
setMethod("norm", signature(x = "ddenseMatrix", type = "character"),
function(x, type, ...) norm(..2dge(x), type))
setMethod("rcond", signature(x = "ddenseMatrix", norm = "missing"),
function(x, norm, ...) rcond(..2dge(x), ...))
setMethod("rcond", signature(x = "ddenseMatrix", norm = "character"),
function(x, norm, ...) rcond(..2dge(x), norm, ...))
## Not really useful; now require *identical* class for result:
## setMethod("t", signature(x = "ddenseMatrix"),
## function(x) callGeneric(..2dge(x)))
## "diag" --> specific methods for dge, dtr,dtp, dsy,dsp
setMethod("solve", signature(a = "ddenseMatrix", b = "missing"),
function(a, b, ...) solve(..2dge(a)))
for(.b in c("Matrix","ANY")) ## << against ambiguity notes
setMethod("solve", signature(a = "ddenseMatrix", b = .b),
function(a, b, ...) solve(..2dge(a), b))
for(.b in c("matrix","numeric")) ## << against ambiguity notes
setMethod("solve", signature(a = "ddenseMatrix", b = .b),
function(a, b, ...) solve(..2dge(a), Matrix(b)))
rm(.b)
setMethod("lu", signature(x = "ddenseMatrix"),
function(x, ...)
.set.factors(x, "LU", lu(..2dge(x), ...)))
setMethod("chol", signature(x = "ddenseMatrix"), cholMat)
setMethod("determinant", signature(x = "ddenseMatrix", logarithm = "missing"),
function(x, logarithm, ...) determinant(..2dge(x)))
setMethod("determinant", signature(x = "ddenseMatrix", logarithm = "logical"),
function(x, logarithm, ...)
determinant(..2dge(x), logarithm))
## now done for "dMatrix":
## setMethod("expm", signature(x = "ddenseMatrix"),
## function(x) callGeneric(..2dge(x)))
.trilDense <- function(x, k = 0, ...) {
k <- as.integer(k[1])
d <- dim(x)
stopifnot(-d[1] <= k, k <= d[1]) # had k <= 0
## returns "lower triangular" if k <= 0 && sqr
.Call(dense_band, x, -d[1], k)
}
## NB: have extra tril(), triu() methods for symmetric ["dsy" and "dsp"] and
## for triangular ["dtr" and "dtp"]
setMethod("tril", "denseMatrix", .trilDense)
setMethod("tril", "matrix", .trilDense)
.triuDense <- function(x, k = 0, ...) {
k <- as.integer(k[1])
d <- dim(x)
stopifnot(-d[1] <= k, k <= d[1]) # had k >= 0
## returns "upper triangular" if k >= 0
.Call(dense_band, x, k, d[2])
}
setMethod("triu", "denseMatrix", .triuDense)
setMethod("triu", "matrix", .triuDense)
.bandDense <- function(x, k1, k2, ...) {
k1 <- as.integer(k1[1])
k2 <- as.integer(k2[1])
dd <- dim(x)
sqr <- dd[1] == dd[2]
stopifnot(-dd[1] <= k1, k1 <= k2, k2 <= dd[2])
r <- .Call(dense_band, x, k1, k2)
if (sqr && k1 < 0 && k1 == -k2 && isSymmetric(x)) ## symmetric
forceSymmetric(r)
else
r
}
setMethod("band", "denseMatrix", .bandDense)
setMethod("band", "matrix", .bandDense)
setMethod("symmpart", signature(x = "ddenseMatrix"),
function(x) .Call(ddense_symmpart, x))
setMethod("skewpart", signature(x = "ddenseMatrix"),
function(x) .Call(ddense_skewpart, x))
setMethod("is.finite", signature(x = "dgeMatrix"),
function(x) {
if(all(ifin <- is.finite(x@x)))
allTrueMat(x)
else if(any(ifin)) {
r <- as(x, "lMatrix") #-> logical x-slot
r@x <- ifin
as(r, "nMatrix")
}
else is.na_nsp(x)
})
## TODO? -- rather methods for specific subclasses of ddenseMatrix
setMethod("is.finite", signature(x = "ddenseMatrix"),
function(x) {
if(all(ifin <- is.finite(x@x))) return(allTrueMat(x))
## *NOT* dge, i.e., either triangular or symmetric
## (possibly packed): has finite 0-triangle
cdx <- getClassDef(class(x))
r <- new(if(extends(cdx,"symmetricMatrix"))"nsyMatrix" else "ngeMatrix")
r@Dim <- (d <- x@Dim)
r@Dimnames <- x@Dimnames
isPacked <- (le <- prod(d)) > length(ifin)
r@x <- rep.int(TRUE, le)
iTr <- indTri(d[1], upper= x@uplo == "U", diag= TRUE)
if(isPacked) { ## x@x is "usable"
r@x[iTr] <- ifin
} else {
r@x[iTr] <- ifin[iTr]
}
r
})
setMethod("is.infinite", signature(x = "ddenseMatrix"),
function(x) {
if(any((isInf <- is.infinite(x@x)))) {
r <- as(x, "lMatrix")#-> logical x-slot; 0 |--> FALSE
r@x <- isInf
as(r, "nMatrix")# often sparse .. better way?
}
else is.na_nsp(x)
})
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