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## Now in ./Tsparse.R
## setAs("dgTMatrix", "dgCMatrix",
## function(from) .Call(Tsparse_to_Csparse, from, FALSE)
## )
setAs("dgTMatrix", "dgeMatrix",
function(from) .Call(dgTMatrix_to_dgeMatrix, from))
setAs("dgTMatrix", "matrix",
function(from) .Call(dgTMatrix_to_matrix, from))
setAs("dgeMatrix", "dgTMatrix",
function(from) as(as(from, "dgCMatrix"), "dgTMatrix"))
if(FALSE) ## special case, relatively ugly, needed ??
setAs("dgTMatrix", "dsCMatrix",
function(from) {
if (!isSymmetric(from))
stop("cannot coerce non-symmetric \"dgTMatrix\" to \"dsCMatrix\" class")
upper <- from@i <= from@j
uC <- as(new("dgTMatrix", Dim = from@Dim, Dimnames = from@Dimnames,
i = from@i[upper],
j = from@j[upper], x = from@x[upper]), "dgCMatrix")
new("dsCMatrix", Dim = uC@Dim, p = uC@p, i = uC@i, x = uC@x, uplo = "U")
})
## This is faster:
setAs("dgTMatrix", "dtCMatrix",
function(from) {
if(!(iTri <- isTriangular(from)))
stop("the matrix is not triangular")
## else
stopifnot(is.character(uplo <- attr(iTri, "kind")))
.Call(Tsparse_to_tCsparse, from, uplo, "N")
})
setAs("dgTMatrix", "dtTMatrix",
function(from) check.gT2tT(from, toClass = "dtTMatrix", do.n=FALSE))
setAs("dgTMatrix", "triangularMatrix",
function(from) check.gT2tT(from, toClass = "dtTMatrix", do.n=FALSE))
setAs("dgTMatrix", "dsTMatrix",
function(from) check.gT2sT(from, toClass = "dsTMatrix", do.n=FALSE))
setAs("dgTMatrix", "symmetricMatrix",
function(from) check.gT2sT(from, toClass = "dsTMatrix", do.n=FALSE))
mat2dgT <- function(from) {
x <- as.double(from)
nz <- isN0(x)
new("dgTMatrix", Dim = dim(from),
Dimnames = .M.DN(from),
i = row(from)[nz] - 1L,
j = col(from)[nz] - 1L,
x = x[nz])
}
setAs("matrix", "dgTMatrix", mat2dgT)
## "[" methods are now in ./Tsparse.R
## "[<-" methods { setReplaceMethod()s } too ...
## help/man page --> ../man/image-methods.Rd
##
setMethod("image", "dgTMatrix", ## *The* real one
function(x,
xlim = c(1, di[2]),
ylim = c(di[1], 1), aspect = "iso",
sub = sprintf("Dimensions: %d x %d", di[1], di[2]),
xlab = "Column", ylab = "Row", cuts = 15,
useRaster = FALSE,
useAbs = NULL, colorkey = !useAbs, col.regions = NULL,
lwd = NULL, border.col = NULL, ...)
{
## 'at' can remain missing and be passed to levelplot
di <- x@Dim
xx <- x@x
if(length(xx) == 0 && length(x) > 0) { # workaround having "empty" matrix
x@x <- 0
x@i <- x@j <- 0L
}
if(missing(useAbs)) { ## use abs() when all values are non-neg
useAbs <- if(length(xx)) min(xx, na.rm=TRUE) >= 0 else TRUE
} else if(useAbs)
xx <- abs(xx)
## rx <- range(xx, finite=TRUE)
## FIXME: make use of 'cuts' now
## and call levelplot() with 'at = ', making sure 0 is included and matching
## *exactly* - rather than approximately
if(is.null(col.regions))
col.regions <-
if(useAbs) {
grey(seq(from = 0.7, to = 0, length = 100))
} else { ## no abs(.), rx[1] < 0
rx <- range(xx, finite=TRUE)
nn <- 100
n0 <- min(nn, max(0, round((0 - rx[1])/(rx[2]-rx[1]) * nn)))
col.regions <-
c(colorRampPalette(c("blue3", "gray80"))(n0),
colorRampPalette(c("gray75","red3"))(nn - n0))
}
if(!is.null(lwd) && !(is.numeric(lwd) && all(lwd >= 0))) # allow lwd=0
stop("'lwd' must be NULL or non-negative numeric")
stopifnot(length(xlim) == 2, length(ylim) == 2)
## ylim: the rows count from top to bottom:
ylim <- sort(ylim, decreasing=TRUE)
if(all(xlim == round(xlim))) xlim <- xlim+ c(-.5, +.5)
if(all(ylim == round(ylim))) ylim <- ylim+ c(+.5, -.5) # decreasing!
levelplot(xx ~ (x@j + 1L) * (x@i + 1L), # no 'data'
sub = sub, xlab = xlab, ylab = ylab,
xlim = xlim, ylim = ylim, aspect = aspect,
colorkey = colorkey, col.regions = col.regions, cuts = cuts,
par.settings = list(background = list(col = "transparent")),
##===
panel = if(useRaster) panel.levelplot.raster else
function(x, y, z, subscripts, at, ..., col.regions)
{ ## a trimmed down version of lattice::panel.levelplot
x <- as.numeric(x[subscripts])
y <- as.numeric(y[subscripts])
##
## FIXME: use level.colors() here and 'at' from above --
## ----- look at 'zcol' in panel.levelplot()
numcol <- length(at) - 1
num.r <- length(col.regions)
col.regions <-
if (num.r <= numcol)
rep_len(col.regions, numcol)
else col.regions[1+ ((1:numcol-1)*(num.r-1)) %/% (numcol-1)]
zcol <- rep.int(NA_integer_, length(z))
for (i in seq_along(col.regions))
zcol[!is.na(x) & !is.na(y) & !is.na(z) &
at[i] <= z & z < at[i+1]] <- i
zcol <- zcol[subscripts]
if (any(subscripts)) {
## the line-width used in grid.rect() inside
## levelplot()'s panel for the *border* of the
## rectangles: levelplot()panel has lwd= 0.01:
## Here: use "smart" default !
if(is.null(lwd)) {
wh <- grid::current.viewport()[c("width", "height")]
## wh : current viewport dimension in pixel
wh <- c(grid::convertWidth(wh$width, "inches",
valueOnly=TRUE),
grid::convertHeight(wh$height, "inches",
valueOnly=TRUE)) *
par("cra") / par("cin")
pSize <- wh/di ## size of one matrix-entry in pixels
pA <- prod(pSize) # the "area"
p1 <- min(pSize)
lwd <- ## crude for now
if(p1 < 2 || pA < 6) 0.01 # effectively 0
else if(p1 >= 4) 1
else if(p1 > 3) 0.5 else 0.2
## browser()
Matrix.msg("rectangle size ",
paste(round(pSize,1), collapse=" x "),
" [pixels]; --> lwd :", formatC(lwd))
} else stopifnot(is.numeric(lwd), all(lwd >= 0)) # allow 0
if(is.null(border.col) && lwd < .01) # no border
border.col <- NA
grid.rect(x = x, y = y, width = 1, height = 1,
default.units = "native",
## FIXME?: allow 'gp' to be passed via '...' !!
gp = gpar(fill = col.regions[zcol],
lwd = lwd, col = border.col))
}
}, ...)
})
## Uses the triplet convention of *adding* entries with same (i,j):
setMethod("+", signature(e1 = "dgTMatrix", e2 = "dgTMatrix"),
function(e1, e2) {
dimCheck(e1, e2)
new("dgTMatrix", i = c(e1@i, e2@i), j = c(e1@j, e2@j),
x = c(e1@x, e2@x), Dim = e1@Dim, Dimnames = e1@Dimnames)
})
## setMethod("writeHB", signature(obj = "dgTMatrix"),
## function(obj, file, ...) callGeneric(as(obj, "CsparseMatrix"), file, ...))
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