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### =========================================================================
### SparseArray subassignment
### -------------------------------------------------------------------------
###
adjust_left_type <- function(x, value)
{
stopifnot(is(x, "SVT_SparseArray") || is(x, "NaArray"))
check_svt_version(x)
if (!is.vector(value))
stop(wmsg("the supplied value must be a vector for this form ",
"of subassignment to an SVT_SparseArray object"))
## Change 'x' type if necessary.
new_type <- type(c(vector(type(x)), vector(type(value))))
type(x) <- new_type
x
}
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### subassign_Array_by_Lindex() and subassign_Array_by_Mindex() methods for
### SVT_SparseArray
###
### Adjust the type of 'value' and recycle it to the length of the
### subassignment M/L-index.
.normalize_right_value <- function(value, left_type, index_len)
{
if (length(value) == 0L)
stop(wmsg("replacement has length zero"))
storage.mode(value) <- left_type
S4Vectors:::recycleVector(value, index_len)
}
.subassign_SVT_by_Lindex <- function(x, Lindex, value, old=FALSE)
{
x <- adjust_left_type(x, value)
stopifnot(is.vector(Lindex), is.numeric(Lindex))
## No-op (except for type adjustment above) if selection is empty.
if (length(Lindex) == 0L)
return(x)
value <- .normalize_right_value(value, type(x), length(Lindex))
if (old) {
new_SVT <- SparseArray.Call("C_subassign_SVT_by_Lindex_OLD",
x@dim, x@type, x@SVT, Lindex, value)
} else {
new_SVT <- SparseArray.Call("C_subassign_SVT_by_Lindex",
x@dim, x@type, x@SVT, FALSE, Lindex, value)
}
BiocGenerics:::replaceSlots(x, SVT=new_SVT, check=FALSE)
}
setMethod("subassign_Array_by_Lindex", "SVT_SparseArray",
function(x, Lindex, value) .subassign_SVT_by_Lindex(x, Lindex, value)
)
.subassign_SVT_by_Mindex <- function(x, Mindex, value)
{
x <- adjust_left_type(x, value)
stopifnot(is.matrix(Mindex), is.numeric(Mindex))
## No-op (except for type adjustment above) if selection is empty.
if (nrow(Mindex) == 0L)
return(x)
value <- .normalize_right_value(value, type(x), nrow(Mindex))
if (storage.mode(Mindex) != "integer")
storage.mode(Mindex) <- "integer"
new_SVT <- SparseArray.Call("C_subassign_SVT_by_Mindex_OLD",
x@dim, x@type, x@SVT, Mindex, value)
BiocGenerics:::replaceSlots(x, SVT=new_SVT, check=FALSE)
}
setMethod("subassign_Array_by_Mindex", "SVT_SparseArray",
.subassign_SVT_by_Mindex
)
### - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
### subassign_Array_by_Nindex() method for SVT_SparseArray
###
### Like the 'index' argument in 'extract_array()', the 'Nindex' argument in
### all the functions below must be an N-index, that is, a list with one list
### element per dimension in 'x'. Each list element must be an integer vector
### of valid indices along the corresponding dimension in 'x', or a NULL.
.subassign_SVT_with_short_Rvector <- function(x, Nindex, Rvector)
{
stopifnot(is.vector(Rvector))
SparseArray.Call("C_subassign_SVT_with_short_Rvector",
x@dim, x@type, x@SVT, Nindex, Rvector)
}
.subassign_SVT_with_Rarray <- function(x, Nindex, Rarray)
{
stopifnot(is.array(Rarray))
SparseArray.Call("C_subassign_SVT_with_Rarray",
x@dim, x@type, x@SVT, Nindex, Rarray)
}
.subassign_SVT_with_SVT <- function(x, Nindex, v)
{
stopifnot(is(v, "SVT_SparseArray"))
check_svt_version(v)
SparseArray.Call("C_subassign_SVT_with_SVT",
x@dim, x@type, x@SVT, Nindex, v@dim, v@type, v@SVT)
}
.subassign_SVT_by_Nindex <- function(x, Nindex, value)
{
stopifnot(is(x, "SVT_SparseArray"), is.list(Nindex))
check_svt_version(x)
if (!is.vector(value) && !is.array(value) && !is(value, "SVT_SparseArray"))
stop(wmsg("the supplied value must be an ordinary vector or array, ",
"or an SVT_SparseArray object, for this subassignment"))
## Change 'x' type if necessary.
new_type <- type(c(vector(type(x)), vector(type(value))))
type(x) <- new_type
## No-op (except for type change above) if selection is empty.
selection_dim <- S4Arrays:::get_Nindex_lengths(Nindex, x@dim)
if (any(selection_dim == 0L))
return(x)
if (is.vector(value)) {
value_len <- length(value)
if (value_len == 0L)
stop(wmsg("replacement has length zero"))
selection_len <- prod(selection_dim)
if (value_len > selection_len)
stop(wmsg("the supplied value is longer than the selection"))
storage.mode(value) <- new_type
if (value_len <= selection_dim[[1L]] &&
selection_dim[[1L]] %% value_len == 0L)
{
## We want to support things like 'x[ , 1:2] <- 0'
## or 'x[1:12, ] <- c(0.6, 0, 2.5)' in the most efficient
## way so no recycling of 'value' at the R level.
new_SVT <- .subassign_SVT_with_short_Rvector(x, Nindex, value)
} else {
## Turn 'value' into an ordinary array of the same dimensions
## as the selection, with recycling if necessary.
a <- array(vector(typeof(value), 1L), dim=selection_dim)
a[] <- value
new_SVT <- .subassign_SVT_with_Rarray(x, Nindex, value)
}
} else {
if (!identical(selection_dim, unname(dim(value))))
stop(wmsg("the selection and supplied value must have ",
"the same dimensions"))
if (is.array(value)) {
storage.mode(value) <- new_type
new_SVT <- .subassign_SVT_with_Rarray(x, Nindex, value)
} else {
type(value) <- new_type
new_SVT <- .subassign_SVT_with_SVT(x, Nindex, value)
}
}
BiocGenerics:::replaceSlots(x, SVT=new_SVT, check=FALSE)
}
setMethod("subassign_Array_by_Nindex", "SVT_SparseArray",
.subassign_SVT_by_Nindex
)
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