setMethod("[",
signature(x = "h5matrix", i = "ANY", j = "ANY"),
function(x, i, j, ..., drop = TRUE){
idx <- vector("list", 2)
if(!missing(i)){
if(is.character(i)){
i <- match(i, rownames(x))
}
idx[[1]] <- i
}else{
i <- NULL
}
if(!missing(j)){
if(is.character(j)){
j <- match(j, colnames(x))
}
idx[[2]] <- j
}else{
j <- NULL
}
ret <- h5read(x@file, x@location, index = idx)
if(is.null(i)){
rownames(ret) <- dimnames(x)[[1]]
}else{
rownames(ret) <- dimnames(x)[[1]][idx[[1]]]
}
if(is.null(j)){
colnames(ret) <- dimnames(x)[[2]]
}else{
colnames(ret) <- dimnames(x)[[2]][idx[[2]]]
}
ret
})
setMethod("[<-",
signature(x = "h5matrix", i = "ANY", j = "ANY"),
function(x, i, j, ..., value){
idx <- vector("list", 2)
if(!missing(i)){
idx[[1]] <- i
}else{
i <- NULL
}
if(!missing(j)){
idx[[2]] <- j
}else{
j <- NULL
}
if(is.null(dim(value))){ #Only one value was specified
vdim <- dim(x)
vdim[!sapply(idx, is.null)] <- sapply(idx[!sapply(idx, is.null)], length)
vsize <- vdim[[1]] * vdim[[2]]
if(vsize > 1e6){
message(paste(
"Single value assignment used on a large slice (",
vsize,
" elements), this might be memory intensive and take a long time.", sep = ""))
}
value <- array(value, vdim)
}
h5write(value, file = x@file, name = x@location, index = idx)
return(x)
})
setMethod("show","h5matrix",function(object){
lapply(list(
paste("HDF5-backed Matrix\nType:", typeof(object)), "\n",
paste("Dimensions:", paste(dim(object), collapse=", ")), "\n",
paste("File:", getFileName(object)), "\n"
), cat)
cat("Head of Data:\n")
print(head(object))
})
setMethod("head","h5matrix",function(x){
nrow = dim(x)[[1]]
ncol = dim(x)[[2]]
if(nrow > 6){
rows <- 1:6
}else{
rows <- seq(nrow)
}
if(ncol > 6){
cols <- 1:6
}else{
cols <- seq(ncol)
}
x[rows,cols]
})
setMethod("tail","h5matrix",function(x){
nrow = dim(x)[[1]]
ncol = dim(x)[[2]]
if(nrow > 6){
rows <- seq(nrow - 6, nrow)
}else{
rows <- seq(nrow)
}
if(ncol > 6){
cols <- seq(ncol - 6, ncol)
}else{
cols <- seq(ncol)
}
x[rows,cols]
})
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.