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Use BiocGenerics::transform() #215

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Merged
Bisaloo merged 1 commit into from
May 28, 2026
Merged

Use BiocGenerics::transform() #215

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1 change: 1 addition & 0 deletions NAMESPACE
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Original file line number Diff line number Diff line change
Expand Up @@ -117,6 +117,7 @@ importFrom(BiocGenerics,colnames)
importFrom(BiocGenerics,combine)
importFrom(BiocGenerics,rownames)
importFrom(BiocGenerics,table)
importFrom(BiocGenerics,transform)
importFrom(DBI,dbIsValid)
importFrom(DelayedArray,DelayedArray)
importFrom(EBImage,rotate)
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6 changes: 3 additions & 3 deletions R/trans.R
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Expand Up @@ -3,7 +3,7 @@
#' @title Transformations
#' @aliases transform scale rotate translation flip flop mirror sequence
#'
#' @param x,_data \code{SpatialData} element.
#' @param x \code{SpatialData} element.
#' @param i scalar integer or string; target coordinate space.
#' @param t transformation data; exceptions: for \code{mirror}, controls
#' whether to perform \bold{v}ertical or \bold{h}orizontal reflection;
Expand Down Expand Up @@ -48,13 +48,13 @@
#' y["shapes", c("rot", "wide", "left")]
NULL

#' @importFrom BiocGenerics transform
#' @export
#' @rdname trans
setMethod("transform", "SpatialDataElement", \(`_data`, i=1, ...) {
setMethod("transform", "SpatialDataElement", \(x, i=1, ...) {
stopifnot(
length(i) == 1, is.character(i) |
(is.numeric(i) && i == round(i)))
x <- `_data`
if (is.character(i)) {
i <- match.arg(i, CTname(x))
i <- match(i, CTname(x))
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6 changes: 3 additions & 3 deletions man/trans.Rd
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