-source("./R/util.R")
+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: Apache-2.0
-#' Arvados SubCollection Object
+#' R6 Class Representing a Subcollection
#'
-#' Update description
-#'
-#' @export Subcollection
+#' @description
+#' Subcollection class represents a folder inside Arvados collection.
+#' It is essentially a composite of arvadosFiles and other subcollections.
+
+#' @export
Subcollection <- R6::R6Class(
"Subcollection",
public = list(
+ #' @description
+ #' Initialize new enviroment.
+ #' @param name Name of the new enviroment.
+ #' @return A new `Subcollection` object.
initialize = function(name)
{
private$name <- name
},
+ #' @description
+ #' Returns name of the file.
getName = function() private$name,
-
+
+ #' @description
+ #' Returns Subcollection's path relative to the root.
getRelativePath = function()
{
relativePath <- c(private$name)
paste0(relativePath, collapse = "/")
},
+ #' @description
+ #' Adds ArvadosFile or Subcollection specified by content to the Subcollection.
+ #' @param content Content to be added.
add = function(content)
{
if("ArvadosFile" %in% class(content) ||
"Subcollection" %in% class(content))
{
+ if(!is.null(content$getCollection()))
+ stop("Content already belongs to a collection.")
+
if(content$getName() == "")
stop("Content has invalid name.")
"or Subcollection with same name."))
if(!is.null(private$collection))
- {
+ {
if(self$getRelativePath() != "")
contentPath <- paste0(self$getRelativePath(),
"/", content$getFileListing())
}
},
+ #' @description
+ #' Removes ArvadosFile or Subcollection specified by name from the Subcollection.
+ #' @param name Name of the file to be removed.
remove = function(name)
{
if(is.character(name))
}
},
+ #' @description
+ #' Returns Subcollections file content as character vector.
+ #' @param fullPath Checking if the path to file exists.
getFileListing = function(fullPath = TRUE)
{
content <- private$getContentAsCharVector(fullPath)
content[order(tolower(content))]
},
+ #' @description
+ #' Returns subcollections content size in bytes.
getSizeInBytes = function()
{
if(is.null(private$collection))
return(sum(fileSizes))
},
- move = function(newLocation)
+ #' @description
+ #' Moves Subcollection to a new location inside collection.
+ #' @param destination Path to move the file.
+ move = function(destination)
{
if(is.null(private$collection))
- stop("Subcollection doesn't belong to any collection")
+ stop("Subcollection doesn't belong to any collection.")
- newLocation <- trimFromEnd(newLocation, "/")
- nameAndPath <- splitToPathAndName(newLocation)
+ destination <- trimFromEnd(destination, "/")
+ nameAndPath <- splitToPathAndName(destination)
newParent <- private$collection$get(nameAndPath$path)
if(is.null(newParent))
- {
- stop("Unable to get destination subcollection")
- }
+ stop("Unable to get destination subcollection.")
childWithSameName <- newParent$get(nameAndPath$name)
private$collection$uuid)
private$dettachFromCurrentParent()
- private$attachToNewParent(newParent)
+ private$attachToNewParent(self, newParent)
+ private$parent <- newParent
private$name <- nameAndPath$name
- "Content moved successfully."
+ self
},
+ #' @description
+ #' Copies Subcollection to a new location inside collection.
+ #' @param destination Path to copy the file.
+ copy = function(destination)
+ {
+ if(is.null(private$collection))
+ stop("Subcollection doesn't belong to any collection.")
+
+ destination <- trimFromEnd(destination, "/")
+ nameAndPath <- splitToPathAndName(destination)
+
+ newParent <- private$collection$get(nameAndPath$path)
+
+ if(is.null(newParent) || !("Subcollection" %in% class(newParent)))
+ stop("Unable to get destination subcollection.")
+
+ childWithSameName <- newParent$get(nameAndPath$name)
+
+ if(!is.null(childWithSameName))
+ stop("Destination already contains content with same name.")
+
+ REST <- private$collection$getRESTService()
+ REST$copy(self$getRelativePath(),
+ paste0(newParent$getRelativePath(), "/", nameAndPath$name),
+ private$collection$uuid)
+
+ newContent <- self$duplicate(nameAndPath$name)
+ newContent$setCollection(self$getCollection(), setRecursively = TRUE)
+ newContent$setParent(newParent)
+ private$attachToNewParent(newContent, newParent)
+
+ newContent
+ },
+
+ #' @description
+ #' Duplicate Subcollection and gives it a new name.
+ #' @param newName New name for duplicated file.
+ duplicate = function(newName = NULL)
+ {
+ name <- if(!is.null(newName)) newName else private$name
+ root <- Subcollection$new(name)
+ for(child in private$children)
+ root$add(child$duplicate())
+
+ root
+ },
+
+ #' @description
+ #' If name is valid, returns ArvadosFile or Subcollection specified by relativePath, else returns NULL.
+ #' @param name Name of the file.
get = function(name)
{
for(child in private$children)
return(NULL)
},
+ #' @description
+ #' Returns files in Subcollection.
getFirst = function()
{
if(length(private$children) == 0)
- return(NULL)
+ return(NULL)
private$children[[1]]
},
+ #' @description
+ #' Sets Collection by its UUID.
setCollection = function(collection, setRecursively = TRUE)
{
private$collection = collection
}
},
+ #' @description
+ #' Returns Collection of Subcollection.
getCollection = function() private$collection,
+ #' @description
+ #' Returns Collection UUID.
getParent = function() private$parent,
+ #' @description
+ #' Sets new Collection.
setParent = function(newParent) private$parent <- newParent
),
}
},
- attachToNewParent = function(newParent)
+ attachToNewParent = function(content, newParent)
{
- #Note: We temporary set parents collection to NULL. This will ensure that
- # add method doesn't post file on REST.
+ # We temporary set parents collection to NULL. This will ensure that
+ # add method doesn't post this subcollection to REST.
+ # We also need to set content's collection to NULL because
+ # add method throws exception if we try to add content that already
+ # belongs to a collection.
parentsCollection <- newParent$getCollection()
+ content$setCollection(NULL, setRecursively = FALSE)
newParent$setCollection(NULL, setRecursively = FALSE)
-
- newParent$add(self)
-
+ newParent$add(content)
+ content$setCollection(parentsCollection, setRecursively = FALSE)
newParent$setCollection(parentsCollection, setRecursively = FALSE)
-
- private$parent <- newParent
},
dettachFromCurrentParent = function()
{
- #Note: We temporary set parents collection to NULL. This will ensure that
- # remove method doesn't remove this subcollection from REST.
+ # We temporary set parents collection to NULL. This will ensure that
+ # remove method doesn't remove this subcollection from REST.
parent <- private$parent
parentsCollection <- parent$getCollection()
parent$setCollection(NULL, setRecursively = FALSE)
-
parent$remove(private$name)
-
parent$setCollection(parentsCollection, setRecursively = FALSE)
},
content
}
),
-
+
cloneable = FALSE
)
-#' @export print.Subcollection
-print.Subcollection = function(subCollection)
+#' print.Subcollection
+#'
+#' Custom print function for Subcollection class
+#'
+#' @param x Instance of Subcollection class
+#' @param ... Optional arguments.
+#' @export
+print.Subcollection = function(x, ...)
{
collection <- NULL
- relativePath <- subCollection$getRelativePath()
+ relativePath <- x$getRelativePath()
- if(!is.null(subCollection$getCollection()))
+ if(!is.null(x$getCollection()))
{
- collection <- subCollection$getCollection()$uuid
+ collection <- x$getCollection()$uuid
- if(!subCollection$getName() == "")
+ if(!x$getName() == "")
relativePath <- paste0("/", relativePath)
}
cat(paste0("Type: ", "\"", "Arvados Subcollection", "\""), sep = "\n")
- cat(paste0("Name: ", "\"", subCollection$getName(), "\""), sep = "\n")
+ cat(paste0("Name: ", "\"", x$getName(), "\""), sep = "\n")
cat(paste0("Relative path: ", "\"", relativePath, "\""), sep = "\n")
cat(paste0("Collection: ", "\"", collection, "\""), sep = "\n")
}
projects / arvados.git / blobdiff