-source("./R/util.R")
+# Copyright (C) The Arvados Authors. All rights reserved.
+#
+# SPDX-License-Identifier: Apache-2.0
#' ArvadosFile
-#'
+#'
#' ArvadosFile class represents a file inside Arvados collection.
-#'
+#'
#' @section Usage:
#' \preformatted{file = ArvadosFile$new(name)}
#'
#' \describe{
#' \item{name}{Name of the file.}
#' }
-#'
+#'
#' @section Methods:
#' \describe{
#' \item{getName()}{Returns name of the file.}
#' \item{flush()}{Write connections content to a file (override current content of the file).}
#' \item{remove(name)}{Removes ArvadosFile or Subcollection specified by name from the subcollection.}
#' \item{getSizeInBytes()}{Returns file size in bytes.}
-#' \item{move(newLocation)}{Moves file to a new location inside collection.}
+#' \item{move(destination)}{Moves file to a new location inside collection.}
+#' \item{copy(destination)}{Copies file to a new location inside collection.}
#' }
#'
#' @name ArvadosFile
#' myFile$write("This is new file content")
#' fileContent <- myFile$read()
#' fileContent <- myFile$read("text")
-#' fileContent <- myFile$read("raw", offset = 8, length = 4)
+#' fileContent <- myFile$read("raw", offset = 8, length = 4)
#'
#' #Write a table:
#' arvConnection <- myFile$connection("w")
#' mytable <- read.table(arvConnection)
#'
#' myFile$move("newFolder/myFile")
+#' myFile$copy("newFolder/myFile")
#' }
NULL
fileSize <- REST$getResourceSize(self$getRelativePath(),
private$collection$uuid)
-
fileSize
},
getCollection = function() private$collection,
- setCollection = function(collection)
+ setCollection = function(collection, setRecursively = TRUE)
{
private$collection <- collection
},
connection = function(rw)
{
- if (rw == "r" || rw == "rb")
+ if (rw == "r" || rw == "rb")
{
REST <- private$collection$getRESTService()
- return(REST$getConnection(private$collection$uuid,
- self$getRelativePath(),
+ return(REST$getConnection(self$getRelativePath(),
+ private$collection$uuid,
rw))
}
- else if (rw == "w")
+ else if (rw == "w")
{
private$buffer <- textConnection(NULL, "w")
}
},
- flush = function()
+ flush = function()
{
v <- textConnectionValue(private$buffer)
close(private$buffer)
writeResult
},
- move = function(newLocation)
+ move = function(destination)
{
if(is.null(private$collection))
- stop("ArvadosFile doesn't belong to any collection")
+ stop("ArvadosFile doesn't belong to any collection.")
- newLocation <- trimFromEnd(newLocation, "/")
- nameAndPath <- splitToPathAndName(newLocation)
+ destination <- trimFromEnd(destination, "/")
+ nameAndPath <- splitToPathAndName(destination)
newParent <- private$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
+ },
+
+ copy = function(destination)
+ {
+ if(is.null(private$collection))
+ stop("ArvadosFile doesn't belong to any collection.")
+
+ destination <- trimFromEnd(destination, "/")
+ nameAndPath <- splitToPathAndName(destination)
+
+ newParent <- private$collection$get(nameAndPath$path)
+
+ if(is.null(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)
+
+ newFile <- self$duplicate(nameAndPath$name)
+ newFile$setCollection(self$getCollection())
+ private$attachToNewParent(newFile, newParent)
+ newFile$setParent(newParent)
+
+ newFile
+ },
+
+ duplicate = function(newName = NULL)
+ {
+ name <- if(!is.null(newName)) newName else private$name
+ newFile <- ArvadosFile$new(name)
+ newFile
}
),
collection = NULL,
buffer = NULL,
- 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 file on 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 file from REST.
parent <- private$parent
parentsCollection <- parent$getCollection()
parent$setCollection(NULL, setRecursively = FALSE)
-
parent$remove(private$name)
-
parent$setCollection(parentsCollection, setRecursively = FALSE)
}
),
#'
#' @param x Instance of ArvadosFile class
#' @param ... Optional arguments.
-#' @export
+#' @export
print.ArvadosFile = function(x, ...)
{
collection <- NULL
relativePath <- paste0("/", relativePath)
}
- cat(paste0("Type: ", "\"", "ArvadosFile", "\""), sep = "\n")
- cat(paste0("Name: ", "\"", x$getName(), "\""), sep = "\n")
- cat(paste0("Relative path: ", "\"", relativePath, "\""), sep = "\n")
- cat(paste0("Collection: ", "\"", collection, "\""), sep = "\n")
+ cat(paste0("Type: ", "\"", "ArvadosFile", "\""), sep = "\n")
+ cat(paste0("Name: ", "\"", x$getName(), "\""), sep = "\n")
+ cat(paste0("Relative path: ", "\"", relativePath, "\""), sep = "\n")
+ cat(paste0("Collection: ", "\"", collection, "\""), sep = "\n")
}
projects / arvados.git / blobdiff