GenericDataFile: The abstract GenericDataFile class

In R.filesets: Easy Handling of and Access to Files Organized in Structured Directories

The abstract GenericDataFile class

Description

Package: R.filesets
Class GenericDataFile

Object
~~|
~~+--FullNameInterface
~~~~~~~|
~~~~~~~+--GenericDataFile

Directly known subclasses:
ChecksumFile, GenericTabularFile, RDataFile, RdsFile, TabularTextFile

public abstract static class GenericDataFile
extends FullNameInterface

A GenericDataFile is an object referring to a data file on a file system. Note that this class is abstract and can not be instantiated, but instead you have to use one of the subclasses or the generic *fromFile() method.

Usage

GenericDataFile(filename=NULL, path=NULL, mustExist=!is.na(filename), ...,
  .onUnknownArgs=c("error", "warning", "ignore"))

Arguments

filename	The filename of the file.
path	An optional path to the file.
mustExist	If TRUE, an exception is thrown if the file does not exists, otherwise not.
...	Not used.
.onUnknownArgs	A character string specifying what should occur if there are unknown arguments in ....

Fields and Methods

Methods:

	compareChecksum	Compares the file checksum with the value of the checksum file.
	equals	Checks if a file equals another.
	getChecksum	Gets the checksum of a file.
	getChecksumFile	-
	getExtension	Gets the filename extension.
	getFileSize	Gets the size of a file.
	getFileType	Gets the file type of a file.
	getFilename	Gets the filename of the file.
	getPath	Gets the path (directory) of the file.
	getPathname	Gets the pathname of the file.
	is.na	-
	isFile	Checks if this is an existing file.
	validateChecksum	Asserts that the file checksum matches the one of the checksum file.
	writeChecksum	Write the file checksum to a checksum file.

Methods inherited from FullNameInterface:
appendFullNameTranslator, appendFullNameTranslatorByNULL, appendFullNameTranslatorByTabularTextFile, appendFullNameTranslatorByTabularTextFileSet, appendFullNameTranslatorBycharacter, appendFullNameTranslatorBydata.frame, appendFullNameTranslatorByfunction, appendFullNameTranslatorBylist, clearFullNameTranslator, clearListOfFullNameTranslators, getDefaultFullName, getFullName, getFullNameTranslator, getListOfFullNameTranslators, getName, getTags, hasTag, hasTags, resetFullName, setFullName, setFullNameTranslator, setListOfFullNameTranslators, setName, setTags, updateFullName

Methods inherited from Object:
$, $<-, [[, [[<-, as.character, attach, attachLocally, clearCache, clearLookupCache, clone, detach, equals, extend, finalize, getEnvironment, getFieldModifier, getFieldModifiers, getFields, getInstantiationTime, getStaticInstance, hasField, hashCode, ll, load, names, objectSize, print, save

Filename convention

The filename of an GenericDataFile is structured as follows:

filename

: "sample001,a,b,c.CEL" (this follows the R convention, but not the Unix convention)

fullname

: "sample001,a,b,c"

name

: "sample001"

tags

: c("a", "b", "c")

extension

: "CEL"

Author(s)

Henrik Bengtsson

See Also

An object of this class is typically part of an GenericDataFileSet.

R.filesets documentation built on May 29, 2024, 9:10 a.m.