Functions for creating and searching a registry of file types based on file extension.
1 2 3
The List class the file is associated with such as BamFileList, BigWigFileList, FaFileList.
The package where the List class (
A regular expression that uniquely identifies the file extension.
Additional arguments passed to the List-class constructor (e.g., yieldSize for BamFileList).
registerFileType function adds entries to the file
type register created at load time. The point of the register
is for discovery of file type (class) by file extension.
These are List-type classes (e.g., BamFileList) that occupy
fileList slot of a GenomicFiles class.
Each List class entry in the register is associated with
(1) a regular expression that identifies the file extension,
(2) a class and (3) the package where the class is defined.
At load time the register is populated with classes known to
GenomicFiles. New classes / file types can be added to
the register with
registerFileType by providing
these three pieces of information.
Searches the registry for a match to the extension of
fname. Internal use only.
makeFileType Performs a look-up in the file registry based on the supplied regular expression; returns an object of the associated class. Internal use only.
findTypeRegistry: The regular expression associated with the file.
makeFileType: A List-type object defined in the registry.
1 2 3 4 5 6