Package mgui.io.domestic.network

Class CorticalNetworkMatrixLoader

java.lang.Object

mgui.io.FileLoader

mgui.io.domestic.network.CorticalNetworkMatrixLoader

All Implemented Interfaces:

InterfaceIO, IconObject

public class CorticalNetworkMatrixLoader
extends FileLoader

Reads an ASCII matrix representing a connected network into a cortical network, assigning weights based upon a specified range (mapped to the continuous range [0.0:1.0]). The expected format, where R_i is region i, w_ij is the weight for the directed connection from i to j, the matrix elements are tab-delimited, and the diagonal is ignored and can therefore be any value, is:

R_1 R_2 ... R_n
0 w_12 ... w_1n
w_21 0 ... w_2n
...
w_n1 w_n2 ... 0

Note this type of file does not contain any information about the regions themselves, only their connectivity. TODO: implement or find more detailed file format for this (preferable XML)...

Author:

Andrew Reid

Field Summary

Fields inherited from class mgui.io.FileLoader

dataFile, dataURL

Constructor Summary

Constructors

Constructor	Description
CorticalNetworkMatrixLoader()
CorticalNetworkMatrixLoader(java.io.File input)
CorticalNetworkMatrixLoader(java.io.File input, CorticalNetworkMatrixInOptions options)

Method Summary

Modifier and Type	Method	Description
CorticalNetwork	getCorticalNetwork()
boolean	load(InterfaceIOOptions options, ProgressUpdater progress_bar)	Loads data from the set of files or URLs specified by options.
java.lang.Object	loadObject(ProgressUpdater progress_bar, InterfaceIOOptions options)	Loads data into an instance of the object corresponding to this loader.
void	setOptions(CorticalNetworkMatrixInOptions options)

Methods inherited from class mgui.io.FileLoader

getComplementIOType, getFailureMessage, getFile, getIOType, getObjectIcon, getOptions, getProgressMessage, getSuccessMessage, getSupportedObjects, getTitle, getWriterComplement, load, load, loadObject, loadObject, loadObject, setFile, setOptions, setURL, toString

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait

Constructor Details

CorticalNetworkMatrixLoader

public CorticalNetworkMatrixLoader()

CorticalNetworkMatrixLoader

public CorticalNetworkMatrixLoader(java.io.File input)

CorticalNetworkMatrixLoader

public CorticalNetworkMatrixLoader(java.io.File input,
CorticalNetworkMatrixInOptions options)

Method Details

loadObject

public java.lang.Object loadObject(ProgressUpdater progress_bar,
InterfaceIOOptions options)
                            throws java.io.IOException

Description copied from class: FileLoader

Loads data into an instance of the object corresponding to this loader. If loaded object is of type PersistentObject, this method should also set the file loader and reference URL for the object. TODO: make generic?

Overrides:

loadObject in class FileLoader

Parameters:

progress_bar - An optional progress updater. Can be null.

options - Options defining the loading process

Returns:

Throws:

java.io.IOException

load

public boolean load(InterfaceIOOptions options,
ProgressUpdater progress_bar)

Description copied from class: FileLoader

Loads data from the set of files or URLs specified by options. Loading is controlled by the specifications of options. If loaded object is of type PersistentObject, this method should also set the file loader and reference URL for the object.

This method should also set the URL reference and writer and loader attributes to match this one and its complement.

Specified by:

load in class FileLoader

progress_bar - An optional progress updater. Can be null.

Returns:

setOptions

public void setOptions(CorticalNetworkMatrixInOptions options)

getCorticalNetwork

public CorticalNetwork getCorticalNetwork()