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/*LICENSE_START*/
/*
* Copyright 1995-2002 Washington University School of Medicine
*
* http://brainmap.wustl.edu
*
* This file is part of CARET.
*
* CARET is free software; you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation; either version 2 of the License, or
* (at your option) any later version.
*
* CARET is distributed in the hope that it will be useful,
* but WITHOUT ANY WARRANTY; without even the implied warranty of
* MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
* GNU General Public License for more details.
*
* You should have received a copy of the GNU General Public License
* along with CARET; if not, write to the Free Software
* Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
*
*/
/*LICENSE_END*/
#include "BrainSet.h"
#include "CommandPaintDilation.h"
#include "FileFilters.h"
#include "PaintFile.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
/**
* constructor.
*/
CommandPaintDilation::CommandPaintDilation()
: CommandBase("-paint-dilation",
"PAINT DILATION")
{
}
/**
* destructor.
*/
CommandPaintDilation::~CommandPaintDilation()
{
}
/**
* get the script builder parameters.
*/
void
CommandPaintDilation::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
std::vector<QString> values, descriptions;
values.push_back("AN"); descriptions.push_back("Average Neighbors");
values.push_back("DILATE"); descriptions.push_back("Dilation");
values.push_back("FWHM"); descriptions.push_back("Full Width Half Maximum");
values.push_back("GAUSS"); descriptions.push_back("Gaussian");
values.push_back("WAN"); descriptions.push_back("Weighted Average Neighbors");
paramsOut.clear();
paramsOut.clear();
paramsOut.addFile("Coordinate File Name", FileFilters::getCoordinateGenericFileFilter());
paramsOut.addFile("Topology File Name", FileFilters::getTopologyGenericFileFilter());
paramsOut.addFile("Input Paint File Name", FileFilters::getPaintFileFilter());
paramsOut.addFile("Output Paint File Name", FileFilters::getPaintFileFilter());
paramsOut.addInt("Number of Dilation Iterations", 5, 0, 100000);
}
/**
* get full help information.
*/
QString
CommandPaintDilation::getHelpInformation() const
{
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<coordinate-file-name>\n"
+ indent9 + "<topology-file-name>\n"
+ indent9 + "<input-paint-file-name>\n"
+ indent9 + "<output-paint-file-name>\n"
+ indent9 + "<number-of-dilation-iterations>\n"
+ indent9 + "\n");
return helpInfo;
}
/**
* execute the command.
*/
void
CommandPaintDilation::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
const QString coordinateFileName =
parameters->getNextParameterAsString("Coordinate File Name");
const QString topologyFileName =
parameters->getNextParameterAsString("Topology File Name");
const QString inputPaintFileName =
parameters->getNextParameterAsString("Input Paint File Name");
const QString outputPaintFileName =
parameters->getNextParameterAsString("Output Paint File Name");
const int numberOfDilationIterations =
parameters->getNextParameterAsInt("Number of Dilation Iterations");
checkForExcessiveParameters();
//
// Create a brain set
//
BrainSet brainSet(topologyFileName,
coordinateFileName,
NULL,
true);
BrainModelSurface* surface = brainSet.getBrainModelSurface(0);
if (surface == NULL) {
throw CommandException("unable to find surface.");
}
const TopologyFile* tf = surface->getTopologyFile();
if (tf == NULL) {
throw CommandException("unable to find topology.");
}
const int numNodes = surface->getNumberOfNodes();
if (numNodes == 0) {
throw CommandException("surface contains no nodes.");
}
//
// Read input paint file
//
PaintFile paintFile;
paintFile.readFile(inputPaintFileName);
//
// Perform dilation
//
const int numberOfColumns = paintFile.getNumberOfColumns();
for (int i = 0; i < numberOfColumns; i++) {
paintFile.dilateColumn(tf, i, numberOfDilationIterations);
}
//
// Write the p file
//
paintFile.writeFile(outputPaintFileName);
}
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