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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 "CommandSurfaceAverage.h"
#include "CoordinateFile.h"
#include "FileFilters.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
#include "SurfaceShapeFile.h"
/**
* constructor.
*/
CommandSurfaceAverage::CommandSurfaceAverage()
: CommandBase("-surface-average",
"SURFACE CREATE AVERAGE")
{
}
/**
* destructor.
*/
CommandSurfaceAverage::~CommandSurfaceAverage()
{
}
/**
* get the script builder parameters.
*/
void
CommandSurfaceAverage::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
paramsOut.clear();
paramsOut.addFile("Output Coordinate File Name", FileFilters::getCoordinateGenericFileFilter());
paramsOut.addMultipleFiles("Input Coordinate File Name(s)", FileFilters::getCoordinateGenericFileFilter());
paramsOut.addVariableListOfParameters("Coordinate Options");
}
/**
* get full help information.
*/
QString
CommandSurfaceAverage::getHelpInformation() const
{
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<output-coordinate-file-name>\n"
+ indent9 + "<input-coordinate-file-1-name>\n"
+ indent9 + "[input-coordinate-file-2-name]\n"
+ indent9 + "...\n"
+ indent9 + "[input-coordinate-file-N-name]\n"
+ indent9 + "[output-surface-shape-file-name]\n"
+ indent9 + "\n"
+ indent9 + "Create an average surface.\n"
+ indent9 + "\n"
+ indent9 + "If a surface shape file name is specified, it will be created\n"
+ indent9 + "and contain the coordinate uncertainty. The surface shape file\n"
+ indent9 + "name must end with \"" + SpecFile::getSurfaceShapeFileExtension() + "\".\n"
+ indent9 + "\n");
return helpInfo;
}
/**
* execute the command.
*/
void
CommandSurfaceAverage::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
//
// Get the pamameters
//
const QString outputCoordinateFileName =
parameters->getNextParameterAsString("Output Coordinate File Name");
std::vector<QString> inputCoordinateFileNames;
QString surfaceShapeFileName;
while (parameters->getParametersAvailable()) {
const QString name = parameters->getNextParameterAsString("Optional File Name");
if (name.endsWith(SpecFile::getSurfaceShapeFileExtension())) {
surfaceShapeFileName = name;
}
else {
inputCoordinateFileNames.push_back(name);
}
}
const int numCoordFiles = static_cast<int>(inputCoordinateFileNames.size());
if (numCoordFiles < 1) {
throw CommandException("There must be at least one input coordinate file.");
}
//
// Read the input coordinate files
//
std::vector<CoordinateFile*> coordinateFiles;
for (int i = 0; i < static_cast<int>(inputCoordinateFileNames.size()); i++) {
CoordinateFile* coordFile = new CoordinateFile;
coordFile->readFile(inputCoordinateFileNames[i]);
coordinateFiles.push_back(coordFile);
}
//
// Should a surface shape file containing uncertainty be created?
//
SurfaceShapeFile* ssf = NULL;
if (surfaceShapeFileName.isEmpty() == false) {
ssf = new SurfaceShapeFile;
}
//
// Create the average coordinate file
//
CoordinateFile outputCoordinateFile;
CoordinateFile::createAverageCoordinateFile(coordinateFiles,
outputCoordinateFile,
ssf);
//
// Write the coordinate file
//
outputCoordinateFile.writeFile(outputCoordinateFileName);
//
// Write surface shape file if it was created
//
if (ssf != NULL) {
ssf->writeFile(surfaceShapeFileName);
}
//
// Free memory
//
for (unsigned int i = 0; i < coordinateFiles.size(); i++) {
delete coordinateFiles[i];
}
if (ssf != NULL) {
delete ssf;
}
}
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