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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 "BrainModelSurface.h"
#include "BrainModelSurfaceDeformationMapCreate.h"
#include "BrainSet.h"
#include "CommandDeformationMapCreate.h"
#include "DeformationMapFile.h"
#include "FileFilters.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
/**
* constructor.
*/
CommandDeformationMapCreate::CommandDeformationMapCreate()
: CommandBase("-deformation-map-create",
"DEFORMATION MAP CREATE")
{
}
/**
* destructor.
*/
CommandDeformationMapCreate::~CommandDeformationMapCreate()
{
}
/**
* get the script builder parameters.
*/
void
CommandDeformationMapCreate::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
paramsOut.clear();
std::vector<QString> surfaceTypeNameAndValue;
surfaceTypeNameAndValue.push_back("SPHERE");
paramsOut.addListOfItems("Surface Type",
surfaceTypeNameAndValue,
surfaceTypeNameAndValue);
paramsOut.addFile("Source Coordinate File Name",
FileFilters::getCoordinateGenericFileFilter());
paramsOut.addFile("Source Topology File Name",
FileFilters::getTopologyGenericFileFilter());
paramsOut.addFile("Target Coordinate File Name",
FileFilters::getCoordinateGenericFileFilter());
paramsOut.addFile("Target Topology File Name",
FileFilters::getTopologyGenericFileFilter());
paramsOut.addFile("Deformation Map File Name",
FileFilters::getDeformationMapFileFilter());
}
/**
* get full help information.
*/
QString
CommandDeformationMapCreate::getHelpInformation() const
{
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<SURFACE_TYPE>\n"
+ indent9 + "<input-source-coordinate-file-name>\n"
+ indent9 + "<input-source-topology-file-name>\n"
+ indent9 + "<input-target-coordinate-file-name>\n"
+ indent9 + "<input-target-topology-file-name>\n"
+ indent9 + "<output-deformation-map-file-name>\n"
+ indent9 + "\n"
+ indent9 + "Create a deformation map file that maps data from the \n"
+ indent9 + "source surface to the target surface. The number of \n"
+ indent9 + "nodes in the output deformation map file is the number \n"
+ indent9 + "of nodes in the target surface.\n"
+ indent9 + "\n"
+ indent9 + "\"SURFACE_TYPE\" is one of:\n"
+ indent9 + " SPHERE \n"
+ indent9 + "\n");
return helpInfo;
}
/**
* execute the command.
*/
void
CommandDeformationMapCreate::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
//
// Get the inputs
//
const QString surfaceTypeString =
parameters->getNextParameterAsString("SURFACE TYPE");
const QString sourceCoordinateFileName =
parameters->getNextParameterAsString("Source Coordinate File Name");
const QString sourceTopologyFileName =
parameters->getNextParameterAsString("Source Topology File Name");
const QString targetCoordinateFileName =
parameters->getNextParameterAsString("Target Coordinate File Name");
const QString targetTopologyFileName =
parameters->getNextParameterAsString("Target Topology File Name");
const QString deformationMapFileName =
parameters->getNextParameterAsString("Deformation Map File Name");
checkForExcessiveParameters();
BrainModelSurfaceDeformationMapCreate::DEFORMATION_SURFACE_TYPE defType;
if (surfaceTypeString == "SPHERE") {
defType = BrainModelSurfaceDeformationMapCreate::DEFORMATION_SURFACE_TYPE_SPHERE;
}
else {
throw CommandException("Invalid surface type: " + surfaceTypeString);
}
//
// Create the source surface
//
BrainSet sourceBrainSet(sourceTopologyFileName,
sourceCoordinateFileName,
"",
true);
BrainModelSurface* sourceSurface = sourceBrainSet.getBrainModelSurface(0);
if (sourceSurface == NULL) {
throw CommandException("Unable to create source surface.");
}
//
// Create the target surface
//
BrainSet targetBrainSet(targetTopologyFileName,
targetCoordinateFileName);
BrainModelSurface* targetSurface = targetBrainSet.getBrainModelSurface(0);
if (targetSurface == NULL) {
throw CommandException("Unable to create target surface.");
}
//
// Deformation Map File
//
DeformationMapFile defMapFile;
//
// Execute the deformation
//
BrainModelSurfaceDeformationMapCreate bmsdmc(&sourceBrainSet,
sourceSurface,
targetSurface,
&defMapFile,
defType);
bmsdmc.execute();
//
// Write the deformation map file
//
defMapFile.writeFile(deformationMapFileName);
}
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