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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 "CommandVolumeFileCombine.h"
#include "FileFilters.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
#include "VolumeFile.h"
/**
* constructor.
*/
CommandVolumeFileCombine::CommandVolumeFileCombine()
: CommandBase("-volume-file-combine",
"VOLUME FILE COMBINE")
{
}
/**
* destructor.
*/
CommandVolumeFileCombine::~CommandVolumeFileCombine()
{
}
/**
* get the script builder parameters.
*/
void
CommandVolumeFileCombine::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
paramsOut.clear();
paramsOut.addFile("Output Volume File Name", FileFilters::getVolumeGenericFileFilter());
paramsOut.addMultipleFiles("Input Volume File Name(s)", FileFilters::getVolumeGenericFileFilter());
paramsOut.addVariableListOfParameters("Optional Parameters");
}
/**
* get full help information.
*/
QString
CommandVolumeFileCombine::getHelpInformation() const
{
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<output-volume-file-name>\n"
+ indent9 + "<input-volume-file-1-name>\n"
+ indent9 + "[additional-input-volume-files]\n"
+ indent9 + "[-paint]\n"
+ indent9 + "Combine the volumes into a single, multi-volume file.\n"
+ indent9 + "\n"
+ indent9 + "If the volumes are paint or probabilistic atlas volume\n"
+ indent9 + "files, the \"-paint\" option must be specified so that\n"
+ indent9 + "paint name indices are synchronized throughout all of\n"
+ indent9 + "the volumes.\n"
+ indent9 + "\n");
return helpInfo;
}
/**
* execute the command.
*/
void
CommandVolumeFileCombine::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
//
// Get parameters
//
const QString outputVolumeFileName =
parameters->getNextParameterAsString("Output Volume File Name");
std::vector<QString> inputVolumeFileNames;
bool paintFlag = false;
while (parameters->getParametersAvailable()) {
const QString name = parameters->getNextParameterAsString("Optional parameter");
if (name == "-paint") {
paintFlag = true;
}
else {
inputVolumeFileNames.push_back(name);
}
}
//
// Read all of the input volumes
//
std::vector<VolumeFile*> allVolumes;
for (unsigned int i = 0; i < inputVolumeFileNames.size(); i++) {
std::vector<VolumeFile*> volumesRead;
VolumeFile::readFile(inputVolumeFileNames[i],
-1,
volumesRead);
allVolumes.insert(allVolumes.end(),
volumesRead.begin(), volumesRead.end());
}
if (allVolumes.empty()) {
throw CommandException("No volumes were read.");
}
//
// Handle paint names
//
VolumeFile::VOLUME_TYPE volumeType = allVolumes[0]->getVolumeType();
if (paintFlag) {
volumeType = VolumeFile::VOLUME_TYPE_PAINT;
}
//
// Write the output volume file
//
VolumeFile::writeFile(outputVolumeFileName,
volumeType,
allVolumes[0]->getVoxelDataType(),
allVolumes);
//
// Free memory
//
for (unsigned int i = 0; i < allVolumes.size(); i++) {
delete allVolumes[i];
}
}
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