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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 "CommandVolumeCreateInStereotaxicSpace.h"
#include "FileFilters.h"
#include "ProgramParameters.h"
#include "ScriptBuilderParameters.h"
#include "StereotaxicSpace.h"
#include "VolumeFile.h"
/**
* constructor.
*/
CommandVolumeCreateInStereotaxicSpace::CommandVolumeCreateInStereotaxicSpace()
: CommandBase("-volume-create-in-stereotaxic-space",
"VOLUME CREATE IN STEREOTAXIC SPACE")
{
}
/**
* destructor.
*/
CommandVolumeCreateInStereotaxicSpace::~CommandVolumeCreateInStereotaxicSpace()
{
}
/**
* get the script builder parameters.
*/
void
CommandVolumeCreateInStereotaxicSpace::getScriptBuilderParameters(ScriptBuilderParameters& paramsOut) const
{
std::vector<StereotaxicSpace> spaces;
StereotaxicSpace::getAllStereotaxicSpaces(spaces);
std::vector<QString> spaceNames;
for (unsigned int i = 0; i < spaces.size(); i++) {
if ((spaces[i].getSpace() != StereotaxicSpace::SPACE_UNKNOWN) &&
(spaces[i].getSpace() != StereotaxicSpace::SPACE_OTHER)) {
const QString name = spaces[i].getName();
spaceNames.push_back(name);
}
}
paramsOut.clear();
paramsOut.addListOfItems("Stereotaxic Space",
spaceNames,
spaceNames);
paramsOut.addFile("Output Volume File",
FileFilters::getVolumeGenericFileFilter());
}
/**
* get full help information.
*/
QString
CommandVolumeCreateInStereotaxicSpace::getHelpInformation() const
{
std::vector<StereotaxicSpace> spaces;
StereotaxicSpace::getAllStereotaxicSpaces(spaces);
QString helpInfo =
(indent3 + getShortDescription() + "\n"
+ indent6 + parameters->getProgramNameWithoutPath() + " " + getOperationSwitch() + " \n"
+ indent9 + "<STEREOTAXIC-SPACE>\n"
+ indent9 + "<output-volume-file-name-and-label>\n"
+ indent9 + "\n"
+ indent9 + "Create a volume in the specified stereotaxic space.\n"
+ indent9 + "Valid spaces are:\n");
for (unsigned int i = 0; i < spaces.size(); i++) {
if ((spaces[i].getSpace() != StereotaxicSpace::SPACE_UNKNOWN) &&
(spaces[i].getSpace() != StereotaxicSpace::SPACE_OTHER)) {
const QString name = spaces[i].getName();
helpInfo += (indent9 + " " + name + "\n");
}
}
return helpInfo;
}
/**
* execute the command.
*/
void
CommandVolumeCreateInStereotaxicSpace::executeCommand() throw (BrainModelAlgorithmException,
CommandException,
FileException,
ProgramParametersException,
StatisticException)
{
std::vector<StereotaxicSpace> spaces;
StereotaxicSpace::getAllStereotaxicSpaces(spaces);
const QString stereotaxicSpaceName =
parameters->getNextParameterAsString("Stereotaxic Space");
QString outputVolumeFileName, outputVolumeFileLabel;
parameters->getNextParameterAsVolumeFileNameAndLabel("Output Volume File Name",
outputVolumeFileName,
outputVolumeFileLabel);
StereotaxicSpace space = StereotaxicSpace::getStereotaxicSpace(stereotaxicSpaceName);
if ((space.getSpace() == StereotaxicSpace::SPACE_UNKNOWN) ||
(space.getSpace() == StereotaxicSpace::SPACE_OTHER)) {
throw CommandException("ERROR: Stereotaxic space name not recognized.");
}
int dimensions[3];
space.getDimensions(dimensions);
float spacing[3];
space.getVoxelSize(spacing);
float origin[3];
space.getOrigin(origin);
const VolumeFile::ORIENTATION orient[3] = {
VolumeFile::ORIENTATION_LEFT_TO_RIGHT,
VolumeFile::ORIENTATION_POSTERIOR_TO_ANTERIOR,
VolumeFile::ORIENTATION_INFERIOR_TO_SUPERIOR
};
VolumeFile volume;
volume.initialize(VolumeFile::VOXEL_DATA_TYPE_FLOAT,
dimensions,
orient,
origin,
spacing);
//
// Write the volume
//
writeVolumeFile(volume, outputVolumeFileName, outputVolumeFileLabel);
}
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