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/*
//
// Copyright 1997-2009 Torsten Rohlfing
//
// Copyright 2004-2014 SRI International
//
// This file is part of the Computational Morphometry Toolkit.
//
// http://www.nitrc.org/projects/cmtk/
//
// The Computational Morphometry Toolkit 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 3 of
// the License, or (at your option) any later version.
//
// The Computational Morphometry Toolkit 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 the Computational Morphometry Toolkit. If not, see
// <http://www.gnu.org/licenses/>.
//
// $Revision: 5436 $
//
// $LastChangedDate: 2018-12-10 19:01:20 -0800 (Mon, 10 Dec 2018) $
//
// $LastChangedBy: torstenrohlfing $
//
*/
#include "cmtkDataGridMorphologicalOperators.h"
#include <Base/cmtkTemplateArray.h>
#include <System/cmtkExitException.h>
#include <vector>
namespace
cmtk
{
DataGridMorphologicalOperators
::DataGridMorphologicalOperators( const DataGrid::SmartConstPtr& dataGrid )
: m_DataGrid( dataGrid )
{}
TypedArray::SmartPtr
DataGridMorphologicalOperators::GetEroded( const int iterations ) const
{
TypedArray::SmartPtr dataArray = this->m_DataGrid->GetData();
if ( ! dataArray )
return TypedArray::SmartPtr( NULL );
// if not byte array, convert first (copy will be de-allocated automatically upon exiting this function).
if ( dataArray->GetType() != TYPE_BYTE )
{
dataArray = dataArray->Convert( TYPE_BYTE );
}
const byte* data = static_cast<const byte*>( dataArray->GetDataPtr() );
std::vector<byte> tmp( dataArray->GetDataSize() );
ByteArray::SmartPtr erodedArray = ByteArray::Create( dataArray->GetDataSize() );
byte* eroded = erodedArray->GetDataPtrConcrete();
memcpy( eroded, data, erodedArray->GetDataSizeBytes() );
for ( int i = 0; i < iterations; ++i )
{
size_t offset = 0;
for ( int z = 0; z < this->m_DataGrid->m_Dims[2]; ++z )
{
const int dzFrom = z ? -1 : 0, dzTo = (z<this->m_DataGrid->m_Dims[2]-1) ? 1 : 0;
for ( int y = 0; y < this->m_DataGrid->m_Dims[1]; ++y )
{
const int dyFrom = y ? -1 : 0, dyTo = (y<this->m_DataGrid->m_Dims[1]-1) ? 1 : 0;
for ( int x = 0; x < this->m_DataGrid->m_Dims[0]; ++x, ++offset )
{
const int dxFrom = x ? -1 : 0, dxTo = (x<this->m_DataGrid->m_Dims[0]-1) ? 1 : 0;
if ( eroded[offset] )
{
bool erodePixel = false;
for ( int dz = dzFrom; (dz <= dzTo) && !erodePixel; ++dz )
for ( int dy = dyFrom; (dy <= dyTo) && !erodePixel; ++dy )
for ( int dx = dxFrom; (dx <= dxTo) && !erodePixel; ++dx )
if ( dx || dy || dz )
if ( ! eroded[offset+this->m_DataGrid->GetOffsetFromIndex( dx, dy, dz )] )
erodePixel = true;
if ( erodePixel )
tmp[offset] = 0;
else
tmp[offset] = eroded[offset];
}
else
{ // if data
tmp[offset] = 0;
} // if data
} // for x
} // for y
} // for z
memcpy( eroded, &(tmp[0]), erodedArray->GetDataSizeBytes() );
} // for i
erodedArray->SetDataClass( DATACLASS_LABEL );
return erodedArray;
}
TypedArray::SmartPtr
DataGridMorphologicalOperators::GetDilated( const int iterations ) const
{
TypedArray::SmartPtr dataArray = this->m_DataGrid->GetData();
if ( ! dataArray )
return TypedArray::SmartPtr( NULL );
// if not byte array, convert first (copy will be de-allocated automatically upon exiting this function).
if ( dataArray->GetType() != TYPE_BYTE )
{
dataArray = dataArray->Convert( TYPE_BYTE );
}
const byte* data = static_cast<const byte*>( dataArray->GetDataPtr() );
std::vector<byte> tmp( dataArray->GetDataSize() );
ByteArray::SmartPtr dilatedArray = ByteArray::Create( dataArray->GetDataSize() );
byte* dilated = dilatedArray->GetDataPtrConcrete();
memcpy( dilated, data, dilatedArray->GetDataSizeBytes() );
for ( int i = 0; i < iterations; ++i )
{
size_t offset = 0;
for ( int z = 0; z < this->m_DataGrid->m_Dims[2]; ++z )
{
const int dzFrom = z ? -1 : 0, dzTo = (z<this->m_DataGrid->m_Dims[2]-1) ? 1 : 0;
for ( int y = 0; y < this->m_DataGrid->m_Dims[1]; ++y )
{
const int dyFrom = y ? -1 : 0, dyTo = (y<this->m_DataGrid->m_Dims[1]-1) ? 1 : 0;
for ( int x = 0; x < this->m_DataGrid->m_Dims[0]; ++x, ++offset )
{
const int dxFrom = x ? -1 : 0, dxTo = (x<this->m_DataGrid->m_Dims[0]-1) ? 1 : 0;
if ( ! dilated[offset] )
{
byte dilatePixel = 0;
for ( int dz = dzFrom; (dz <= dzTo) && !dilatePixel; ++dz )
for ( int dy = dyFrom; (dy <= dyTo) && !dilatePixel; ++dy )
for ( int dx = dxFrom; (dx <= dxTo) && !dilatePixel; ++dx )
if ( dx || dy || dz )
dilatePixel = dilated[offset+this->m_DataGrid->GetOffsetFromIndex(dx,dy,dz)];
if ( dilatePixel )
tmp[offset] = dilatePixel;
else
tmp[offset] = 0;
}
else
{ // !data
tmp[offset] = dilated[offset];
} // else !data
} // for x
} // for y
} // for z
memcpy( dilated, &(tmp[0]), dilatedArray->GetDataSizeBytes() );
} // for i
dilatedArray->SetDataClass( DATACLASS_LABEL );
return dilatedArray;
}
TypedArray::SmartPtr
DataGridMorphologicalOperators::GetBoundaryMap( const bool multiValued ) const
{
TypedArray::SmartPtr dataArray = this->m_DataGrid->GetData();
if ( ! dataArray )
return TypedArray::SmartPtr( NULL );
ShortArray::SmartPtr boundaryArray = ShortArray::Create( dataArray->GetDataSize() );
short* boundary = boundaryArray->GetDataPtrConcrete();
#pragma omp parallel for
for ( int z = 0; z < this->m_DataGrid->m_Dims[2]; ++z )
{
size_t offset = z * this->m_DataGrid->m_Dims[0] * this->m_DataGrid->m_Dims[1];
Types::DataItem value, neighbor;
const int dzFrom = z ? -1 : 0, dzTo = (z<this->m_DataGrid->m_Dims[2]-1) ? 1 : 0;
for ( int y = 0; y < this->m_DataGrid->m_Dims[1]; ++y )
{
const int dyFrom = y ? -1 : 0, dyTo = (y<this->m_DataGrid->m_Dims[1]-1) ? 1 : 0;
for ( int x = 0; x < this->m_DataGrid->m_Dims[0]; ++x, ++offset )
{
const int dxFrom = x ? -1 : 0, dxTo = (x<this->m_DataGrid->m_Dims[0]-1) ? 1 : 0;
bool bp = false;
if ( dataArray->Get( value, offset ) )
{
for ( int dz = dzFrom; (dz <= dzTo) && !bp; ++dz )
for ( int dy = dyFrom; (dy <= dyTo) && !bp; ++dy )
for ( int dx = dxFrom; (dx <= dxTo) && !bp; ++dx )
if ( dx || dy || dz )
if ( dataArray->Get( neighbor, offset+this->m_DataGrid->GetOffsetFromIndex(dx,dy,dz) ) )
bp = (value != neighbor);
}
else
{
value = 0;
}
if ( bp )
{
if ( multiValued )
boundary[offset] = static_cast<short>( value );
else
boundary[offset] = 1;
}
else
boundary[offset] = 0;
} // for x
} // for y
} // for z
boundaryArray->SetDataClass( DATACLASS_LABEL );
return boundaryArray;
}
} // namespace cmtk
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