summaryrefslogtreecommitdiffstats
path: root/src/ArtAlgorithm.cpp
blob: 5445034dcaa1281c513602e61d5a9ecf51595aca (plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
/*
-----------------------------------------------------------------------
Copyright: 2010-2021, imec Vision Lab, University of Antwerp
           2014-2021, CWI, Amsterdam

Contact: astra@astra-toolbox.com
Website: http://www.astra-toolbox.com/

This file is part of the ASTRA Toolbox.


The ASTRA Toolbox 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 ASTRA Toolbox 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 ASTRA Toolbox. If not, see <http://www.gnu.org/licenses/>.

-----------------------------------------------------------------------
*/

#include "astra/ArtAlgorithm.h"

#include "astra/AstraObjectManager.h"

using namespace std;

namespace astra {

// type of the algorithm, needed to register with CAlgorithmFactory
std::string CArtAlgorithm::type = "ART";

//----------------------------------------------------------------------------------------
// Constructor
CArtAlgorithm::CArtAlgorithm() 
 : CReconstructionAlgorithm2D()
{
	m_fLambda = 1.0f;
	m_iRayCount = 0;
	m_iCurrentRay = 0;
	m_piProjectionOrder = NULL;
	m_piDetectorOrder = NULL;
	m_bIsInitialized = false;
}

//----------------------------------------------------------------------------------------
// Destructor
CArtAlgorithm::~CArtAlgorithm() 
{
	if (m_piProjectionOrder != NULL)
		delete[] m_piProjectionOrder;
	if (m_piDetectorOrder != NULL)
		delete[] m_piDetectorOrder;
}

//---------------------------------------------------------------------------------------
// Clear - Constructors
void CArtAlgorithm::_clear()
{
	CReconstructionAlgorithm2D::_clear();
	m_piDetectorOrder = NULL;
	m_piProjectionOrder = NULL;
	m_iRayCount = 0;
	m_iCurrentRay = 0;
	m_bIsInitialized = false;
}

//---------------------------------------------------------------------------------------
// Clear - Public
void CArtAlgorithm::clear()
{
	CReconstructionAlgorithm2D::clear();
	if (m_piDetectorOrder) {
		delete[] m_piDetectorOrder;
		m_piDetectorOrder = NULL;
	}
	if (m_piProjectionOrder) {
		delete[] m_piProjectionOrder;
		m_piProjectionOrder = NULL;
	}
	m_fLambda = 1.0f;
	m_iRayCount = 0;
	m_iCurrentRay = 0;
	m_bIsInitialized = false;
}

//---------------------------------------------------------------------------------------
// Check
bool CArtAlgorithm::_check()
{
	// check base class
	ASTRA_CONFIG_CHECK(CReconstructionAlgorithm2D::_check(), "ART", "Error in ReconstructionAlgorithm2D initialization");

	// check ray order list
	for (int i = 0; i < m_iRayCount; i++) {
		if (m_piProjectionOrder[i] < 0 || m_piProjectionOrder[i] > m_pSinogram->getAngleCount()-1) {
			ASTRA_CONFIG_CHECK(false, "ART", "Invalid value in ray order list.");
		}
		if (m_piDetectorOrder[i] < 0 || m_piDetectorOrder[i] > m_pSinogram->getDetectorCount()-1) {
			ASTRA_CONFIG_CHECK(false, "ART", "Invalid value in ray order list.");
		}
	}

	// success
	return true;
}

//---------------------------------------------------------------------------------------
// Initialize - Config
bool CArtAlgorithm::initialize(const Config& _cfg)
{
	ASTRA_ASSERT(_cfg.self);
	ConfigStackCheck<CAlgorithm> CC("ArtAlgorithm", this, _cfg);

	// if already initialized, clear first
	if (m_bIsInitialized) {
		clear();
	}
	
	// initialization of parent class
	if (!CReconstructionAlgorithm2D::initialize(_cfg)) {
		return false;
	}

	// ray order
	string projOrder = _cfg.self.getOption("RayOrder", "sequential");
	CC.markOptionParsed("RayOrder");
	m_iCurrentRay = 0;
	m_iRayCount = m_pProjector->getProjectionGeometry()->getProjectionAngleCount() * 
		m_pProjector->getProjectionGeometry()->getDetectorCount();
	if (projOrder == "sequential") {
		m_piProjectionOrder = new int[m_iRayCount];
		m_piDetectorOrder = new int[m_iRayCount];
		for (int i = 0; i < m_iRayCount; i++) {
			m_piProjectionOrder[i] = (int)floor((float)i / m_pProjector->getProjectionGeometry()->getDetectorCount());
			m_piDetectorOrder[i] = i % m_pProjector->getProjectionGeometry()->getDetectorCount();
		}
	} else if (projOrder == "custom") {
		vector<float32> rayOrderList = _cfg.self.getOptionNumericalArray("RayOrderList");
		m_iRayCount = rayOrderList.size() / 2;
		m_piProjectionOrder = new int[m_iRayCount];
		m_piDetectorOrder = new int[m_iRayCount];
		for (int i = 0; i < m_iRayCount; i++) {
			m_piProjectionOrder[i] = static_cast<int>(rayOrderList[2*i]);
			m_piDetectorOrder[i] = static_cast<int>(rayOrderList[2*i+1]);
		}
		CC.markOptionParsed("RayOrderList");
	} else {
		return false;
	}

	// "Lambda" is replaced by the more descriptive "Relaxation"
	m_fLambda = _cfg.self.getOptionNumerical("Lambda", 1.0f);
	m_fLambda = _cfg.self.getOptionNumerical("Relaxation", m_fLambda);
	if (!_cfg.self.hasOption("Relaxation"))
		CC.markOptionParsed("Lambda");
	CC.markOptionParsed("Relaxation");

	// success
	m_bIsInitialized = _check();
	return m_bIsInitialized;
}

//----------------------------------------------------------------------------------------
// Initialize - C++
bool CArtAlgorithm::initialize(CProjector2D* _pProjector, 
							   CFloat32ProjectionData2D* _pSinogram, 
							   CFloat32VolumeData2D* _pReconstruction)
{
	// if already initialized, clear first
	if (m_bIsInitialized) {
		clear();
	}

	// required classes
	m_pProjector = _pProjector;
	m_pSinogram = _pSinogram;
	m_pReconstruction = _pReconstruction;

	// ray order
	m_iCurrentRay = 0;
	m_iRayCount = _pProjector->getProjectionGeometry()->getDetectorCount() * 
		_pProjector->getProjectionGeometry()->getProjectionAngleCount();
	m_piProjectionOrder = new int[m_iRayCount];
	m_piDetectorOrder = new int[m_iRayCount];
	for (int i = 0; i < m_iRayCount; i++) {
		m_piProjectionOrder[i] = (int)floor((float)i / _pProjector->getProjectionGeometry()->getDetectorCount());
		m_piDetectorOrder[i] = i % _pProjector->getProjectionGeometry()->getDetectorCount();
	}

	// success
	m_bIsInitialized = _check();
	return m_bIsInitialized;
}

//----------------------------------------------------------------------------------------
// Set the relaxation factor.
void CArtAlgorithm::setLambda(float32 _fLambda)
{
	m_fLambda = _fLambda;
}

//----------------------------------------------------------------------------------------
// Set the order in which the rays will be selected
void CArtAlgorithm::setRayOrder(int* _piProjectionOrder, int* _piDetectorOrder, int _iRayCount)
{
	if (m_piDetectorOrder) {
		delete[] m_piDetectorOrder;
		m_piDetectorOrder = NULL;
	}
	if (m_piProjectionOrder) {
		delete[] m_piProjectionOrder;
		m_piProjectionOrder = NULL;
	}

	m_iCurrentRay = 0;
	m_iRayCount = _iRayCount;
	m_piProjectionOrder = new int[m_iRayCount];
	m_piDetectorOrder = new int[m_iRayCount];
	for (int i = 0; i < m_iRayCount; i++) {
		m_piProjectionOrder[i] = _piProjectionOrder[i];
		m_piDetectorOrder[i] = _piDetectorOrder[i];
	}
}

//---------------------------------------------------------------------------------------
// Information - All
map<string,boost::any> CArtAlgorithm::getInformation() 
{
	map<string, boost::any> res;
	res["RayOrder"] = getInformation("RayOrder");
	res["Relaxation"] = getInformation("Relaxation");
	return mergeMap<string,boost::any>(CReconstructionAlgorithm2D::getInformation(), res);
};

//---------------------------------------------------------------------------------------
// Information - Specific
boost::any CArtAlgorithm::getInformation(std::string _sIdentifier) 
{
	if (_sIdentifier == "Relaxation")	{ return m_fLambda; }
	if (_sIdentifier == "RayOrder") {
		vector<float32> res;
		for (int i = 0; i < m_iRayCount; i++) {
			res.push_back(m_piProjectionOrder[i]);
		}
		for (int i = 0; i < m_iRayCount; i++) {
			res.push_back(m_piDetectorOrder[i]);
		}
		return res;
	}
	return CAlgorithm::getInformation(_sIdentifier);
};

//----------------------------------------------------------------------------------------
// Iterate
void CArtAlgorithm::run(int _iNrIterations)
{
	// check initialized
	assert(m_bIsInitialized);
	
	// variables
	int iIteration, iPixel;
	int iUsedPixels, iProjection, iDetector;
	float32 fRayForwardProj, fSumSquaredWeights;
	float32 fProjectionDifference, fBackProjectionFactor;

	// create a pixel buffer
	int iPixelBufferSize = m_pProjector->getProjectionWeightsCount(0);
	SPixelWeight* pPixels = new SPixelWeight[iPixelBufferSize];

	// start iterations
	for (iIteration = _iNrIterations-1; iIteration >= 0; --iIteration) {

		// step0: compute single weight rays
		iProjection = m_piProjectionOrder[m_iCurrentRay];
		iDetector = m_piDetectorOrder[m_iCurrentRay];
		m_iCurrentRay = (m_iCurrentRay + 1) % m_iRayCount;

		if (m_bUseSinogramMask && m_pSinogramMask->getData2D()[iProjection][iDetector] == 0) continue;	

		m_pProjector->computeSingleRayWeights(iProjection, iDetector, pPixels, iPixelBufferSize, iUsedPixels);

		// step1: forward projections
		fRayForwardProj = 0.0f;
		fSumSquaredWeights = 0.0f;
		for (iPixel = iUsedPixels-1; iPixel >= 0; --iPixel) {
			if (m_bUseReconstructionMask && m_pReconstructionMask->getDataConst()[pPixels[iPixel].m_iIndex] == 0) continue;

			fRayForwardProj += pPixels[iPixel].m_fWeight * m_pReconstruction->getDataConst()[pPixels[iPixel].m_iIndex];
			fSumSquaredWeights += pPixels[iPixel].m_fWeight * pPixels[iPixel].m_fWeight;
		}
		if (fSumSquaredWeights == 0) continue;

		// step2: difference
		fProjectionDifference = m_pSinogram->getData2D()[iProjection][iDetector] - fRayForwardProj;

		// step3: back projection
		fBackProjectionFactor = m_fLambda * fProjectionDifference / fSumSquaredWeights;
		for (iPixel = iUsedPixels-1; iPixel >= 0; --iPixel) {
			
			// pixel must be loose
			if (m_bUseReconstructionMask && m_pReconstructionMask->getDataConst()[pPixels[iPixel].m_iIndex] == 0) continue;

			// update
			m_pReconstruction->getData()[pPixels[iPixel].m_iIndex] += fBackProjectionFactor * pPixels[iPixel].m_fWeight;
			
			// constraints
			if (m_bUseMinConstraint && m_pReconstruction->getData()[pPixels[iPixel].m_iIndex] < m_fMinValue) {
				m_pReconstruction->getData()[pPixels[iPixel].m_iIndex] = m_fMinValue;
			}
			if (m_bUseMaxConstraint && m_pReconstruction->getData()[pPixels[iPixel].m_iIndex] > m_fMaxValue) {
				m_pReconstruction->getData()[pPixels[iPixel].m_iIndex] = m_fMaxValue;
			}
		}

	}
	delete[] pPixels;

	// update statistics
	m_pReconstruction->updateStatistics();
}


//----------------------------------------------------------------------------------------

} // namespace astra