Add preprocessTransmissionReconstructionForReflection.

src/reflectionReconstruction/preprocessData/preprocessAScanBlockForReflection.cpp

@@ -112,7 +112,7 @@ namespace Recon {
     const Aurora::Matrix &blockedSenderPosition,
     const Aurora::Matrix &blockedReceiverPosition,
     const Aurora::Matrix &blockedGain, const Aurora::Matrix &blockedChannels,
-    ExpInfo &info, const PreComputes &preComputes) {
+    MeasurementInfo &info, const PreComputes &preComputes) {
         std::vector<Aurora::Matrix> result;
         auto t = size(blockedAScans);
         size_t nSamples = (int)t[0];
@@ -371,7 +371,7 @@ namespace Recon {
     const Aurora::Matrix &blockedSenderPosition,
     const Aurora::Matrix &blockedReceiverPosition,
     const Aurora::Matrix &blockedGain, const Aurora::Matrix &blockedChannels,
-    ExpInfo &info, const PreComputes &preComputes) 
+    MeasurementInfo &info, const PreComputes &preComputes) 
     {
         preprocessAScanRResult result;
         auto valid = Aurora::zeros(1, blockedMP.getDataSize()) ;

src/reflectionReconstruction/preprocessData/preprocessAScanBlockForReflection.h

@@ -8,10 +8,6 @@ namespace Recon {
     Aurora::Matrix AscanBlock;
     Aurora::Matrix usedData;
     };
-    struct ExpInfo{
-        size_t Wavelength;
-        size_t expectedAScanLength;
-    };
 
     preprocessAScanRResult preprocessAScanBlockForReflection(
         Aurora::Matrix &AscanBlock, const Aurora::Matrix &mpBlock,
@@ -20,7 +16,7 @@ namespace Recon {
         const Aurora::Matrix &senderPositionBlock,
         const Aurora::Matrix &receiverPositionBlock,
         const Aurora::Matrix &gainBlock, const Aurora::Matrix &channelBlock,
-        ExpInfo& info, const PreComputes &preComputes);
+        MeasurementInfo& info, const PreComputes &preComputes);
 }
 
 #endif // __PREPROCESSASCANBLOCKFORREFLECTION_H__

src/reflectionReconstruction/preprocessData/preprocessTransmissionReconstructionForReflection.cpp

@@ -0,0 +1,155 @@
+#include "preprocessTransmissionReconstructionForReflection.h"
+#include "Function3D.h"
+#include "Matrix.h"
+#include "reflectionReconstruction/preprocessData/resampleTransmissionVolume.h"
+#include "src/config/config.h"
+
+#include <algorithm>
+#include <iostream>
+#include <cstddef>
+
+using namespace Aurora;
+using namespace Recon;
+
+PreprocessReflectionData Recon::preprocessTransmissionReconstructionForReflection(const Aurora::Matrix& aSOSMap, const Aurora::Matrix& aATTMap,
+                                                         const Aurora::Matrix& aDdims, const GeometryInfo& aGeometryInfo,
+                                                         const TempInfo& aTemp)
+{
+    PreprocessReflectionData result;
+    int soundSpeedCorrection = reflectParams::soundSpeedCorrection;
+    int attenuationCorrection = reflectParams::attenuationCorrection;
+    Matrix minPos;
+    Matrix maxPos;
+    if(!aDdims.isNull())
+    {
+        minPos = Matrix::fromRawData(new double[3], 1, 3);
+        size_t maxPosSize = aDdims.getDataSize() - 3;
+        maxPos = Matrix::fromRawData(new double[maxPosSize], 1, maxPosSize);
+        std::copy(aDdims.getData(), aDdims.getData() + 3, minPos.getData());
+        std::copy(aDdims.getData() + 3, aDdims.getData() + 3 + maxPosSize, maxPos.getData());
+    }
+
+    if(soundSpeedCorrection == 1)
+    {
+        auto sosResampleVolume = resampleTransmissionVolume(aSOSMap, maxPos, minPos, aGeometryInfo);
+        result.transRecos.deltaTransMap = sosResampleVolume.deltaTransMap;
+        result.transRecos.beginTransMap = sosResampleVolume.beginTransMap;
+        // TemperatureModel4D暂无
+        // try % use temp model 4D
+        // speedmapx=transRecos.begin_TransMap(1):transRecos.delta_TransMap:(size(transRecos.SpeedMap3D,1)-1)*transRecos.delta_TransMap + transRecos.begin_TransMap(1);
+        // speedmapy=transRecos.begin_TransMap(2):transRecos.delta_TransMap:(size(transRecos.SpeedMap3D,2)-1)*transRecos.delta_TransMap + transRecos.begin_TransMap(2);
+        // speedmapz=transRecos.begin_TransMap(3):transRecos.delta_TransMap:(size(transRecos.SpeedMap3D,3)-1)*transRecos.delta_TransMap + transRecos.begin_TransMap(3);
+        // tidx=abs(transRecos.SpeedMap3D(:))<1; % voxels to fill
+        // [ix,iy,iz]=ind2sub(size(transRecos.SpeedMap3D),find(tidx));
+        
+        // %fill with model
+        // if(~isempty(ix) && ~isempty(iy) && ~isempty(iz))
+        //     transRecos.SpeedMap3D(tidx) = temperatureToSoundSpeed(polyvaln(temp.TemperatureModel4D.p,[speedmapx(ix)',speedmapy(iy)', speedmapz(iz)', zeros(size(ix))])); %surf(xg,yg,zg,reshape(tg,size(xg)))
+        // end
+        // catch
+        Matrix sppedMap3d = sosResampleVolume.transMap;
+        for(size_t i=0; i<sppedMap3d.getDataSize(); ++i)
+        {
+            if(std::abs(sppedMap3d[i]) < 1)
+            {
+                sppedMap3d[i] = aTemp.expectedSOSWater[0];
+            }
+        }
+        result.transRecos.speedMap3D = sppedMap3d;
+        //end
+    }
+
+    if( attenuationCorrection == 1)
+    {
+        Matrix attenuationMap3D = aATTMap.deepCopy();
+        for(size_t i=0; i<attenuationMap3D.getDataSize(); ++i)
+        {
+            if(attenuationMap3D[i] < 0)
+            {
+                attenuationMap3D[i] = 0;
+            }
+        }
+        attenuationMap3D = attenuationMap3D*20/std::log(10);
+        attenuationMap3D = attenuationMap3D*100;
+
+       
+        auto attResampleVolume = resampleTransmissionVolume(attenuationMap3D, maxPos, minPos, aGeometryInfo);
+        result.transRecos.deltaTransMap = attResampleVolume.deltaTransMap;
+        result.transRecos.beginTransMap = attResampleVolume.beginTransMap;
+        attenuationMap3D = attResampleVolume.transMap;
+        if(result.transRecos.speedMap3D.isNull())
+        {
+            result.transRecos.speedMap3D = zeros(attenuationMap3D.getDimSize(0), attenuationMap3D.getDimSize(1), attenuationMap3D.getDimSize(2));
+            soundSpeedCorrection = 1;
+        }
+        result.transRecos.attenuationMap3D = attenuationMap3D;
+    }
+    else if(soundSpeedCorrection == 1 && !result.transRecos.speedMap3D.isNull())
+    {
+        Matrix speedMap3D = result.transRecos.speedMap3D;
+        result.transRecos.attenuationMap3D = zeros(speedMap3D.getDimSize(0), speedMap3D.getDimSize(1), speedMap3D.getDimSize(2));
+        attenuationCorrection = 1;
+    }
+
+    if(soundSpeedCorrection == 0 && attenuationCorrection == 0)
+    {
+        //与初始配置值不符，暂不实现todo
+        // writeReconstructionLog('No sound speed correction / no attenuation corection -> using a water temperature based sound speed map and zero attenuation map.', 1);
+    
+        // SAFT_mode = 2; % 0:(-SOS -ATT); 1:(+SOS -ATT); 2:(+SOS +ATT);
+    
+        // delta_TransMap = flags.transmissionCorrection.resolutionTransmMap;
+    
+        // minTransdPos = min(geometry.minEmitter,geometry.minReceiver);
+        // maxTransdPos =max(geometry.maxEmitter,geometry.maxReceiver);
+        // begin_TransMap = (min(flags.imageInfos.imageStartpoint',minTransdPos))' - 3*flags.transmissionCorrection.resolutionTransmMap; %elongate to cope for aperture movements
+        // end_SpeedMap = max(flags.imageInfos.imageEndpoint',maxTransdPos) + 3*flags.transmissionCorrection.resolutionTransmMap;
+        // end_SpeedMap(3) = end_SpeedMap(3) +0.025;
+        
+        // x = (begin_TransMap(1):delta_TransMap:end_SpeedMap(1))+0.5*delta_TransMap;
+        // y = (begin_TransMap(2):delta_TransMap:end_SpeedMap(2))+0.5*delta_TransMap;
+        // z = (begin_TransMap(3):delta_TransMap:end_SpeedMap(3))+0.5*delta_TransMap;
+        
+        // [XNEW, YNEW, ZNEW] = ndgrid(x,y,z);
+        
+        // try
+        //     transRecos.SpeedMap3D = reshape(temperatureToSoundSpeed(polyvaln(temp.TemperatureModel4D.p,[XNEW(:),YNEW(:), ZNEW(:), zeros(size(XNEW(:)))])),size(XNEW));
+        // catch
+        //     try 
+        //         transRecos.SpeedMap3D = zeros([length(x), length(y), length(z)]) + temp.expectedSOSWater;
+        //     catch
+        //         writeReconstructionLog('No temperature data available. Can''t create an artificial sound speed map', 4);
+        //         error([mfilename, ':noTemperatureData'],'No temperature data available. Can''t create an artificial sound speed map');
+        //     end
+        // end
+        
+        // transRecos.begin_TransMap = begin_TransMap;
+        // transRecos.delta_TransMap = delta_TransMap;
+        // transRecos.AttenuationMap3D = zeros(size(transRecos.SpeedMap3D));
+        // soundSpeedCorrection = 1; % setting sound speed correction to true for SAFT calls
+    } 
+    else if (soundSpeedCorrection > 0 && attenuationCorrection == 0)
+    {
+        result.saftMode = 1;
+        result.transRecos.attenuationMap3D = zeros(result.transRecos.speedMap3D.getDimSize(0), result.transRecos.speedMap3D.getDimSize(1), result.transRecos.speedMap3D.getDimSize(2));
+    }
+    else if (soundSpeedCorrection > 0 && attenuationCorrection > 0)
+    {
+        if (result.transRecos.attenuationMap3D.getDimSize(0) != result.transRecos.speedMap3D.getDimSize(0) ||
+            result.transRecos.attenuationMap3D.getDimSize(1) != result.transRecos.speedMap3D.getDimSize(1) ||
+            result.transRecos.attenuationMap3D.getDimSize(2) != result.transRecos.speedMap3D.getDimSize(2))
+        {
+            std::cout<<"Size of SpeedMap3D ~= Size of AttenuationMap3D."<<std::endl;
+        } 
+        result.saftMode = 2;
+    }
+    else if (soundSpeedCorrection == 0 && attenuationCorrection > 0)
+    {
+        std::cout<<"Only attenuation correction not allowed."<<std::endl;
+    }
+
+    result.soundSpeedCorrection = soundSpeedCorrection;
+    result.attenuationCorrection = attenuationCorrection;
+
+    return result;
+}                                                         

src/reflectionReconstruction/preprocessData/preprocessTransmissionReconstructionForReflection.h

@@ -0,0 +1,30 @@
+#ifndef PREPROCESS_TRANSMISSION_RECONSTRUCTION_FOR_REFLECTION
+#define PREPROCESS_TRANSMISSION_RECONSTRUCTION_FOR_REFLECTION
+
+#include "Matrix.h"
+#include "src/common/getGeometryInfo.h"
+#include "src/common/getMeasurementMetaData.h"
+
+namespace Recon
+{
+    struct TransRecos
+    {
+        Aurora::Matrix speedMap3D;
+        Aurora::Matrix attenuationMap3D;
+        Aurora::Matrix beginTransMap;
+        double deltaTransMap;
+    };
+
+    struct PreprocessReflectionData
+    {
+        TransRecos transRecos; 
+        int saftMode;
+        double attenuationCorrection;
+        double soundSpeedCorrection;
+    };
+    PreprocessReflectionData preprocessTransmissionReconstructionForReflection(const Aurora::Matrix& aSOSMap, const Aurora::Matrix& aATTMap,
+                                                             const Aurora::Matrix& aDdims, const GeometryInfo& aGeometryInfo,
+                                                             const TempInfo& aTemp);
+}
+
+#endif