Merge branch 'T22228-PApluginIntegrationAugust2017'
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Merge branch 'T22228-PApluginIntegrationAugust2017'

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• kirchnth	Authored on Aug 8 2017, 2:00 PM
• kirchnth	Pushed on Aug 8 2017, 2:01 PM

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rMITK0e0e769c9ffb: Merge branch 'master' into T22228-PApluginIntegrationAugust2017
rMITK86900f283f09: Merge branch 'T23184-imageStatisticsLineIntegration'

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• kirchnth committed rMITK5d60f8a4bd6f: Merge branch 'T22228-PApluginIntegrationAugust2017' (authored by • kirchnth).Aug 8 2017, 2:00 PM

Merged Changes

This commit merges a very large number of changes. Only the first 50 are shown.

0e0e769c9ffb Merge branch 'master' into T22228-PApluginIntegrationAugust2017
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fd5c331b9f33 added re-sampling after "stupidBmode" and minor stuff
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3d9d31aa797f #grammarNazi
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491827c048b3 fixed errors introduced in first T23183 "fix" and made debugging more verbose…
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e28eba5f5e5f removed unused variables, compared between similar types and other minor…
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539365048b64 removed unused variables
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0fb9c231f49a Merge branch 'T22228-PAplugin' into T22228-PApluginIntegrationAugust2017
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fde279b73146 - fixed conversion warnings
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• sattler
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da63fa7561c1 fixes for open CL issues in here Merge branch 'master' into T22228…
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50d54df299ce - you can select which steps of batch processing to do and when to save now
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c21b8a20fbbe - wrote simple batch processing
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a97ef1f21d22 - now the beamforming is independent from the kind of PA image fed. simplified…
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31bd0b524c46 -Added a simple Abs BmodeFilter -Made a correction for CPU USImage Beamforming
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2cb8edc5bc84 Merge branch 'T22228-PAplugin' into T22228-PApluginIntegrationAugust2017
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7908053a44b2 new svg icon for the pa plugin
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3fc2ea1f279a better default values for tukey window and beamforming
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94d294e7bb2f cutoff upper is now set (but actually we dont need it)
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e399534cec07 set different default/min-max values in gui
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839491af0b15 tidied up the gui of the PAip plugin
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7594d7238d58 -fixed issue with US image not correctly calculated, only GPU, needs to be…
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0129696d3504 - fixed the fft crashing issue by resampling the image to a power of two before…
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9c26749f195e - the beamforming automatically crops images to 4096 samples, as higher samples…
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42903cb1e758 - simplified lots of code - reimplemented the tukey window instead of the…
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89d351f80a9c - fixed resampling error in BMode Filter - added a bandpass filter GUI element…
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cba075480a24 -fixed an error with chunk-wise beamforming -Rewrote the Cropping Filter, made…
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253fe408434e - added choice of GPU/CPU computing - made GPU compte the image in chunks of 40…
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52cede56a75f - cleaned up opencl scripts - set up a filter for cropping - gpu-computing is…
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91e68d0171d9 Fixed a few errors, added a class to handle a second GPU calculation DMAS could…
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70d437dad981 The DAS Algorithms work on GPU. The DMAS Algorithms need to be rewritten, as it…
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44bb0bd768d2 -Spherical DAS works on GPU
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03cf2a9368f5 -Set up almost everything for GPU calculations. only thing left to do: write…
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f2c3d3660856 -greatly simplified code by merging the seperate beamformer classes -setup some…
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8ccb2392f6b6 -deleted unnecessary linear delay
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f17c87b33fdf T22228 - bug fixes and gui improvements
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5f3ec9eafe3d T22228 -fixed a small bug with the BP -found out the white stripes on bottom of…
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8006c7d14d02 T22228 -cleaned up some code, added some comments...
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738fa96fe107 Signed-off-by: Franz Sattler <sattler@ad.dkfz-heidelberg.de>
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fbac63114e7a T22228
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9cc9a2cb8229 T22228 -just fixed a small normalization error
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722258e18460 T22228 -moved a bracket
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63cfbeb3ee6e T22228 -small bugfix -big bugfix (forgot a factor in plane wave reconstruction)
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6480d76ffb6b T22228 - both bmode image processing and beamforming work now in seperate…
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079151fcfab9 T22228 -setup things to move the Beamforming into a seperate QThread
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cd8634df80e7 T22228 -Changed lots of stuff in the GUI
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fb791b57d2fd T22228 -Bandpass should be stable, all configurations that could crash it are…
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d80fed06749a T22228 -added ability to choose between von Hann, Hamming, and Box apodization
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d53d932a2196 improved usability
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94f3fa8b442a fixing some includes ... to make it work on linux as well
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9e5e96a91a7f T22228 -fixed cropping issues by writing a new crop filter...
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fc879f361474 T22228 -progress bar fix for not stalling
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Changes (186)
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Packages

CMake/

BuildConfigurations/

camiPhotoacousticsSetup.cmake

O1: MITK Reviewer Group I

Modules/

IGT/

Common/

mitkSerialCommunication.cpp

mitkSerialCommunication.h

ModuleList.cmake

OpenCL/

mitkOclImage.cpp

mitkOclImageToImageFilter.cpp

mitkOclImageToImageFilter.h

mitkOclUtils.cpp

PhotoacousticsAlgorithms

itkAnalyticSignalImageFilter.h

itkAnalyticSignalImageFilter.hxx

itkBModeImageFilter.h

itkBModeImageFilter.hxx

itkCurvilinearArraySpecialCoordinatesImage.h

itkCurvilinearArraySpecialCoordinatesImage.hxx

itkFFT1DComplexConjugateToRealImageFilter.h

itkFFT1DComplexConjugateToRealImageFilter.hxx

itkFFT1DComplexToComplexImageFilter.h

itkFFT1DComplexToComplexImageFilter.hxx

itkFFT1DRealToComplexConjugateImageFilter.h

itkFFT1DRealToComplexConjugateImageFilter.hxx

itkRegionFromReferenceImageFilter.h

itkRegionFromReferenceImageFilter.hxx

itkSpectra1DImageFilter.h

itkSpectra1DImageFilter.hxx

itkSpectra1DSupportWindowImageFilter.h

itkSpectra1DSupportWindowImageFilter.hxx

itkSpectra1DSupportWindowToMaskImageFilter.h

itkSpectra1DSupportWindowToMaskImageFilter.hxx

itkTimeGainCompensationImageFilter.h

itkTimeGainCompensationImageFilter.hxx

itkVnlFFT1DComplexConjugateToRealImageFilter.h

itkVnlFFT1DComplexConjugateToRealImageFilter.hxx

itkVnlFFT1DComplexToComplexImageFilter.h

itkVnlFFT1DComplexToComplexImageFilter.hxx

itkVnlFFT1DRealToComplexConjugateImageFilter.h

itkVnlFFT1DRealToComplexConjugateImageFilter.hxx

OCL

mitkPhotoacousticBModeFilter.cpp

mitkPhotoacousticBModeFilter.h

mitkPhotoacousticOCLBeamformer.cpp

mitkPhotoacousticOCLBeamformer.h

itkPhotoacousticBModeImageFilter.h

itkPhotoacousticBModeImageFilter.hxx

mitkPhotoacousticBeamformingFilter.cpp

mitkPhotoacousticBeamformingFilter.h

mitkPhotoacousticImage.cpp

mitkPhotoacousticImage.h

PhotoacousticsHardware

OpotekPhocusMobile.xml

STUNE.dmc

configFastTuneOPO.dmc

configSlowTuneOPO.dmc

executeFastTuneOPO.dmc

executeSlowTuneOPO.dmc

fastTuneOPO.dmc

fastTuneOPO700to900.dmc

homeOPO.dmc

opotekPhocusMobileDkfz160907.ini

US/

USControlInterfaces/

mitkUSDiPhASDeviceCustomControls.cpp

mitkUSDiPhASDeviceCustomControls.h

itkAnalyticSignalImageFilter.h

itkAnalyticSignalImageFilter.hxx

itkBModeImageFilter.h

itkBModeImageFilter.hxx

itkFFT1DComplexToComplexImageFilter.h

itkFFT1DComplexToComplexImageFilter.hxx

itkFFT1DRealToComplexConjugateImageFilter.h

itkFFT1DRealToComplexConjugateImageFilter.hxx

itkRegionFromReferenceImageFilter.h

itkRegionFromReferenceImageFilter.hxx

itkVnlFFT1DComplexConjugateToRealImageFilter.h

itkVnlFFT1DComplexConjugateToRealImageFilter.hxx

itkVnlFFT1DComplexToComplexImageFilter.h

itkVnlFFT1DComplexToComplexImageFilter.hxx

itkVnlFFT1DRealToComplexConjugateImageFilter.h

itkVnlFFT1DRealToComplexConjugateImageFilter.hxx

files.cmake

mitkUSDiPhASActivator.cpp

mitkUSDiPhASActivator.h

mitkUSDiPhASBModeImageFilter.h

mitkUSDiPhASBModeImageFilter.hxx

mitkUSDiPhASCustomControls.cpp

mitkUSDiPhASCustomControls.h

mitkUSDiPhASDevice.cpp

mitkUSDiPhASDevice.h

mitkUSDiPhASImageSource.cpp

mitkUSDiPhASImageSource.h

mitkUSDiPhASProbe.cpp

mitkUSDiPhASProbe.h

mitkUSDiPhASProbesControls.cpp

mitkUSDiPhASProbesControls.h

USModel/

USUI/

Qmitk/

QmitkUSControlsCustomDiPhASDeviceWidget.cpp

QmitkUSControlsCustomDiPhASDeviceWidget.h

QmitkUSControlsCustomDiPhASDeviceWidget.ui

QmitkUSControlsCustomDiPhASDeviceWidget.ui.autosave

files.cmake

mitkUSUIActivator.cpp

mitkUSUIActivator.h

Plugins/

PluginList.cmake

org.mitk.gui.qt.imagenavigator/

src/

internal/

QmitkImageNavigatorViewControls.ui

O1: MITK Reviewer Group I

org.mitk.gui.qt.lasercontrol

manifest_headers.cmake

QmitkLaserControl.cpp

QmitkLaserControl.h

QmitkLaserControlControls.ui

mitkLaserControlPluginActivator.cpp

mitkLaserControlPluginActivator.h

org.mitk.gui.qt.photoacoustics.imageprocessing

manifest_headers.cmake

plugin.xml

resources

pai.svg

photoacousticsIcon.png

src

internal

PAImageProcessing.cpp

PAImageProcessing.h

PAImageProcessingControls.ui

org_mitk_gui_qt_photoacoustics_imageprocessing_Activator.cpp

org_mitk_gui_qt_photoacoustics_imageprocessing_Activator.h

org.mitk.gui.qt.ultrasound/

CMakeLists.txt

src/

internal/

UltrasoundSupport.cpp

UltrasoundSupport.h

UltrasoundSupportControls.ui

rMITK5d60f8a4bd6f

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CMake/BuildConfigurations/camiPhotoacousticsSetup.cmake

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Modules/IGT/Common/mitkSerialCommunication.cpp

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Modules/IGT/Common/mitkSerialCommunication.h

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Modules/ModuleList.cmake

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Modules/OpenCL/mitkOclImage.cpp

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Modules/OpenCL/mitkOclImageToImageFilter.cpp

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Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/LICENSE

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Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/README.rst

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Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkAnalyticSignalImageFilter.h

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Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkTimeGainCompensationImageFilter.h

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Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DRealToComplexConjugateImageFilter.h

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Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticBModeFilter.cpp

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Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticBModeFilter.h

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Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticOCLBeamformer.cpp

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Modules/PhotoacousticsAlgorithms/mitkPhotoacousticImage.cpp

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Modules/PhotoacousticsHardware/OphirCppWrapper/ConsoleExample.cpp

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Modules/PhotoacousticsHardware/OphirCppWrapper/OphirPyroWrapper.cpp

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Merge branch 'T22228-PApluginIntegrationAugust2017'5d60f8a4bd6fActions

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rMITK5d60f8a4bd6f

CMake/BuildConfigurations/camiPhotoacousticsSetup.cmake

Modules/IGT/Common/mitkSerialCommunication.cpp

Modules/IGT/Common/mitkSerialCommunication.h

Modules/ModuleList.cmake

Modules/OpenCL/mitkOclImage.cpp

Modules/OpenCL/mitkOclImageToImageFilter.cpp

Modules/OpenCL/mitkOclImageToImageFilter.h

Modules/OpenCL/mitkOclUtils.cpp

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/LICENSE

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/README.rst

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkAnalyticSignalImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkAnalyticSignalImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkBModeImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkBModeImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkCurvilinearArraySpecialCoordinatesImage.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkCurvilinearArraySpecialCoordinatesImage.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DComplexConjugateToRealImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DComplexConjugateToRealImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DComplexToComplexImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DComplexToComplexImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DRealToComplexConjugateImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkFFT1DRealToComplexConjugateImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkRegionFromReferenceImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkRegionFromReferenceImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DSupportWindowImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DSupportWindowImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DSupportWindowToMaskImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkSpectra1DSupportWindowToMaskImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkTimeGainCompensationImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkTimeGainCompensationImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DComplexConjugateToRealImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DComplexConjugateToRealImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DComplexToComplexImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DComplexToComplexImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DRealToComplexConjugateImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/ITKUltrasound/itkVnlFFT1DRealToComplexConjugateImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticBModeFilter.cpp

Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticBModeFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticOCLBeamformer.cpp

Modules/PhotoacousticsAlgorithms/Algorithms/OCL/mitkPhotoacousticOCLBeamformer.h

Modules/PhotoacousticsAlgorithms/Algorithms/itkPhotoacousticBModeImageFilter.h

Modules/PhotoacousticsAlgorithms/Algorithms/itkPhotoacousticBModeImageFilter.hxx

Modules/PhotoacousticsAlgorithms/Algorithms/mitkPhotoacousticBeamformingFilter.cpp

Modules/PhotoacousticsAlgorithms/Algorithms/mitkPhotoacousticBeamformingFilter.h

Modules/PhotoacousticsAlgorithms/CMakeLists.txt

Modules/PhotoacousticsAlgorithms/Resources/BModeAbs.cl

Modules/PhotoacousticsAlgorithms/Resources/BModeAbsLog.cl

Modules/PhotoacousticsAlgorithms/Resources/DASQuadratic.cl

Modules/PhotoacousticsAlgorithms/Resources/DASspherical.cl

Modules/PhotoacousticsAlgorithms/Resources/DMASQuadratic.cl

Modules/PhotoacousticsAlgorithms/Resources/DMASspherical.cl

Modules/PhotoacousticsAlgorithms/files.cmake

Modules/PhotoacousticsAlgorithms/mitkPhotoacousticImage.cpp

Modules/PhotoacousticsAlgorithms/mitkPhotoacousticImage.h

Modules/PhotoacousticsHardware/CMakeLists.txt

Modules/PhotoacousticsHardware/OphirCppWrapper/ConsoleExample.cpp

Modules/PhotoacousticsHardware/OphirCppWrapper/OphirPyroWrapper.cpp

Modules/PhotoacousticsHardware/OphirCppWrapper/OphirPyroWrapper.h

Modules/PhotoacousticsHardware/OphirCppWrapper/readme.txt

Modules/PhotoacousticsHardware/Resources/FTUNE.dmc

Modules/PhotoacousticsHardware/Resources/GHOME.dmc

Modules/PhotoacousticsHardware/Resources/OpotekPhocusMobile.xml

Modules/PhotoacousticsHardware/Resources/STUNE.dmc

Modules/PhotoacousticsHardware/Resources/configFastTuneOPO.dmc

Modules/PhotoacousticsHardware/Resources/configSlowTuneOPO.dmc

Modules/PhotoacousticsHardware/Resources/executeFastTuneOPO.dmc

Modules/PhotoacousticsHardware/Resources/executeSlowTuneOPO.dmc

Modules/PhotoacousticsHardware/Resources/fastTuneOPO.dmc

Modules/PhotoacousticsHardware/Resources/fastTuneOPO700to900.dmc

Modules/PhotoacousticsHardware/Resources/homeOPO.dmc

Merge branch 'T22228-PApluginIntegrationAugust2017'
5d60f8a4bd6f
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