packages/vtk/src/bbvtkSegmentationConnectivity.cxx

   1 /*
   2  # ---------------------------------------------------------------------
   3  #
   4  # Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
   5  #                        pour la SantÈ)
   6  # Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
   7  # Previous Authors : Laurent Guigues, Jean-Pierre Roux
   8  # CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
   9  #
  10  #  This software is governed by the CeCILL-B license under French law and
  11  #  abiding by the rules of distribution of free software. You can  use,
  12  #  modify and/ or redistribute the software under the terms of the CeCILL-B
  13  #  license as circulated by CEA, CNRS and INRIA at the following URL
  14  #  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
  15  #  or in the file LICENSE.txt.
  16  #
  17  #  As a counterpart to the access to the source code and  rights to copy,
  18  #  modify and redistribute granted by the license, users are provided only
  19  #  with a limited warranty  and the software's author,  the holder of the
  20  #  economic rights,  and the successive licensors  have only  limited
  21  #  liability.
  22  #
  23  #  The fact that you are presently reading this means that you have had
  24  #  knowledge of the CeCILL-B license and that you accept its terms.
  25  # ------------------------------------------------------------------------ */
  26
  27
  28 /*=========================================================================
  29   Program:   bbtk
  30   Module:    $RCSfile: bbvtkSegmentationConnectivity.cxx,v $
  31   Language:  C++
  32   Date:      $Date: 2012/11/16 08:51:58 $
  33   Version:   $Revision: 1.8 $
  34 =========================================================================*/
  35
  36 /**
  37  *  \file
  38  *  \brief
  39  */
  40
  41 #ifdef _USE_VTK_
  42
  43 #include "bbvtkSegmentationConnectivity.h"
  44 #include "bbvtkPackage.h"
  45
  46 #include "bbtkStaticLecture.h"
  47
  48 namespace bbvtk
  49 {
  50   BBTK_ADD_BLACK_BOX_TO_PACKAGE(vtk,SegmentationConnectivity);
  51   BBTK_BLACK_BOX_IMPLEMENTATION(SegmentationConnectivity,
  52                                 bbtk::AtomicBlackBox);
  53
  54 // --------------------------------------------------------------
  55
  56   void SegmentationConnectivity::bbUserSetDefaultValues()
  57   {
  58           thresh2       = NULL;
  59 //        cast2         = NULL;
  60           connect2      = NULL;
  61           cast4         = NULL;
  62
  63           bbSetInputIn(NULL);
  64           std::vector<int> position;
  65           position.push_back(0);
  66           position.push_back(0);
  67           position.push_back(0);
  68           bbSetInputPositionXYZ(position);
  69           std::vector<int> threshold;
  70           threshold.push_back(0);
  71           threshold.push_back(0);
  72           bbSetInputThresholdMinMax(threshold);
  73           bbSetOutputOut(NULL);
  74
  75           bbSetInputOutputFormat("SAME");
  76           bbSetInputValue(255);
  77
  78
  79   }
  80
  81 // --------------------------------------------------------------
  82
  83         void SegmentationConnectivity::bbUserInitializeProcessing()
  84         {
  85
  86                 thresh2 = vtkImageThreshold::New();
  87                         thresh2->SetInValue(255);
  88                         thresh2->SetOutputScalarTypeToUnsignedChar();
  89                 connect2 = vtkImageSeedConnectivity::New();
  90                         connect2->SetInput(thresh2->GetOutput());
  91                         connect2->SetInputConnectValue(255);
  92                         connect2->SetOutputConnectedValue( 255 );
  93                         connect2->SetOutputUnconnectedValue(0);
  94                 cast4 = vtkImageCast::New();
  95                         cast4->SetInput(connect2->GetOutput());
  96
  97 // EED 2016 06 15
  98
  99 /*
 100                 thresh2 = vtkImageThreshold::New();
 101                         thresh2->SetInValue(255);
 102                         thresh2->SetOutputScalarTypeToUnsignedShort();
 103                         thresh2->SetOutValue(0);
 104                 cast2 = vtkImageCast::New();
 105                         cast2->SetInput(thresh2->GetOutput());
 106                         cast2->SetOutputScalarTypeToUnsignedChar();
 107                 connect2 = vtkImageSeedConnectivity::New();
 108                         connect2->SetInput(cast2->GetOutput());
 109                         connect2->SetInputConnectValue(255);
 110                         connect2->SetOutputConnectedValue(255);
 111                         connect2->SetOutputUnconnectedValue(0);
 112                 cast4 = vtkImageCast::New();
 113                         cast4->SetInput(connect2->GetOutput());
 114                         cast4->SetOutputScalarTypeToUnsignedShort();
 115 */
 116
 117         }
 118
 119 // --------------------------------------------------------------
 120
 121   void SegmentationConnectivity::bbUserFinalizeProcessing()
 122   {
 123           if (thresh2!=NULL)
 124           {
 125                   thresh2->Delete();
 126                   thresh2=NULL;
 127           }
 128 //        if (cast2!=NULL)
 129 //        {
 130 //                cast2->Delete();
 131 //                cast2=NULL;
 132 //        }
 133           if (connect2!=NULL)
 134           {
 135                   connect2->Delete();
 136                   connect2=NULL;
 137           }
 138           if (cast4!=NULL)
 139           {
 140                   cast4->Delete();
 141                   cast4=NULL;
 142           }
 143   }
 144
 145
 146
 147
 148 // --------------------------------------------------------------
 149
 150   void SegmentationConnectivity::DoProcess()
 151   {
 152
 153         int x,y,z;
 154         int i,numPoints = bbGetInputPositionXYZ().size()/3;
 155         int verif = (bbGetInputPositionXYZ().size()-1) % 3;
 156         if (( numPoints>=1) && (verif==2) && (bbGetInputIn()!=NULL))
 157         {
 158                 int outputformat = bbtkStaticLecture::GetTypeFormat( bbGetInputOutputFormat() , bbGetInputIn() );
 159                 vtkImageData *imagedata = bbGetInputIn();
 160                 imagedata->UpdateInformation();
 161                 imagedata->SetUpdateExtent(imagedata->GetWholeExtent());
 162                 imagedata->Update();
 163                 thresh2->ThresholdBetween(3000, 3001);
 164                 thresh2->SetInput(imagedata);
 165                 thresh2->ThresholdBetween(bbGetInputThresholdMinMax()[0], bbGetInputThresholdMinMax()[1]);
 166                 thresh2->Modified();
 167                 thresh2->Update();
 168                 connect2->RemoveAllSeeds ();
 169
 170                 int ext[6];
 171                 imagedata->GetWholeExtent(ext);
 172                 int maxX = ext[1]-ext[0]+1;
 173                 int maxY = ext[3]-ext[2]+1;
 174                 int maxZ = ext[5]-ext[4]+1;
 175
 176                 for (i=0;i<numPoints;i++)
 177                 {
 178                         x=bbGetInputPositionXYZ()[i*3+0];
 179                         y=bbGetInputPositionXYZ()[i*3+1];
 180                         z=bbGetInputPositionXYZ()[i*3+2];
 181                         if ( (x>=0) || (x<maxX) || (y>=0) || (y<maxY) || (z>=0) || (z<maxZ) )
 182                         {
 183                                 connect2->AddSeed( x,y,z );
 184                         } else {
 185                                 printf("EED WARNNIG! In box: SegmentationConnectivity point out of range \n");
 186                         } // if point inside image
 187
 188                 } // for i
 189                 connect2->SetOutputConnectedValue( bbGetInputValue() );
 190                 cast4->SetOutputScalarType( outputformat );
 191                 connect2->Modified();
 192                 connect2->Update();
 193                 cast4->Update();
 194                 bbSetOutputOut(cast4->GetOutput() );
 195         }  else {
 196                 printf("EED WARNNIG! In box: SegmentationConnectivity List of points are not coherent. \n");
 197                 bbSetOutputOut( NULL );
 198         }// if numPoints verif
 199
 200 }
 201
 202
 203 }// EO namespace bbvtk
 204
 205 #endif //_USE_VTK_
 206
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