New functionality, obtain an 3D image vector from an image.

diff --git a/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx
new file mode 100644 (file)
index 0000000..1d8d2d4
--- /dev/null
+++ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx
@@ -0,0 +1,62 @@
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+#include "bbcreaVtkImage3DVector.h"
+#include "bbcreaVtkPackage.h"
+#include "creaVtkIma3DVector.h"
+#include "vtkImageData.h"
+
+namespace bbcreaVtk
+{
+
+BBTK_ADD_BLACK_BOX_TO_PACKAGE(creaVtk,Image3DVector)
+BBTK_BLACK_BOX_IMPLEMENTATION(Image3DVector,bbtk::AtomicBlackBox);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::Process()
+{
+
+               creaVtkIma3DVector cvtkc;
+               bbSetOutputOut( cvtkc.Ima3DVectorM ((unsigned int)bbGetInputNbImagesPerRow(), (unsigned int)bbGetInputNbImagesInMosaic(), bbGetInputIn() ) );
+  
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserSetDefaultValues()
+{
+
+               bbSetInputNbImagesPerRow(0);
+               bbSetInputNbImagesInMosaic(0);
+
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserInitializeProcessing()
+{
+
+//  THE INITIALIZATION METHOD BODY :
+//    Here does nothing 
+//    but this is where you should allocate the internal/output pointers 
+//    if any 
+
+  
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserFinalizeProcessing()
+{
+
+//  THE FINALIZATION METHOD BODY :
+//    Here does nothing 
+//    but this is where you should desallocate the internal/output pointers 
+//    if any
+  
+}
+}
+// EO namespace bbcreaVtk
+
+

diff --git a/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx~ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx~
new file mode 100644 (file)
index 0000000..8be9357
--- /dev/null
+++ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.cxx~
@@ -0,0 +1,62 @@
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+#include "bbcreaVtkImage3DVector.h"
+#include "bbcreaVtkPackage.h"
+#include "creaVtkClass.h"
+#include "vtkImageData.h"
+
+namespace bbcreaVtk
+{
+
+BBTK_ADD_BLACK_BOX_TO_PACKAGE(creaVtk,Image3DVector)
+BBTK_BLACK_BOX_IMPLEMENTATION(Image3DVector,bbtk::AtomicBlackBox);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::Process()
+{
+
+               creaVtkClass cvtkc;
+               bbSetOutputOut( cvtkc.Ima3DVectorM ((unsigned int)bbGetInputNbImagesPerRow(), (unsigned int)bbGetInputNbImagesInMosaic(), bbGetInputIn() ) );
+  
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserSetDefaultValues()
+{
+
+               bbSetInputNbImagesPerRow(0);
+               bbSetInputNbImagesInMosaic(0);
+
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserInitializeProcessing()
+{
+
+//  THE INITIALIZATION METHOD BODY :
+//    Here does nothing 
+//    but this is where you should allocate the internal/output pointers 
+//    if any 
+
+  
+}
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+void Image3DVector::bbUserFinalizeProcessing()
+{
+
+//  THE FINALIZATION METHOD BODY :
+//    Here does nothing 
+//    but this is where you should desallocate the internal/output pointers 
+//    if any
+  
+}
+}
+// EO namespace bbcreaVtk
+
+

diff --git a/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h
new file mode 100644 (file)
index 0000000..8cba6c0
--- /dev/null
+++ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h
@@ -0,0 +1,50 @@
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+#ifndef __bbcreaVtkImage3DVector_h_INCLUDED__
+#define __bbcreaVtkImage3DVector_h_INCLUDED__
+#include "bbcreaVtk_EXPORT.h"
+#include "bbtkAtomicBlackBox.h"
+#include "iostream"
+
+#include "vtkImageData.h"
+namespace bbcreaVtk
+{
+
+class bbcreaVtk_EXPORT Image3DVector
+ : 
+   public bbtk::AtomicBlackBox
+{
+  BBTK_BLACK_BOX_INTERFACE(Image3DVector,bbtk::AtomicBlackBox);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+  BBTK_DECLARE_INPUT(In,std::vector<vtkImageData*>);
+       BBTK_DECLARE_INPUT (NbImagesPerRow,int);
+  BBTK_DECLARE_INPUT (NbImagesInMosaic,int);
+  BBTK_DECLARE_OUTPUT(Out,std::vector<vtkImageData*>);
+  BBTK_PROCESS(Process);
+  void Process();
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+};
+
+BBTK_BEGIN_DESCRIBE_BLACK_BOX(Image3DVector,bbtk::AtomicBlackBox);
+BBTK_NAME("Image3DVector");
+BBTK_AUTHOR("Carlos torres");
+BBTK_DESCRIPTION("carlos.torres@insa-lyon.fr -");
+BBTK_CATEGORY("empty");
+BBTK_INPUT(Image3DVector,In,"2D image list",std::vector<vtkImageData*>,"");
+BBTK_INPUT(Image3DVector,NbImagesPerRow,"Nb of Images Per Row ",int,"");
+BBTK_INPUT(Image3DVector,NbImagesInMosaic,"Nb of Images In Mosaic ",int,"");
+BBTK_OUTPUT(Image3DVector,Out,"3D image Vector",std::vector<vtkImageData*>,"");
+BBTK_END_DESCRIBE_BLACK_BOX(Image3DVector);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+}
+// EO namespace bbcreaVtk
+
+#endif // __bbcreaVtkImage3DVector_h_INCLUDED__
+

diff --git a/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h~ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h~
new file mode 100644 (file)
index 0000000..e3fad8c
--- /dev/null
+++ b/bbtk_creaVtk_PKG/src/bbcreaVtkImage3DVector.h~
@@ -0,0 +1,49 @@
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+#ifndef __bbcreaVtkImage3DVector_h_INCLUDED__
+#define __bbcreaVtkImage3DVector_h_INCLUDED__
+#include "bbcreaVtk_EXPORT.h"
+#include "bbtkAtomicBlackBox.h"
+#include "iostream"
+
+namespace bbcreaVtk
+{
+
+class bbcreaVtk_EXPORT Image3DVector
+ : 
+   public bbtk::AtomicBlackBox
+{
+  BBTK_BLACK_BOX_INTERFACE(Image3DVector,bbtk::AtomicBlackBox);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+  BBTK_DECLARE_INPUT(In,std::vector<vtkImageData*>);
+       BBTK_DECLARE_INPUT (NbImagesPerRow,int);
+  BBTK_DECLARE_INPUT (NbImagesInMosaic,int);
+  BBTK_DECLARE_OUTPUT(Out,std::vector<vtkImageData*>);
+  BBTK_PROCESS(Process);
+  void Process();
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+};
+
+BBTK_BEGIN_DESCRIBE_BLACK_BOX(Image3DVector,bbtk::AtomicBlackBox);
+BBTK_NAME("Image3DVector");
+BBTK_AUTHOR("Carlos torres");
+BBTK_DESCRIPTION("carlos.torres@insa-lyon.fr -");
+BBTK_CATEGORY("empty");
+BBTK_INPUT(Image3DVector,In,"2D image list",std::vector<vtkImageData*>,"");
+BBTK_INPUT(Image3DVector,NbImagesPerRow,"Nb of Images Per Row ",int,"");
+BBTK_INPUT(Image3DVector,NbImagesInMosaic,"Nb of Images In Mosaic ",int,"");
+BBTK_OUTPUT(Image3DVector,Out,"3D image Vector",std::vector<vtkImageData*>,"");
+BBTK_END_DESCRIBE_BLACK_BOX(Image3DVector);
+//===== 
+// Before editing this file, make sure it's a file of your own (i.e.: it wasn't generated from xml description; if so : your modifications will be lost)
+//===== 
+}
+// EO namespace bbcreaVtk
+
+#endif // __bbcreaVtkImage3DVector_h_INCLUDED__
+

diff --git a/lib/creaVtk/creaVtkIma3DVector.cpp b/lib/creaVtk/creaVtkIma3DVector.cpp
new file mode 100644 (file)
index 0000000..339e1cc
--- /dev/null
+++ b/lib/creaVtk/creaVtkIma3DVector.cpp
@@ -0,0 +1,110 @@
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+#                        pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+#  This software is governed by the CeCILL-B license under French law and
+#  abiding by the rules of distribution of free software. You can  use,
+#  modify and/ or redistribute the software under the terms of the CeCILL-B
+#  license as circulated by CEA, CNRS and INRIA at the following URL
+#  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+#  or in the file LICENSE.txt.
+#
+#  As a counterpart to the access to the source code and  rights to copy,
+#  modify and redistribute granted by the license, users are provided only
+#  with a limited warranty  and the software's author,  the holder of the
+#  economic rights,  and the successive licensors  have only  limited
+#  liability.
+#
+#  The fact that you are presently reading this means that you have had
+#  knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#include "creaVtkIma3DVector.h"
+
+creaVtkIma3DVector::creaVtkIma3DVector()
+{
+}
+
+creaVtkIma3DVector::~creaVtkIma3DVector()
+{
+}
+
+std::vector<vtkImageData*> creaVtkIma3DVector::Ima3DVectorM (int NbImagesPerRow, int NbImagesInMosaic, std::vector<vtkImageData*> bbGetInputIn)
+{
+       int nbImagesPerRow =   NbImagesPerRow;
+       int nbImagesInMosaic = NbImagesInMosaic;        
+
+  if (nbImagesPerRow == 0 || nbImagesInMosaic == 0) {
+               std::cout << "Not possible" << std::endl; 
+       }
+
+       std::vector<vtkImageData*> imageIn = bbGetInputIn;
+
+       std::vector<vtkImageData*> mImageOut;
+       for (int i = 0 ; i < (unsigned int)imageIn.size() ; i++) {
+                       mImageOut.push_back( unMosaic(imageIn[i], NbImagesPerRow, NbImagesInMosaic) );
+       }
+
+       return mImageOut;       
+}
+
+vtkImageData * creaVtkIma3DVector::unMosaic(vtkImageData *imageIn, int nbImagesPerRow, int numberOfImagesInMosaic)
+{   
+   int inputdims[3];
+   int outputdims[3];
+   imageIn->GetDimensions (inputdims);
+   unsigned short *input = (unsigned short *)(imageIn->GetScalarPointer());
+   imageIn->Update();
+     
+   unsigned int div = (unsigned int)ceil(sqrt( (double)numberOfImagesInMosaic ) );
+   outputdims[0] = inputdims[0] / div;
+   outputdims[1] = inputdims[1] / div;
+   outputdims[2] = numberOfImagesInMosaic;
+ 
+    vtkImageData *vtkImageOut;
+    vtkImageOut = vtkImageData::New();
+    vtkImageOut->SetDimensions( outputdims );
+    vtkImageOut->SetExtent(0,outputdims[0]-1,0,outputdims[1]-1,0,outputdims[2]-1);
+    vtkImageOut->SetWholeExtent(0,outputdims[0]-1,0,outputdims[1]-1,0,outputdims[2]-1);
+    vtkImageOut->SetNumberOfScalarComponents(1);
+//vtkImageOut->SetSpacing( blabla );
+    vtkImageOut->SetScalarType( VTK_UNSIGNED_SHORT );
+    vtkImageOut->AllocateScalars();
+    vtkImageOut->Update();
+    
+    unsigned short *output =(unsigned short *)(vtkImageOut->GetScalarPointer());
+
+    unsigned short *dest = output;
+    int dimXImageElem = outputdims[0];
+    int dimYImageElem = outputdims[1];
+    int lgrImage = dimXImageElem*dimYImageElem;
+    int debImage;
+    for (int i=0; i<numberOfImagesInMosaic; i++)
+    {
+       debImage=(i/nbImagesPerRow) * lgrImage*nbImagesPerRow + (i%nbImagesPerRow)*dimXImageElem;
+       for(int j=0; j<dimYImageElem; j++)
+       {
+          memcpy(dest, input+debImage, dimXImageElem*sizeof(unsigned short));
+          debImage += dimXImageElem*nbImagesPerRow;
+          dest += dimXImageElem;
+       }
+    }
+    return  vtkImageOut;    
+}
+
+//---------------------------------------------
+//Method template
+//---------------------------------------------
+/*
+void creaVtkIma3DVector::FunctionName(int& parameterA)
+{
+  parameterA = 2 * parameterA;
+  return;
+}
+*/

diff --git a/lib/creaVtk/creaVtkIma3DVector.cpp~ b/lib/creaVtk/creaVtkIma3DVector.cpp~
new file mode 100644 (file)
index 0000000..6b00b83
--- /dev/null
+++ b/lib/creaVtk/creaVtkIma3DVector.cpp~
@@ -0,0 +1,47 @@
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+#                        pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+#  This software is governed by the CeCILL-B license under French law and
+#  abiding by the rules of distribution of free software. You can  use,
+#  modify and/ or redistribute the software under the terms of the CeCILL-B
+#  license as circulated by CEA, CNRS and INRIA at the following URL
+#  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+#  or in the file LICENSE.txt.
+#
+#  As a counterpart to the access to the source code and  rights to copy,
+#  modify and redistribute granted by the license, users are provided only
+#  with a limited warranty  and the software's author,  the holder of the
+#  economic rights,  and the successive licensors  have only  limited
+#  liability.
+#
+#  The fact that you are presently reading this means that you have had
+#  knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#include "creaVtkIma3DVector.h"
+
+creaVtkIma3DVector::creaVtkIma3DVector()
+{
+}
+
+creaVtkIma3DVector::~creaVtkIma3DVector()
+{
+}
+
+//---------------------------------------------
+//Method template
+//---------------------------------------------
+/*
+void creaVtkIma3DVector::FunctionName(int& parameterA)
+{
+  parameterA = 2 * parameterA;
+  return;
+}
+*/

diff --git a/lib/creaVtk/creaVtkIma3DVector.h b/lib/creaVtk/creaVtkIma3DVector.h
new file mode 100644 (file)
index 0000000..9fe3a14
--- /dev/null
+++ b/lib/creaVtk/creaVtkIma3DVector.h
@@ -0,0 +1,69 @@
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+#                        pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+#  This software is governed by the CeCILL-B license under French law and
+#  abiding by the rules of distribution of free software. You can  use,
+#  modify and/ or redistribute the software under the terms of the CeCILL-B
+#  license as circulated by CEA, CNRS and INRIA at the following URL
+#  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+#  or in the file LICENSE.txt.
+#
+#  As a counterpart to the access to the source code and  rights to copy,
+#  modify and redistribute granted by the license, users are provided only
+#  with a limited warranty  and the software's author,  the holder of the
+#  economic rights,  and the successive licensors  have only  limited
+#  liability.
+#
+#  The fact that you are presently reading this means that you have had
+#  knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#ifndef _CREAVTKIMA3DVECTOR_H_
+#define _CREAVTKIMA3DVECTOR_H_
+#include <vector>
+#include "iostream"
+#include "vtkImageData.h"
+
+//---------------------------------------------
+// Class Name: creaVtkIma3DVector
+// [classdescription]
+//---------------------------------------------
+
+class creaVtkIma3DVector
+{
+
+//---------------------------------------------
+//Methods and attributes exposed to other classes
+//---------------------------------------------
+public :
+  creaVtkIma3DVector();
+  ~creaVtkIma3DVector();
+       std::vector<vtkImageData*> Ima3DVectorM (int NbImagesPerRow, int NbImagesInMosaic, std::vector<vtkImageData*> bbGetInputIn);
+       vtkImageData * unMosaic(vtkImageData *imageIn, int nbImagesPerRow, int numberOfImagesInMosaic);
+
+//--Method template----------------------------
+//  void FunctionName(int& parameterA);
+
+
+//---------------------------------------------
+//Methods and attributes exposed only to classes
+//that are derived from this class
+//---------------------------------------------
+protected:
+
+//---------------------------------------------
+//Methods and attributes only visible by this class
+//---------------------------------------------
+private:
+
+};
+
+//-end of _CREAVTKIMA3DVECTOR_H_------------------------------------------------------
+#endif

diff --git a/lib/creaVtk/creaVtkIma3DVector.h~ b/lib/creaVtk/creaVtkIma3DVector.h~
new file mode 100644 (file)
index 0000000..f3692a1
--- /dev/null
+++ b/lib/creaVtk/creaVtkIma3DVector.h~
@@ -0,0 +1,64 @@
+/*
+# ---------------------------------------------------------------------
+#
+# Copyright (c) CREATIS (Centre de Recherche en Acquisition et Traitement de l'Image
+#                        pour la Sante)
+# Authors : Eduardo Davila, Frederic Cervenansky, Claire Mouton
+# Previous Authors : Laurent Guigues, Jean-Pierre Roux
+# CreaTools website : www.creatis.insa-lyon.fr/site/fr/creatools_accueil
+#
+#  This software is governed by the CeCILL-B license under French law and
+#  abiding by the rules of distribution of free software. You can  use,
+#  modify and/ or redistribute the software under the terms of the CeCILL-B
+#  license as circulated by CEA, CNRS and INRIA at the following URL
+#  http://www.cecill.info/licences/Licence_CeCILL-B_V1-en.html
+#  or in the file LICENSE.txt.
+#
+#  As a counterpart to the access to the source code and  rights to copy,
+#  modify and redistribute granted by the license, users are provided only
+#  with a limited warranty  and the software's author,  the holder of the
+#  economic rights,  and the successive licensors  have only  limited
+#  liability.
+#
+#  The fact that you are presently reading this means that you have had
+#  knowledge of the CeCILL-B license and that you accept its terms.
+# ------------------------------------------------------------------------
+*/
+
+#ifndef _CREAVTKIMA3DVECTOR_H_
+#define _CREAVTKIMA3DVECTOR_H_
+
+//---------------------------------------------
+// Class Name: creaVtkIma3DVector
+// [classdescription]
+//---------------------------------------------
+
+class creaVtkIma3DVector
+{
+
+//---------------------------------------------
+//Methods and attributes exposed to other classes
+//---------------------------------------------
+public :
+  creaVtkIma3DVector();
+  ~creaVtkIma3DVector();
+
+//--Method template----------------------------
+//  void FunctionName(int& parameterA);
+
+
+//---------------------------------------------
+//Methods and attributes exposed only to classes
+//that are derived from this class
+//---------------------------------------------
+protected:
+
+//---------------------------------------------
+//Methods and attributes only visible by this class
+//---------------------------------------------
+private:
+
+};
+
+//-end of _CREAVTKIMA3DVECTOR_H_------------------------------------------------------
+#endif