#include <creaImageIOGimmickView.h>
#include <creaImageIOSystem.h>
-
#include "boost/filesystem.hpp"
-namespace fs = boost::filesystem;
+#if defined(USE_GDCM)
+#include <gdcmGlobal.h>
+#include <gdcmSerieHelper.h>
+#include <vtkGdcmReader.h>
+#endif
+
+#if defined(USE_GDCM2)
+#include <vtkGDCMImageReader.h>
+#endif
+
+namespace fs = boost::filesystem;
namespace creaImageIO
{
+
+ ///Class used to represent the actual state of the image selected and to perform comparisons on its values
+ class ImageExtent
+ {
+ public:
+ ImageExtent(const std::string& x, const std::string& y, const std::string& z, const std::string& t)
+ {
+ sscanf(x.c_str(),"%d",&mExtent[0]);
+ sscanf(y.c_str(),"%d",&mExtent[1]);
+ sscanf(z.c_str(),"%d",&mExtent[2]);
+ sscanf(t.c_str(),"%d",&mExtent[3]);
+ if(x==""){mExtent[0]=1;}
+ if(y==""){mExtent[1]=1;}
+ if(z==""){mExtent[2]=1;}
+ if(t==""){mExtent[3]=1;}
+
+ if (mExtent[3]>1) mDim=4;
+ else if (mExtent[2]>1) mDim=3;
+ else if (mExtent[1]>1) mDim=2;
+ else if (mExtent[0]>1) mDim=1;
+ else mDim=0;
+ }
+
+
+ ///Clears the extent
+ void Clear() { mExtent[0] = mExtent[1] = mExtent[2] = mExtent[3] = 1; }
+
+ ///Returns true if the two extents are compatible
+ bool IsCompatible( const ImageExtent& );
+
+ ///Adds the extent passed as a parameter to the current extent
+ void Add ( const ImageExtent& );
+
+ ///Returns the ieth position of the extent
+ int Get(int i) { return mExtent[i]; }
+
+ ///Returns the dimension of the current image
+ void SetDimension(int dim) { mDim=dim; }
+
+ ///Returns the dimension of the current image
+ int GetDimension() { return mDim; }
+
+ private:
+ int mExtent[4];
+ int mDim;
+ };
+
+ //======================================================================
+
//======================================================================
// CTor
- GimmickView::GimmickView(Gimmick* gimmick, int threads)
+ GimmickView::GimmickView(boost::shared_ptr<Gimmick> gimmick, int threads)
: mGimmick(gimmick),
mReader(threads)
{
GimmickDebugMessage(1,"GimmickView::GimmickView"
<<std::endl);
- // Start the threads ...
- mReader.Start();
+ // Anciently started the threads ...
+ // Threads now automatically start at first image request
+ //mReader.Start();
}
//======================================================================
///
void GimmickView::Initialize()
{
+ mReaderStarted=false;
}
//======================================================================
-
+
//======================================================================
/// Finalize
void GimmickView::Finalize()
this->CreateTreeView(i->second);
}
}
+
+ /// Create a tree view with a given name
+ void GimmickView::CreateSingleTreeView(std::string &i_name)
+ {
+ this->CreateTreeView(mGimmick->GetTreeHandlerMap()[i_name]);
+
+ }
+
+
//======================================================================
//======================================================================
GimmickError("INTERNAL ERROR : GimmickView::UpdateTreeView : '"
<<t<<"' is not in TreeViewMap");
}
- i->second->UpdateLevel(l);
+ i->second->UpdateLevel(l);
+ }
+
+ //======================================================================
+ /// Clears the status and begins a new selection process
+ void GimmickView::ResetExtent()
+ {
+ if(mImageExtent!=0)
+ {
+ mImageExtent.reset();
+ }
+ valid=true;
+ }
+
+ //======================================================================
+
+ //======================================================================
+ bool ImageExtent::IsCompatible(const ImageExtent& ie)
+ {
+ bool compatible=true;
+ ImageExtent * extent= (ImageExtent*)&ie;
+ if((*extent).Get(0)!=Get(0)
+ || (*extent).Get(1)!=Get(1))
+ {
+ compatible=false;
+ }
+ return compatible;
+ }
+
+ //======================================================================
+
+ //======================================================================
+ void ImageExtent::Add(const ImageExtent& ie)
+ {
+ ImageExtent * extent= (ImageExtent*)&ie;
+ mExtent[2]+=(*extent).Get(2);
+ if(mExtent[2]>1)
+ {
+ SetDimension(3);
+ }
+ }
+
+ //======================================================================
+ /// No selected image
+ bool GimmickView::NoValidateSelected ()
+ {
+ GimmickDebugMessage(2,"Validating selected"<<std::endl);
+ std::string mMessage;
+ mMessage="Cannot have 0 images selected!";
+ valid=false;
+ modifyValidationSignal(valid);
+ SetMessage(mMessage);
+ return valid;
}
+
//======================================================================
///Validates the dimension compliance of the images with the maximum and
///minimum given, and between their sizes
- bool GimmickView::ValidateSelected (std::vector<tree::Node*>& sel, int min_dim, int max_dim)
+ bool GimmickView::ValidateSelected (tree::Node* sel, int min_dim, int max_dim)
{
- GimmickMessage(2,"Validating selected"<<std::endl);
- bool valid=true;
- int level;
+ GimmickDebugMessage(2,"Validating selected"<<std::endl);
std::string mMessage;
- if(sel.size()>0)
+
+ if(sel==0)
{
- std::vector<tree::Node*>::iterator i;
- std::string row;
- std::string col;
- std::string plane;
-
- //Validation between image sizes
- for (i=sel.begin(); i!=sel.end() && valid; ++i)
+ mMessage="Cannot have 0 images selected!";
+ valid=false;
+ }
+ else
+ {
+ boost::shared_ptr<ImageExtent> ie=boost::shared_ptr<ImageExtent>(new ImageExtent((*sel).GetAttribute("D0028_0010"),
+ (*sel).GetAttribute("D0028_0011"),
+ (*sel).GetAttribute("D0028_0012"),
+ ""));
+ if(mImageExtent==0)
+ {
+ mImageExtent=ie;
+ if((mImageExtent->Get(min_dim-1)<2)||(mImageExtent->Get(max_dim)>1))
+ {
+ valid=false;
+ }
+ else
+ {
+ std::stringstream out;
+ out << mImageExtent->GetDimension() << "D image " << mImageExtent->Get(0) << "x"<< mImageExtent->Get(1) << "x"<< mImageExtent->Get(2) <<" selected";
+ mMessage = out.str();
+ mImageExtent->SetDimension(2);
+ valid=true;
+ }
+ }
+ else
+ {
+ if(mImageExtent->IsCompatible(*ie))
{
- if(i==sel.begin())
+ if(mImageExtent->GetDimension()==max_dim && mImageExtent->Get(max_dim)>2)
{
- row=(*i)->GetAttribute("D0028_0010");
- col=(*i)->GetAttribute("D0028_0011");
- plane=(*i)->GetAttribute("D0028_0012");
- level=(*i)->GetLevel();
-
+ std::stringstream out;
+ out<<"Cannot add this image to selection : would result in a "<<mImageExtent->GetDimension()+1<<"D image!";
+ mMessage=out.str();
+ valid=false;
+ }
+ else if(max_dim<3)
+ {
+ std::stringstream out;
+ out<<"Selecting "<<mImageExtent->GetDimension()<<"D images is not allowed !";
+ mMessage=out.str();
+ valid=false;
+ }
+ else if(min_dim==3 && (ie->Get(2)+mImageExtent->Get(2))<2)
+ {
+ std::stringstream out;
+ out << "Cannot build the selection as it would result in a ";
+ out << mImageExtent->GetDimension();
+ out << "D image, and the minimum is ";
+ out << min_dim;
+ out << "D!";
+ mMessage=out.str();
+ valid=false;
}
else
{
- if(((*i)->GetAttribute("D0028_0010"))!=row ||
- ((*i)->GetAttribute("D0028_0011"))!=col ||
- ((*i)->GetAttribute("D0028_0012"))!=plane)
- {
- mMessage="The selected images are not compatible.";
- valid=false;
- }
+ mImageExtent->Add(*ie);
+ std::stringstream out;
+ out << mImageExtent->GetDimension() << "D image " << mImageExtent->Get(0) << "x"<< mImageExtent->Get(1) << "x"<< mImageExtent->Get(2) <<" selected";
+ mMessage = out.str();
}
}
-
- //Dimention validation
- //Compatibility with maximum and minimum
- if(valid)
- {
-
- int rows;
- int cols;
- int planes;
- std::string s;
- std::istringstream t(s);
- s=row;
- t >> rows;
- if(row==""){rows=1;}
- s=col;
- t >> cols;
- if(col==""){cols=1;}
- s=plane;
- t >> planes;
- if(plane==""){planes=1;}
-
- int dim = 0;
- if (planes>1) dim=3;
- else if (cols>1) dim=2;
- else if (rows>1) dim=1;
-
- if (dim == 0)
- {
- mMessage="Unknown image dimension : cannot select !";
- valid= false;
- }
- else if (dim>max_dim)
- {
- mMessage="Selecting ";
- mMessage+=dim;
- mMessage+="D images is not allowed !";
- valid= false;
- }
- if ( dim == max_dim )
- {
- mMessage="Cannot add this image to selection : would result in a ";
- mMessage+=(dim+1);
- mMessage+="D image!";
-
- valid= false;
- }
- if ( dim < min_dim && sel.size()<2 )
- {
- GimmickDebugMessage(2, "State Check: Dim: "
- <<dim
- <<" Dim min:"
- <<min_dim
- <<std::endl);
- mMessage="Cannot build the selection as it would result in a ";
- mMessage+=dim;
- mMessage+="D image, and the minimum is ";
- mMessage+=min_dim;
- mMessage+="D!";
- valid= false;
- }
- }
+ else
+ {
+ mMessage="The selected images are not compatible.";
+ valid=false;
+ }
}
- else
- {
- mMessage="Cannot have 0 images selected";
- valid=false;
}
- if(valid)
- {
- mMessage="Selection OK !";
- }
- mValidationSignal(valid);
+
+ modifyValidationSignal(valid);
SetMessage(mMessage);
return valid;
}
- //======================================================================
+ //======================================================================
+ void GimmickView::modifyValidationSignal(bool ivalid)
+ {
+ mValidationSignal(ivalid);
+ }
//======================================================================
///Reads Images (Non Threaded)
- void GimmickView::ReadImagesNotThreaded(std::vector<vtkImageData*>& s,std::vector<tree::Node*> im, int dimension)
- {
-
+void GimmickView::ReadImagesNotThreaded(std::vector<vtkImageData*>& s, std::vector<std::string> im, int dimension)
+{
+ mReader.Stop();
+/* remember!
+
+#define GIMMICK_NO_IMAGE_SELECTION 0
+#define GIMMICK_2D_IMAGE_SELECTION 2
+#define GIMMICK_3D_IMAGE_SELECTION 3
+#define GIMMICK_4D_IMAGE_SELECTION 4
+
+#define NATIVE 0
+#define _2D 2
+#define _3D 3
+
+*/
// Create the output data
if (im.size()==1)
- {
-
+ {
+ vtkImageData * out=vtkImageData::New();
+ out->ShallowCopy(mReader.GetImage(im.front()));
+ s.push_back(out);
+ }
+ else if (im.size()>1) // Test inutile ? JPR
+ {
+ vtkImageData* first = mReader.GetImage( im.front());
+ if (dimension == 2)
+ {
+ // n3D
+ std::vector<std::string>::iterator it;
+ for (it=im.begin(); it!=im.end(); ++it)
+ {
+ vtkImageData* out = vtkImageData::New();
+ out->ShallowCopy(mReader.GetImage(*it));
+ s.push_back(out);
+ }
+ }
+ else
+ {
+ // n*2D to 3D
+ vtkImageData* out = vtkImageData::New();
+// out->CopyStructure(first);
+ out->SetScalarType(first->GetScalarType());
+ out->SetNumberOfScalarComponents(first->GetNumberOfScalarComponents());
+ int ext[6];
+ //first->GetExtent(ext); // JPR
+ first->GetWholeExtent(ext); // renvoie egalement 0,0 en Z // JPR
+
+ if(ext[5] == 0)
+ {
+ ext[5] = im.size()-1;
+ }
+ else
+ {
+ ext[5] = ext[5] * im.size()-1; // to deal with multiframes - JPR
+ }
+ out->SetExtent(ext);
+
+ // LG : TODO : Z Spacing ?
+
+ int dim[3];
+ first->GetDimensions(dim);
+
+ out->SetDimensions(dim[0], dim[1], im.size() );
+ out->AllocateScalars();
+ out->Update();
+
+ unsigned long imsize = dim[0] * dim[1];
+ imsize = imsize * dim[2] ; // deal with multiframes // JPR
+
+
+//EED 03-11-2009
+ // differents formats char , short, etc...
+ // differents components 1..3 ex. jpg ->RGB 3
+ imsize = imsize * first->GetScalarSize() * first->GetNumberOfScalarComponents();
+
+
+ // Order the file name vector
+
+ double spc[3];
+ first->GetSpacing(spc);
+ spc[2]=OrderTheFileNameVector(im);
+
+ out->SetSpacing(spc);
+
+ int slice = 0;
+ std::vector<std::string>::iterator it;
+
+ for (it=im.begin(); it!=im.end(); ++it)
+ {
+ vtkImageData* cur = mReader.GetImage( (*it) );
+ memcpy(out->GetScalarPointer(0,0,slice), cur->GetScalarPointer(0,0,0), imsize);
+ slice++;
+ }
+ s.push_back(out);
+
+ } // dimension == 3
+
+ } // size >1
+
+}
+ //======================================================================
+
+#if defined(USE_GDCM)
+ double GimmickView::OrderTheFileNameVector(std::vector<std::string> &im)
+{
+ double spacing=1;
+ typedef std::vector<GDCM_NAME_SPACE::File* > FileList;
+ FileList fileVector;
+ //GDCM_NAME_SPACE::File *f = GDCM_NAME_SPACE::File::New();
+ GDCM_NAME_SPACE::SerieHelper *sh = GDCM_NAME_SPACE::SerieHelper::New();
+ std::vector<std::string> lstAux;
+ std::vector<std::string>::iterator it;
+ for (it=im.begin(); it!=im.end(); ++it)
+ {
+ ///\TODO liberer les GDCM_NAME_SPACE::File a la fin! // JPR
+ GDCM_NAME_SPACE::File *f = GDCM_NAME_SPACE::File::New();
+ f->SetFileName(*it);
+ f->Load();
+ if (f->IsReadable())
+ {
+ fileVector.push_back(f);
+ } else {
+ lstAux.push_back(*it);
+ }
+ } // for
+
+
+ if ((fileVector.size()>1) && (sh->IsCoherent( &fileVector )))
+ {
+ sh->OrderFileList(&fileVector);
+ spacing= sh->GetZSpacing();
+ im.clear();
+ int i;
+ for (i=0; i<fileVector.size(); i++)
+ {
+ im.push_back( (fileVector[i])->GetFileName() );
+ }
+ for (i=0; i<lstAux.size(); i++)
+ {
+ im.push_back( lstAux[i] );
+ }
+ }else {
+ std::sort( im.begin(), im.end() );
+ }
+
+ return spacing;
+}
+
+
+#endif
+
+#if defined(USE_GDCM2)
+ // TO DO
+ double GimmickView::OrderTheFileNameVector(std::vector<std::string> &im)
+ {
+ return 1;
+ }
+#endif
+//======================================================================
+
+
+void GimmickView::ReadImagesNotThreadedInVector(std::vector<vtkImageData*>& s, std::vector<std::string> im, int dimension)
+{
+ // Create the output data
+ if (im.size()==1)
+ {
// Only one image : give it
vtkImageData* out = vtkImageData::New();
- GimmickMessage(1, "State Check: Full Filename: "
- <<im.front()->GetAttribute("FullFileName")
+ GimmickDebugMessage(3, "State Check: Full Filename: "
+ <<im.front()
<<std::endl);
- out->ShallowCopy(mReader.GetImage(im.front()->GetAttribute("FullFileName")));
+ out->ShallowCopy(mReader.GetImage(im.front()));
s.push_back( out );
- }
-
- else if (im.size()>1)
- {
- vtkImageData* first = mReader.GetImage( im.front()->GetAttribute("FullFileName"));
- if (dimension==2)
- {
- // n2D to 3D
- vtkImageData* out = vtkImageData::New();
- out->CopyStructure(first);
- out->SetScalarType(first->GetScalarType());
- int ext[6];
- first->GetExtent(ext);
- ext[5] = im.size();
- out->SetExtent(ext);
- // LG : TODO : Z Spacing ?
-
- out->AllocateScalars();
-
- //first->Print(std::cout);
- // out->Print(std::cout);
-
- int dim[3];
- first->GetDimensions(dim);
- unsigned long imsize =
- ( (unsigned long)first->GetScalarPointer(0,1,0)
- - (unsigned long)first->GetScalarPointer(0,0,0))
- *dim[1];
-
- int slice = 0;
- std::vector<tree::Node*>::iterator it;
- for (it=im.begin(); it!=im.end(); ++it)
- {
- //std::cout << "copying slice "<<slice <<std::endl;
- vtkImageData* cur = mReader.GetImage( (*it)->GetAttribute("FullFileName"));
-
- void* src = cur->GetScalarPointer(0,0,0);
- void* dst = out->GetScalarPointer(0,0,slice);
- // std::cout << "src="<<src<<std::endl;
- // std::cout << "dst="<<dst<<std::endl;
- // std::cout << "siz="<<imsize<<std::endl;
- memcpy(dst,src,imsize);
-
- slice++;
- }
- s.push_back(out);
- }
- else
- {
- // n3D
- std::vector<tree::Node*>::iterator it;
- for (it=im.begin(); it!=im.end(); ++it)
- {
- vtkImageData* out = vtkImageData::New();
- out->ShallowCopy(mReader.GetImage((*it)->GetAttribute("FullFileName")));
- s.push_back(out);
- }
- }
- }
-
- }
+ }
+ else if (im.size()>1) // Test inutile ? JPR
+ {
+ vtkImageData* first = mReader.GetImage( im.front());
+ if (dimension == 2)
+ {
+ // n3D
+ std::vector<std::string>::iterator it;
+ for (it=im.begin(); it!=im.end(); ++it)
+ {
+ vtkImageData* out = vtkImageData::New();
+ out->ShallowCopy(mReader.GetImage(*it));
+ s.push_back(out);
+ }
+ }
+ else
+ {
+ // n2D to 3D // NO!
+ // n *2D + T in a vector :
+
+ std::vector<std::string>::iterator it;
+ for (it=im.begin(); it!=im.end(); ++it)
+ {
+ vtkImageData* out = mReader.GetImage( (*it));
+ s.push_back(out);
+ }
+ }
+ }
+}
//======================================================================
//======================================================================
///Requests the reading of an image
void GimmickView::RequestReading(tree::Node* n,
- int prio, int selection_index)
+ int prio, int selection_index, boost::shared_ptr<ImagePointerHolder> p)
{
- ImageEventType t(n,0,selection_index);
+ if(!mReaderStarted)
+ {
+ mReader.Start();
+ mReaderStarted=true;
+ }
+ ImageEventType t(n,selection_index);
+ t.pointerHolder = p;
mImageEventMap[n->GetAttribute("FullFileName")] = t;
mReader.Request(this,n->GetAttribute("FullFileName"),prio);
}
"MultiThreadImageReader event : "<<e<<std::endl);
if (e==ImageLoaded)
{
- if (filename.size()==0)
- {
- GimmickDebugMessage(5,
- "Pushing unknown image in queue"
- <<std::endl);
- mImageEventQueue.push_back(ImageEventType(image));
- return;
- }
- ImageEventTypeMap::iterator i;
- i = mImageEventMap.find(filename);
- if (i!=mImageEventMap.end())
- {
- GimmickDebugMessage(5,
- "Pushing image of file '"<<filename<<"' in queue"
- <<std::endl);
- ImageEventType e(i->second);
- e.image = image;
- mImageEventQueue.push_back(e);
- mImageEventMap.erase(i);
- }
+ if (filename.size()==0)
+ {
+ //What to do in this case?
+ /*
+ GimmickDebugMessage(5,
+ "Pushing unknown image in queue"
+ <<std::endl);
+ mImageEventQueue.push_back(ImageEventType(image));*/
+ return;
+ }
+ ImageEventTypeMap::iterator i;
+//JCP 22-06-2009, test mImageEventMap.size() > 0
+ if(mImageEventMap.size()>0){
+ i = mImageEventMap.find(filename);
+ if (i!=mImageEventMap.end())
+ {
+ GimmickDebugMessage(5,
+ "Putting image of file '"<<filename<<"' on pointer"
+ <<std::endl);
+ ImageEventType ie(i->second);
+ ie.image = image;
+ ie.pointerHolder->Set(ie.image);
+ //mImageEventMap.erase(i);
+ }
+ }
}
else if (e==Error)
{
mess+=filename;
mess+="\n";
GimmickMessage(1,mess);
+ ImageEventTypeMap::iterator i;
+ i = mImageEventMap.find(filename);
+ if (i!=mImageEventMap.end())
+ {
+ ImageEventType ie(i->second);
+ ie.image = image;
+ ie.pointerHolder->Set(GetDefaultImage());
+ //mImageEventMap.erase(i);
+ }
}
else if (e==ImageUnloaded)
mess+=filename;
mess+="\n";
GimmickMessage(1,mess);
+ ImageEventTypeMap::iterator i;
+ i = mImageEventMap.find(filename);
+ if (i!=mImageEventMap.end())
+ {
+ ImageEventType ie(i->second);
+ ie.image = image;
+ ie.pointerHolder->Set(GetDefaultImage());
+ //mImageEventMap.erase(i);
+ }
}
}
void GimmickView::ConnectValidationObserver(ValidationCallbackType callback)
{
mValidationSignal.connect(callback);
- }
-
+ }
} // EO namespace creaImageIO
-
git://git.creatis.insa-lyon.fr / creaImageIO.git / blobdiff