--- /dev/null
+//#include "creaImageIOWxISimpleDlg.h"
+
+#include "creaImageIOWxGimmickReaderDialog.h"
+#include <itkAnalyzeImageIO.h>
+#include <itkImageFileReader.h>
+#include <itkImage.h>
+#include <itkImageSeriesWriter.h>
+#include <itkNumericSeriesFileNames.h>
+#include "itkImageToVTKImageFilter.h"
+#include <vtkImageReader2.h>
+#include <boost/filesystem/path.hpp>
+#include <boost/filesystem.hpp>
+#include <boost/utility.hpp>
+
+namespace creaImageIO
+{
+ template <typename TImage2>
+ typename TImage2::Pointer ReadImage( const std::string &fileName)
+ {
+
+
+
+ typename TImage2::Pointer image;
+
+ typedef itk::ImageFileReader<TImage2> ReaderType;
+ typename ReaderType::Pointer reader = ReaderType::New();
+ reader->SetFileName( fileName.c_str() );
+ try
+ {
+ reader->Update();
+ }
+ catch( itk::ExceptionObject & err )
+ {
+ std::cout << "Caught an exception reading" << fileName << ": " << std::endl;
+ std::cout << err << " " << __FILE__ << " " << __LINE__ << std::endl;
+ throw err;
+ }
+ catch(...)
+ {
+ std::cout << "Error while reading image " << fileName << std::endl;
+ throw;
+ }
+ image = reader->GetOutput();
+
+ return image;
+ }
+
+
+ ///Ctor
+ template <typename TImage>
+ WxISimpleDlg<TImage>::WxISimpleDlg(wxWindow *parent,
+ wxString i_title,
+ const std::string i_namedescp ,
+ const std::string i_namedb)
+ : wxDialog(parent, -1,_T("DISPLAY IMAGES"), wxDefaultPosition, wxSize(230,150))
+ {
+ namedescp = i_namedescp;
+ namedb = i_namedb;
+
+ if(!i_title.empty())
+ {
+ this->SetTitle(i_title);
+ }
+ // Button to select file(s)
+ wxButton *fileBut = new wxButton(this, -1,_T("Select a file to display"), wxPoint(10,7) );
+ Connect( fileBut->GetId(), wxEVT_COMMAND_BUTTON_CLICKED , (wxObjectEventFunction) &WxISimpleDlg::OnReadFile );
+
+ // Button to select directory
+ wxButton *directoryBut = new wxButton(this, -1,_T("Select a directory to display"), wxPoint(10,40) );
+ Connect( directoryBut->GetId(), wxEVT_COMMAND_BUTTON_CLICKED , (wxObjectEventFunction) &WxISimpleDlg::OnReadDirectory );
+
+ // button to select creaImageIO
+ wxButton *gimmickBut = new wxButton(this, -1,_T("Select Gimmick"), wxPoint(10,70) );
+ Connect( gimmickBut->GetId(), wxEVT_COMMAND_BUTTON_CLICKED , (wxObjectEventFunction) &WxISimpleDlg::OnReadGimmick );
+
+ /// \TODO Button to select Bruker directory
+
+ Layout();
+
+ }
+//////////////////////////////////////////////////////////////////////
+// //
+//////////////////////////////////////////////////////////////////////
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::OnReadFile(wxCommandEvent& event)
+ {
+ int resultShowModal;
+ wxFileDialog* fileDlg = new wxFileDialog( 0, _T("Select file"), _T(""), _T(""), crea::std2wx("*"), wxOPEN |wxFD_MULTIPLE, wxDefaultPosition);
+
+ resultShowModal = fileDlg->ShowModal();
+ if ( resultShowModal==wxID_OK )
+ {
+ wxArrayString wxArray;
+ fileDlg->GetPaths(wxArray);
+ if(wxArray.size() >0)
+ {
+ for( int i = 0; i < wxArray.GetCount(); i++)
+ {
+ readImg( crea::wx2std(wxArray[i]));
+ }
+ }
+ else {
+ // TO DO WARNING MESSAGES
+ }
+ }
+ SetReturnCode( resultShowModal );
+// Close();
+ EndModal( resultShowModal );
+ }
+
+
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::setExts(std::vector<std::string> i_exts)
+ {
+ m_exts = i_exts;
+ }
+ //////////////////////////////////////////////////////////////////////
+// //
+//////////////////////////////////////////////////////////////////////
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::OnReadDirectory(wxCommandEvent &event)
+ {
+ int resultShowModal;
+ bool bvalid = false;
+ long style = wxDD_DEFAULT_STYLE | wxDD_DIR_MUST_EXIST;
+ wxDirDialog* dirDlg = new wxDirDialog( 0, _T("Select the directory to display"), _T(""), style);
+
+ resultShowModal = dirDlg->ShowModal();
+ if ( resultShowModal==wxID_OK )
+ {
+ std::string path = crea::wx2std(dirDlg->GetPath());
+ typedef boost::filesystem::directory_iterator dir_it;
+ dir_it itr(path);
+ dir_it end_itr;
+ /*if (boost::filesystem::exists(path))
+ {*/
+ for(;itr != end_itr; ++itr)
+ {
+ bvalid = m_exts.size() == 0? true : false;
+ std::vector<std::string>::iterator it = m_exts.begin();
+ std::string ext = itr->filename().substr(itr->filename().find_last_of("."));
+ for(; it != m_exts.end(); it++)
+ {
+ if(ext == (*it) )
+ {
+ bvalid = true;
+ break;
+ }
+ }
+ if (!boost::filesystem::is_directory(itr->status()) && bvalid)
+ {
+ readImg(itr->string().c_str());
+ }
+ }
+ }
+ SetReturnCode( resultShowModal );
+// Close();
+ EndModal( resultShowModal );
+ }
+
+ //////////////////////////////////////////////////////////////////////
+// //
+//////////////////////////////////////////////////////////////////////
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::OnReadGimmick(wxCommandEvent &event)
+ {
+ // Run Gimmick
+ WxGimmickReaderDialog dlg(0,-1,
+ namedescp,
+ namedb,
+ _T("Select image(s) - Gimmick! (c) CREATIS-LRMN 2008"),
+ wxDefaultPosition,
+ wxSize(810,750),
+ GIMMICK_2D_IMAGE_SELECTION,
+ GIMMICK_3D_IMAGE_SELECTION,
+ _3D,
+ 1);
+ dlg.ShowModal();
+ if (dlg.GetReturnCode() == wxID_OK)
+ {
+ // infoimage=_T("DICOM: ???_EED_???");
+//EED 07JUIN2010 dlg.GetSelectedImages(m_results,3);
+ std::vector<creaImageIO::OutStrGimmick> out;
+ std::vector<std::string> attr;
+// attr.push_back("D0028_0010");
+// attr.push_back("D0008_0023");
+// attr.push_back("D0008_1070");
+ dlg.stopReading();
+ dlg.getSelected(out, attr,true,"");
+// crea::VtkBasicSlicer(out.front().img);
+ //m_results.clear();
+ int size=out.size();
+ int ii;
+ //for (ii=0;ii<size;ii++)
+ //{
+ //m_results.push_back(out[ii].img);
+ //}
+
+ dlg.OnExit();
+ }
+ SetReturnCode( dlg.GetReturnCode() );
+// Close();
+ EndModal( dlg.GetReturnCode() );
+ }
+
+
+ template <typename TImage>
+ wxString WxISimpleDlg<TImage>::getInfoImage()
+ {
+ return infoimage;
+ }
+
+
+ //////////////////////////////////////////////////////////////////////
+ // Return the results vector //
+ //////////////////////////////////////////////////////////////////////
+ template <typename TImage>
+ std::vector<typename TImage::Pointer> WxISimpleDlg<TImage>::getImagesSelected()
+ {
+ return m_Iresults;
+ }
+
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::readImg(const std::string &i_name)
+ {
+ // FCY : just to check but not needed, we hardly suppose that we load only same type and dim of images
+ // uncomment to test
+ /*typedef itk::ImageIOBase::IOComponentType ScalarPixelType;
+ itk::ImageIOBase::Pointer imageIO = itk::ImageIOFactory::CreateImageIO(i_name.c_str(), itk::ImageIOFactory::ReadMode);
+ imageIO->SetFileName(i_name.c_str());
+ imageIO->ReadImageInformation();
+ ScalarPixelType pixelType = imageIO->GetComponentType();
+ const size_t dims = imageIO->GetNumberOfDimensions();*/
+
+ typedef itk::ImageFileReader<TImage> ReaderType;
+ typename ReaderType::Pointer reader = ReaderType::New();
+ reader->SetFileName( i_name );
+ try
+ {
+ reader->Update();
+ }
+ catch( itk::ExceptionObject & err )
+ {
+ std::cout << "Caught an exception reading" << i_name << ": " << std::endl;
+ std::cout << err << " " << __FILE__ << " " << __LINE__ << std::endl;
+ throw err;
+ }
+ catch(...)
+ {
+ std::cout << "Error while reading image " << i_name << std::endl;
+ throw;
+ }
+ m_Iresults.push_back(reader->GetOutput());
+
+ }
+
+
+
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::split3Din3Dvtk()
+ {
+
+ int ii;
+ if ((m_Iresults).size() != 0)
+ {
+
+ typename TImage::Pointer image = m_Iresults[0];
+ image->GetImageDimension();
+ typedef itk::ImageToVTKImageFilter< TImage > ConnectorType;
+ ConnectorType::Pointer connector = ConnectorType::New();
+ for(unsigned int i = 0 ;i < m_Iresults.size(); i++)
+ {
+ connector->SetInput(m_Iresults[i]);
+ connector->Update();
+ vtkImageData *im = vtkImageData::New();
+ im->ShallowCopy(connector->GetOutput());
+ m_Vresults.push_back(im);
+ }
+ }
+ }
+
+
+
+ template <typename TImage>
+ void WxISimpleDlg<TImage>::split4Din3Dvtk(const std::string &i_dir)
+ {
+ if ((m_Iresults).size() != 0)
+ {
+ typename TImage::Pointer image = m_Iresults[0];
+
+ // Size and dims for Input Image
+ typedef itk::Size<4> iSize;
+ typedef const itk::Size<4>::SizeValueType iSizeVal;
+ iSize size = image->GetLargestPossibleRegion().GetSize();
+ iSizeVal *dims_size = size.GetSize();
+
+ // Output Type
+ typedef itk::Image<short,3> ImageOutputType;
+ typedef itk::ImageSeriesWriter<TImage, ImageOutputType > SeriesWriterType;
+
+ SeriesWriterType::Pointer seriesWriter = SeriesWriterType::New();
+ seriesWriter->SetInput( image);
+
+ // from JPR file to generate output files
+ typedef itk::NumericSeriesFileNames NamesGeneratorType;
+ NamesGeneratorType::Pointer namesGenerator = NamesGeneratorType::New();
+ namesGenerator->SetStartIndex(0);
+ namesGenerator->SetEndIndex(dims_size[3]-1);
+ namesGenerator->SetIncrementIndex(1);
+ std::string format = i_dir;
+ format += "/image%03d.vtk";
+ namesGenerator->SetSeriesFormat( format.c_str() );
+
+ seriesWriter->SetFileNames( namesGenerator->GetFileNames() );
+
+ try
+ {
+ seriesWriter->Update();
+ vtkImageReader2 *vReader =vtkImageReader2::New();
+ for(unsigned int i = 0 ;i < dims_size[3]; i++)
+ {
+ vReader->SetFileName(namesGenerator->GetFileNames()[i].c_str());
+ vReader->Update();
+ m_Vresults.push_back(vReader->GetOutput());
+ }
+ }
+ catch( itk::ExceptionObject & excp )
+ {
+ std::cerr << "Exception thrown while writing the series " << std::endl;
+ std::cerr << excp << std::endl;
+ //return EXIT_FAILURE;
+ }
+
+ }
+
+ }
+
+ }// namespace end
+
git://git.creatis.insa-lyon.fr / creaImageIO.git / blobdiff