EXAMPLES_PROGRAMS
example_LoadPlugins
example_ReadWriteImage
+ example_ReadImageSeriesWriteImage
)
FOREACH(prog ${EXAMPLES_PROGRAMS})
--- /dev/null
+#include <cstdlib>
+#include <iostream>
+#include <sstream>
+#include <string>
+
+#include <cpPlugins/Interface/Interface.h>
+#include <cpPlugins/Interface/ProcessObject.h>
+
+int main( int argc, char* argv[] )
+{
+ if( argc < 7 )
+ {
+ std::cerr
+ << "Usage: " << argv[ 0 ]
+ << " plugins_file"
+ << " output_image"
+ << " dimensions pixel_type is_color input_image_files" << std::endl;
+ return( 1 );
+
+ } // fi
+ std::string plugins_file = argv[ 1 ];
+ std::string output_image_file = argv[ 2 ];
+ std::string dimensions = argv[ 3 ];
+ std::string pixel_type = argv[ 4 ];
+ bool is_color = ( std::atoi( argv[ 5 ] ) == 1 );
+
+ std::stringstream input_image_files;
+ for( int i = 6; i < argc; ++i )
+ input_image_files << argv[ i ] << ";";
+
+ // Create interface
+ typedef cpPlugins::Interface::Interface TInterface;
+ typedef TInterface::TClasses TClasses;
+
+ TInterface plugins;
+ plugins.Load( plugins_file );
+
+ // Create objects
+ typedef cpPlugins::Interface::ProcessObject TProcessObject;
+ typedef TProcessObject::TParameters TParameters;
+ cpPlugins::Interface::ProcessObject* reader;
+ cpPlugins::Interface::ProcessObject* writer;
+
+ reader =
+ dynamic_cast< TProcessObject* >(
+ plugins.CreateObject( "cpPlugins::Plugins::ImageSeriesReader" )
+ );
+ if( reader == NULL )
+ {
+ std::cerr << "No suitable reader found in plugins." << std::endl;
+ return( 1 );
+
+ } // fi
+ writer =
+ dynamic_cast< TProcessObject* >(
+ plugins.CreateObject( "cpPlugins::Plugins::ImageWriter" )
+ );
+ if( writer == NULL )
+ {
+ delete reader;
+ std::cerr << "No suitable writer found in plugins." << std::endl;
+ return( 1 );
+
+ } // fi
+
+ // Configure reader
+ TParameters reader_params = reader->GetDefaultParameters( );
+ reader_params[ "FileNames" ].second = input_image_files.str( );
+ reader_params[ "PixelType" ].second = pixel_type;
+ reader_params[ "ImageDimension" ].second = dimensions;
+ reader_params[ "IsColorImage" ].second = ( is_color )? "1": "0";
+ reader->SetParameters( reader_params );
+
+ // Configure reader
+ TParameters writer_params = writer->GetDefaultParameters( );
+ writer_params[ "FileName" ].second = output_image_file;
+ writer->SetParameters( writer_params );
+
+ // Connect pipeline
+ writer->SetInput( 0, reader->GetOutput( 0 ) );
+
+ std::string msg = writer->Update( );
+
+ if( msg != "" )
+ std::cerr << "ERROR: " << msg << std::endl;
+
+ // Free memory
+ delete writer;
+ delete reader;
+
+ return( 0 );
+}
+
+// eof - $RCSfile$
Update( )
{
// Force upstream updates
- for( unsigned int idx = 0; idx < this->m_Inputs.size( ); ++idx )
- this->m_Inputs[ idx ]->GetSource( )->Update( );
+ std::string r = "";
+ for( unsigned int i = 0; i < this->m_Inputs.size( ) && r == ""; ++i )
+ r = this->m_Inputs[ i ]->GetSource( )->Update( );
// Current update
- std::string ret = this->_GenerateData( );
- this->m_OutputsDisconnected = false;
+ if( r == "" )
+ {
+ r = this->_GenerateData( );
+ this->m_OutputsDisconnected = false;
+
+ } // fi
// Return error description, if any
- return( ret );
+ return( r );
}
// -------------------------------------------------------------------------
#include <Pluma/Connector.hpp>
#include <cpPlugins/Plugins/ImageReader.h>
+#include <cpPlugins/Plugins/ImageSeriesReader.h>
#include <cpPlugins/Plugins/ImageWriter.h>
/// TODO: doc
bool connect( pluma::Host& host )
{
host.add( new cpPlugins::Plugins::ImageReaderProvider( ) );
+ host.add( new cpPlugins::Plugins::ImageSeriesReaderProvider( ) );
host.add( new cpPlugins::Plugins::ImageWriterProvider( ) );
return( true );
}
if( dIt == this->m_Parameters.end( ) )
dIt = this->m_DefaultParameters.find( "ImageDimension" );
- std::string r = "itk::Image dimension not supported.";
+ std::string r = "cpPlugins::Plugins::ImageReader: itk::Image dimension not supported.";
if ( dIt->second.second == "1" ) r = this->_GD0< 1 >( );
else if( dIt->second.second == "2" ) r = this->_GD0< 2 >( );
else if( dIt->second.second == "3" ) r = this->_GD0< 3 >( );
if( cIt == this->m_Parameters.end( ) )
cIt = this->m_DefaultParameters.find( "IsColorImage" );
- std::string r = "itk::Image pixel type not supported";
+ std::string r = "cpPlugins::Plugins::ImageReader: itk::Image pixel type not supported";
if( cIt->second.second == "0" )
{
if( tIt->second.second == "char" )
fIt = this->m_DefaultParameters.find( "FileName" );
typedef itk::Image< P, D > _TImage;
- typedef itk::ImageFileReader< _TImage > _TImageReader;
+ typedef itk::ImageFileReader< _TImage > _TReader;
- _TImageReader* reader =
- dynamic_cast< _TImageReader* >( this->m_Reader.GetPointer( ) );
+ _TReader* reader =
+ dynamic_cast< _TReader* >( this->m_Reader.GetPointer( ) );
if( reader == NULL )
{
- this->m_Reader = _TImageReader::New( );
- reader = dynamic_cast< _TImageReader* >( this->m_Reader.GetPointer( ) );
+ this->m_Reader = _TReader::New( );
+ reader = dynamic_cast< _TReader* >( this->m_Reader.GetPointer( ) );
} // fi
reader->SetFileName( fIt->second.second );
--- /dev/null
+#include <cpPlugins/Plugins/ImageSeriesReader.h>
+#include <cpPlugins/Interface/Image.h>
+
+#include <set>
+#include <sstream>
+
+#include <itkImageSeriesReader.h>
+
+#define ITK_MANUAL_INSTANTIATION
+#include <itkImage.h>
+#include <itkRGBPixel.h>
+
+// -------------------------------------------------------------------------
+cpPlugins::Plugins::ImageSeriesReader::
+ImageSeriesReader( )
+ : Superclass( )
+{
+ this->SetNumberOfOutputs( 1 );
+ this->_MakeOutput< cpPlugins::Interface::Image >( 0 );
+
+ this->m_DefaultParameters[ "FileNames" ] =
+ TParameter( "string", "file_name1;file_name2;file_name3;..." );
+ this->m_DefaultParameters[ "PixelType" ] = TParameter( "type", "uchar" );
+ this->m_DefaultParameters[ "ImageDimension" ] = TParameter( "int", "3" );
+ this->m_DefaultParameters[ "IsColorImage" ] = TParameter( "bool", "0" );
+}
+
+// -------------------------------------------------------------------------
+cpPlugins::Plugins::ImageSeriesReader::
+~ImageSeriesReader( )
+{
+}
+
+// -------------------------------------------------------------------------
+std::string cpPlugins::Plugins::ImageSeriesReader::
+GetClassName( ) const
+{
+ return( "cpPlugins::Plugins::ImageSeriesReader" );
+}
+
+// -------------------------------------------------------------------------
+std::string cpPlugins::Plugins::ImageSeriesReader::
+_GenerateData( )
+{
+ TParameters::const_iterator dIt;
+
+ // Get image dimension
+ dIt = this->m_Parameters.find( "ImageDimension" );
+ if( dIt == this->m_Parameters.end( ) )
+ dIt = this->m_DefaultParameters.find( "ImageDimension" );
+
+ std::string r = "cpPlugins::Plugins::ImageSeriesReader: itk::Image dimension not supported.";
+ if( dIt->second.second == "2" ) r = this->_GD0< 2 >( );
+ else if( dIt->second.second == "3" ) r = this->_GD0< 3 >( );
+ else if( dIt->second.second == "4" ) r = this->_GD0< 4 >( );
+
+ return( r );
+}
+
+// -------------------------------------------------------------------------
+template< unsigned int D >
+std::string cpPlugins::Plugins::ImageSeriesReader::
+_GD0( )
+{
+ TParameters::const_iterator tIt, cIt;
+
+ // Get image pixel type
+ tIt = this->m_Parameters.find( "PixelType" );
+ if( tIt == this->m_Parameters.end( ) )
+ tIt = this->m_DefaultParameters.find( "PixelType" );
+ cIt = this->m_Parameters.find( "IsColorImage" );
+ if( cIt == this->m_Parameters.end( ) )
+ cIt = this->m_DefaultParameters.find( "IsColorImage" );
+
+ std::string r = "cpPlugins::Plugins::ImageSeriesReader: itk::Image pixel type not supported";
+ if( cIt->second.second == "0" )
+ {
+ if( tIt->second.second == "char" )
+ r = this->_GD1< char, D >( );
+ else if( tIt->second.second == "short" )
+ r = this->_GD1< short, D >( );
+ else if( tIt->second.second == "int" )
+ r = this->_GD1< int, D >( );
+ else if( tIt->second.second == "long" )
+ r = this->_GD1< long, D >( );
+ else if( tIt->second.second == "uchar" )
+ r = this->_GD1< unsigned char, D >( );
+ else if( tIt->second.second == "ushort" )
+ r = this->_GD1< unsigned short, D >( );
+ else if( tIt->second.second == "uint" )
+ r = this->_GD1< unsigned int, D >( );
+ else if( tIt->second.second == "ulong" )
+ r = this->_GD1< unsigned long, D >( );
+ else if( tIt->second.second == "float" )
+ r = this->_GD1< float, D >( );
+ else if( tIt->second.second == "double" )
+ r = this->_GD1< double, D >( );
+ }
+ else if( cIt->second.second == "1" )
+ {
+ if( tIt->second.second == "char" )
+ r = this->_GD1< itk::RGBPixel< char >, D >( );
+ else if( tIt->second.second == "short" )
+ r = this->_GD1< itk::RGBPixel< short >, D >( );
+ else if( tIt->second.second == "int" )
+ r = this->_GD1< itk::RGBPixel< int >, D >( );
+ else if( tIt->second.second == "long" )
+ r = this->_GD1< itk::RGBPixel< long >, D >( );
+ else if( tIt->second.second == "uchar" )
+ r = this->_GD1< itk::RGBPixel< unsigned char >, D >( );
+ else if( tIt->second.second == "ushort" )
+ r = this->_GD1< itk::RGBPixel< unsigned short >, D >( );
+ else if( tIt->second.second == "uint" )
+ r = this->_GD1< itk::RGBPixel< unsigned int >, D >( );
+ else if( tIt->second.second == "ulong" )
+ r = this->_GD1< itk::RGBPixel< unsigned long >, D >( );
+ else if( tIt->second.second == "float" )
+ r = this->_GD1< itk::RGBPixel< float >, D >( );
+ else if( tIt->second.second == "double" )
+ r = this->_GD1< itk::RGBPixel< double >, D >( );
+ } // fi
+ return( r );
+}
+
+// -------------------------------------------------------------------------
+template< class P, unsigned int D >
+std::string cpPlugins::Plugins::ImageSeriesReader::
+_GD1( )
+{
+ TParameters::const_iterator fIt;
+
+ // Get filenames
+ std::set< std::string > filenames;
+ fIt = this->m_Parameters.find( "FileNames" );
+ if( fIt == this->m_Parameters.end( ) )
+ fIt = this->m_DefaultParameters.find( "FileName" );
+ std::istringstream filenames_stream( fIt->second.second );
+ std::string filename;
+ while( std::getline( filenames_stream, filename, ';' ) )
+ filenames.insert( filename );
+
+ // Reader
+ typedef itk::Image< P, D > _TImage;
+ typedef itk::ImageSeriesReader< _TImage > _TReader;
+
+ _TReader* reader =
+ dynamic_cast< _TReader* >( this->m_Reader.GetPointer( ) );
+ if( reader == NULL )
+ {
+ this->m_Reader = _TReader::New( );
+ reader = dynamic_cast< _TReader* >( this->m_Reader.GetPointer( ) );
+
+ } // fi
+ std::set< std::string >::const_iterator fnIt = filenames.begin( );
+ for( ; fnIt != filenames.end( ); ++fnIt )
+ reader->AddFileName( *fnIt );
+ try
+ {
+ reader->Update( );
+ }
+ catch( itk::ExceptionObject& err )
+ {
+ return( err.GetDescription( ) );
+
+ } // yrt
+ this->_SetOutput( 0, reader->GetOutput( ) );
+ return( "" );
+}
+
+// eof - $RCSfile$
--- /dev/null
+#ifndef __CPPLUGINS__PLUGINS__IMAGESERIESREADER__H__
+#define __CPPLUGINS__PLUGINS__IMAGESERIESREADER__H__
+
+#include <cpPlugins/Plugins/cpPlugins_Export.h>
+#include <cpPlugins/Interface/SourceObject.h>
+#include <itkProcessObject.h>
+
+namespace cpPlugins
+{
+ namespace Plugins
+ {
+ /**
+ */
+ class cpPlugins_EXPORT ImageSeriesReader
+ : public cpPlugins::Interface::SourceObject
+ {
+ public:
+ typedef ImageSeriesReader Self;
+ typedef cpPlugins::Interface::SourceObject Superclass;
+
+ typedef Superclass::TParameter TParameter;
+ typedef Superclass::TParameters TParameters;
+
+ public:
+ ImageSeriesReader( );
+ virtual ~ImageSeriesReader( );
+
+ virtual std::string GetClassName( ) const;
+
+ protected:
+
+ virtual std::string _GenerateData( );
+
+ template< unsigned int D >
+ std::string _GD0( );
+
+ template< class P, unsigned int D >
+ std::string _GD1( );
+
+ protected:
+ itk::ProcessObject::Pointer m_Reader;
+ };
+
+ // ---------------------------------------------------------------------
+ PLUMA_INHERIT_PROVIDER( ImageSeriesReader, cpPlugins::Interface::Object );
+
+ } // ecapseman
+
+} // ecapseman
+
+#endif // __CPPLUGINS__PLUGINS__IMAGESERIESREADER__H__
+
+// eof - $RCSfile$
{
itk::DataObject* o = this->_GetInput( 0 );
- std::string r = "itk::Image dimension not supported.";
+ std::string r = "cpPlugins::Plugins::ImageWriter: itk::Image dimension not supported.";
cpPlugins_ImageWriter_Dimension( r, 1, o, _GD0 );
else cpPlugins_ImageWriter_Dimension( r, 2, o, _GD0 );
else cpPlugins_ImageWriter_Dimension( r, 3, o, _GD0 );
itk::ImageBase< D >* i =
dynamic_cast< itk::ImageBase< D >* >( this->_GetInput( 0 ) );
- std::string r = "itk::Image pixel type not supported";
+ std::string r = "cpPlugins::Plugins::ImageWriter: itk::Image pixel type not supported";
cpPlugins_ImageWriter_Pixel( r, char, D, i, _GD1 );
else cpPlugins_ImageWriter_Pixel( r, short, D, i, _GD1 );
else cpPlugins_ImageWriter_Pixel( r, int, D, i, _GD1 );
git://git.creatis.insa-lyon.fr / cpPlugins.git / commitdiff