marRAWFiles Class Reference

#include <marDicomBase.h>

Inheritance diagram for marRAWFiles:

[legend]

Collaboration diagram for marRAWFiles:

[legend]

List of all members.

Public Member Functions
	marRAWFiles (marParameters *p=NULL)
	~marRAWFiles ()
virtual bool	loadImage (int i)
virtual void	loadActualSerie (wxGauge *gauge)
void	SetLittreEndianBigEndian (int value)
int	GetLittreEndianBigEndian ()
void	reset ()
void	copyFrom (const marObject &from)
bool	save (std::ofstream &os)
bool	load (std::ifstream &is)
virtual wxString	GetPatientName ()
kVolume *	getVolume ()
void	SetVolume (kVolume *volume)
bool	volumeLoaded ()
void	freeVolume ()
std::vector< std::string * > *	GetListImages ()
void	CleanListImages ()
void	ResetLstFileNotReaded ()
std::string	GetMsgLstFile ()
void	setParameters (marParameters *p)
void	copyParameters (marParameters *p)
void	makeACopyParameters ()
marParameters *	getParameters ()
bool	parametersOwned ()
virtual void	copyFrom (const marObject &from)=0
bool	save (std::string &nw)
bool	load (std::string &nr)
Protected Attributes
std::vector< std::string * >	_lstString
std::vector< char * >	_lstFileNotReaded
Private Attributes
int	_littreEndianBigEndian

---

Detailed Description

Definition at line 53 of file marDicomBase.h.

---

Constructor & Destructor Documentation

marRAWFiles::marRAWFiles

(

marParameters *

p = NULL

)

Definition at line 88 of file marDicomBase.cpp.

References _littreEndianBigEndian.

:  marFilesBase(p)
{
        _littreEndianBigEndian=0;
}

marRAWFiles::~marRAWFiles

(

)

Definition at line 94 of file marDicomBase.cpp.

{
}

---

Member Function Documentation

void marFilesBase::CleanListImages

(

)

[inherited]

Definition at line 45 of file marDicomBase.cpp.

References marFilesBase::_lstString.

Referenced by marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), and loadActualSerie().

{
        int i,size;
        size=this->_lstString.size();
        for(i=0;i<size;i++)
        {
                delete _lstString[i];
        }
        _lstString.clear();
}

Here is the caller graph for this function:

virtual void marObject::copyFrom

(

const marObject &

from

)

[pure virtual, inherited]

void marRAWFiles::copyFrom

(

const marObject &

from

)

Definition at line 269 of file marDicomBase.cpp.

{
}

void marObject::copyParameters

(

marParameters *

p

)

[inherited]

Definition at line 42 of file marObject.cpp.

References marObject::_parameters, and marObject::_parametersCopied.

{
    if( _parametersCopied && _parameters != NULL ) delete _parameters;
    _parameters = new marParameters( );
    *_parameters = *p;
    _parametersCopied = true;
}

void marFilesBase::freeVolume

(

)

[inherited]

Definition at line 31 of file marDicomBase.cpp.

References marFilesBase::_volume.

Referenced by InitExperiment_dll(), marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), loadActualSerie(), and marFilesBase::~marFilesBase().

                              {
        if( _volume ) delete _volume;
        _volume = NULL;
}

Here is the caller graph for this function:

std::vector< std::string * > * marFilesBase::GetListImages

(

)

[inherited]

Definition at line 39 of file marDicomBase.cpp.

References marFilesBase::_lstString.

{
        return &_lstString;
}

int marRAWFiles::GetLittreEndianBigEndian

(

)

Definition at line 260 of file marDicomBase.cpp.

References _littreEndianBigEndian.

{
        return _littreEndianBigEndian;
}

std::string marFilesBase::GetMsgLstFile

(

)

[inherited]

Definition at line 65 of file marDicomBase.cpp.

References marFilesBase::_lstFileNotReaded.

Referenced by LoadRangeImage::ForceToFinisReadActiveImages().

{
        int i,sizeLst;
//EEDx44
        std::string msgLstFile="";
        sizeLst=_lstFileNotReaded.size();
        for (i=0;i<sizeLst;i++)
        {
                msgLstFile = msgLstFile + *(_lstFileNotReaded[i]) ;
                msgLstFile = msgLstFile + "\n";
        }

        return msgLstFile;
}

Here is the caller graph for this function:

marParameters* marObject::getParameters

(

)

[inline, inherited]

Parameters analizers.

Definition at line 55 of file marObject.h.

Referenced by marAxisCT::adjustWall(), marAxis::calculateSignal(), marAxis::create2Dcontour(), marAxis::create2DDiameterMax(), marAxis::create2DDiameterMin(), marAxisCT::create2DDiametersMax(), marAxisCT::create2DDiametersMin(), marAxis::create3DSlice(), marAxis::createContour(), marAxisCT::createContours(), marAxis::createSlice(), marAxis::doSpline(), marAxisCT::extractLumen(), marExperiment::extractVascularTree(), marAxisCT::generatePoints(), marDynData::getActualVoxel(), marAxisCT::histogram(), marExperiment::initExperiment(), marExperiment::load(), marAxis::load(), marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), loadActualSerie(), marDynData::loadData(), marSimpleDicom::loadVolumeDXMM(), wxEmptyPanelWidget_2::OnBtnExtractTree_MH_JFC(), wxSurfaceWidget::OnManualAxis(), vtk3DQuantSurfaceWidget::Set3DSliceActor(), vtk3DSurfaceWidget::SetInitialPoint(), marAxisCT::setStartIndex(), marExperimentCT::updateCalcPercentage(), marAxisCT::updateCalcPercentage(), marExperimentCT::updateDiscontinuityThreshold(), marExperimentCT::updateLumenPercentage(), and marAxisCT::updateLumenPercentage().

{ return( _parameters ); };

Here is the caller graph for this function:

virtual wxString marFilesBase::GetPatientName

(

)

[inline, virtual, inherited]

Definition at line 26 of file marDicomBase.h.

{return _T(""); };

kVolume * marFilesBase::getVolume

(

)

[inherited]

Definition at line 19 of file marDicomBase.cpp.

References marFilesBase::_volume.

Referenced by PriorityLoadImageBar::Action_i(), CastVolume_dummy(), GetAreaValuesFromTotalVolume_dll(), GetImageIntensity_dll(), GetNumberOfImages_dll(), marInterfaceCT::initExperiment(), marInterface::initExperiment(), marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), loadImage(), LoadTkImages_dll(), wxMaracasFrame::OnStartExperiment(), and LoadRangeImage::Start().

                                 {
        return( _volume );
}

Here is the caller graph for this function:

bool marObject::load

(

std::string &

nr

)

[inherited]

Definition at line 67 of file marObject.cpp.

References marObject::load().

Referenced by marObject::load().

{
    std::ifstream is( nr.c_str( ) );

    if( is ) {

        load( is );
        is.close( );
        return( true );

    } // fi

    return( false );
}

Here is the call graph for this function:

Here is the caller graph for this function:

bool marRAWFiles::load

(

std::ifstream &

is

)

[virtual]

Implements marObject.

Definition at line 278 of file marDicomBase.cpp.

{
        return true;
}

void marRAWFiles::loadActualSerie

(

wxGauge *

gauge

)

[virtual]

Reimplemented from marFilesBase.

Reimplemented in marRAW2Files, and marRAW2AsciiFiles.

Definition at line 181 of file marDicomBase.cpp.

References marFilesBase::_lstString, marFilesBase::CleanListImages(), marParameters::e_RescaleIntercept, marParameters::e_RescaleSlope, marParameters::e_voxel_x_dimension, marParameters::e_voxel_y_dimension, marParameters::e_voxel_z_dimension, marFilesBase::freeVolume(), marObject::getParameters(), marParameters::setDoubleParam(), SetLittreEndianBigEndian(), and marFilesBase::SetVolume().

{

        // Read File List
        FILE *ff;
        ff = fopen( _lstString[0] -> c_str() , "r"); 
        std::string directory(*(_lstString[1]) );
        char tmp[255];

        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        //int type =    atoi(tmp);  // 0 // JPRx

        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        int wx  =       atoi(tmp);
        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        int wy  =       atoi(tmp);

        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        double spx      =       atof(tmp);
        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        double spy      =       atof(tmp);
        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        double spz      =       atof(tmp);

        fscanf(ff,"%s",tmp);
        fscanf(ff,"%s",tmp);
        int LB  =       atoi(tmp);

        this->SetLittreEndianBigEndian(LB);


        int wz=0;
        this->CleanListImages();
        while ( !feof(ff) )
        {
                fscanf(ff,"%s",tmp);
                std::string *tmpStr =  new std::string(tmp);
                (*tmpStr) = "/"+(*tmpStr);
                (*tmpStr) = (directory)+(*tmpStr);
                _lstString.push_back( tmpStr);
                wz++;
        }

        fclose(ff);


        // Create Free Memory block image
        freeVolume();

        if (wz==0)
        {
                wz=1;
        }

        kVolume *vol =new kVolume( kVolume::USHORT, wx, wy, wz,spx, spy, spz, malloc(sizeof(unsigned short)*wx*wy*wz ) );
        SetVolume( vol );


        // Define Spacing
        getParameters( )->setDoubleParam( marParameters::e_voxel_x_dimension, spx );
        getParameters( )->setDoubleParam( marParameters::e_voxel_y_dimension, spy );
        getParameters( )->setDoubleParam( marParameters::e_voxel_z_dimension, spz );

        // Define Intercept Slope
        getParameters( )->setDoubleParam( marParameters::e_RescaleIntercept , 0 );
        getParameters( )->setDoubleParam( marParameters::e_RescaleSlope     , 1 );
}

Here is the call graph for this function:

bool marRAWFiles::loadImage

(

int

i

)

[virtual]

Reimplemented from marFilesBase.

Reimplemented in marRAW2Files, and marRAW2AsciiFiles.

Definition at line 99 of file marDicomBase.cpp.

References _littreEndianBigEndian, marFilesBase::_lstFileNotReaded, marFilesBase::_lstString, and marFilesBase::getVolume().

{

        int dim[3];

        vtkImageData *vol = getVolume( )->castVtk();
        void *p_vol=(void*)getVolume( )->castVtk()->GetScalarPointer(0,0,i);
        vol->GetDimensions(dim);

        int dataSize = sizeof(unsigned short)*dim[0]*dim[1];
        bool ok=true;

/*
        std::string *ss = _lstString[i];
        FILE *ff=fopen( (char*)(ss->c_str())  , "r+" );
        fread( (char*)p_vol , dataSize,1, ff);
        fclose(ff);
*/

        std::string *ss = _lstString[i];
        vtkVolume16Reader *reader = vtkVolume16Reader::New ();
        reader->SetDataDimensions ( dim[0] , dim[1] );
        if (_littreEndianBigEndian == 0) {
            reader->SetDataByteOrderToLittleEndian ( );
        } else {
                reader->SetDataByteOrderToBigEndian();
        }
        reader->SetFilePrefix ( (char*)(ss->c_str())  );
        reader->SetFilePattern("%s");
    reader->SetImageRange ( 0, 0 );
    reader->SetDataSpacing ( 1, 1, 1 );
    reader->Update ();
        void *pp_vol=(void*)reader->GetOutput()->GetScalarPointer(0,0,0);
        memcpy(p_vol,pp_vol,dataSize);
        reader->Delete();


/*

        std::string *ss = _lstString[i];
        vtkGsmisReader *reader = vtkGsmisReader::New();
        reader->SetFileName( (char*)(ss->c_str())  );
        vtkImageData *ima=reader->GetOutput();
        ima->Update();
        void *pp_vol=(void*)ima->GetScalarPointer(0,0,0);
        memcpy(p_vol,pp_vol,dataSize);
//      reader->Delete();
*/



/*
        int             ii;
        char    tmp;
        char    *pp = (char*)p_vol;
        unsigned short   *valueA;
        dataSize        = dim[0]*dim[1];
        for (ii=0;ii<dataSize;ii++)
        {
                tmp             = *pp;
                *pp             = *(pp+1);
                *(pp+1) = tmp;

                valueA=(unsigned short*)pp;
                *valueA=*valueA-32000;
                if (*valueA>=32000)
                {
                        *valueA=0;
                } 

                pp              = pp+2;
        }
*/

        if (ok==false) {
                _lstFileNotReaded.push_back( (char*)(ss->c_str()) );
        }

        return ok;
}

Here is the call graph for this function:

void marObject::makeACopyParameters

(

)

[inline, inherited]

Definition at line 48 of file marObject.h.

    {
            copyParameters( _parameters );
    }

bool marObject::parametersOwned

(

)

[inline, inherited]

Definition at line 56 of file marObject.h.

{ return( _parametersCopied ); };

void marRAWFiles::reset

(

)

[virtual]

Virtual general methods (must be defined in each sub-class).

Implements marObject.

Definition at line 265 of file marDicomBase.cpp.

{
}

void marFilesBase::ResetLstFileNotReaded

(

)

[inherited]

Definition at line 58 of file marDicomBase.cpp.

References marFilesBase::_lstFileNotReaded.

Referenced by LoadRangeImage::Start().

{
        _lstFileNotReaded.clear();
}

Here is the caller graph for this function:

bool marObject::save

(

std::string &

nw

)

[inherited]

Persistence methods

Definition at line 51 of file marObject.cpp.

References marObject::save().

{
    std::ofstream os( nw.c_str( ) );

    if( os ) {

        save( os );
        os.close( );
        return( true );

    } // fi

    return( false );
}

Here is the call graph for this function:

bool marRAWFiles::save

(

std::ofstream &

os

)

[virtual]

Virtual persistence methods (must be defined in each sub-class).

Implements marObject.

Definition at line 273 of file marDicomBase.cpp.

{
        return true;
}

void marRAWFiles::SetLittreEndianBigEndian

(

int

value

)

Definition at line 255 of file marDicomBase.cpp.

References _littreEndianBigEndian.

Referenced by loadActualSerie().

{
        _littreEndianBigEndian = value;
}

Here is the caller graph for this function:

void marObject::setParameters

(

marParameters *

p

)

[inherited]

Parameters assignation methods.

You can assign a marParameters object by reference (setParameters) or by value (copyParameters). Besides, if you want to make your actual reference to be by value, call makeACopyParameters.

Definition at line 34 of file marObject.cpp.

References marObject::_parameters, and marObject::_parametersCopied.

{
    if( _parametersCopied && _parameters != NULL ) delete _parameters;
    _parameters = p;
    _parametersCopied = false;
}

void marFilesBase::SetVolume

(

kVolume *

volume

)

[inherited]

Definition at line 23 of file marDicomBase.cpp.

References marFilesBase::_volume.

Referenced by marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), loadActualSerie(), marSimpleDicom::loadVolumeDXMM(), and wxMaracasFrame::OnStartExperiment().

                                              {
        _volume=volume;
}

Here is the caller graph for this function:

bool marFilesBase::volumeLoaded

(

)

[inherited]

Definition at line 27 of file marDicomBase.cpp.

References marFilesBase::_volume.

                                {
        return( _volume != NULL );
}

---

Member Data Documentation

int marRAWFiles::_littreEndianBigEndian [private]

Definition at line 70 of file marDicomBase.h.

Referenced by GetLittreEndianBigEndian(), loadImage(), marRAWFiles(), and SetLittreEndianBigEndian().

std::vector< char*> marFilesBase::_lstFileNotReaded [protected, inherited]

Definition at line 45 of file marDicomBase.h.

Referenced by marFilesBase::GetMsgLstFile(), loadImage(), and marFilesBase::ResetLstFileNotReaded().

std::vector< std::string*> marFilesBase::_lstString [protected, inherited]

Definition at line 44 of file marDicomBase.h.

Referenced by marFilesBase::CleanListImages(), marFilesBase::GetListImages(), marRAW2Files::loadActualSerie(), marRAW2AsciiFiles::loadActualSerie(), loadActualSerie(), and loadImage().

---

The documentation for this class was generated from the following files:

• /home/davila/Creatis/creaMaracasVisu/lib/maracasVisuLib/src/kernel/marDicomBase.h
• /home/davila/Creatis/creaMaracasVisu/lib/maracasVisuLib/src/kernel/marDicomBase.cpp