DGtal  1.3.beta
Functions
testDicomReader.cpp File Reference
#include <iostream>
#include "DGtal/images/ImageContainerBySTLVector.h"
#include "DGtal/images/ImageContainerByITKImage.h"
#include "DGtal/helpers/StdDefs.h"
#include "DGtal/io/readers/DicomReader.h"
#include "ConfigTest.h"
Include dependency graph for testDicomReader.cpp:

Go to the source code of this file.

Functions

template<typename Image3D >
bool testDicomReader ()
 
static std::vector< std::string > getFirstDicomSerieFileNames (const std::string &path)
 
template<typename Image3D >
bool testDicomReaderFromDirectory ()
 
template<typename PixelType >
bool testSpatialInformation ()
 
bool testIOException ()
 
int main (int argc, char **argv)
 

Detailed Description

This program is free software: you can redistribute it and/or modify it under the terms of the GNU Lesser General Public License as published by the Free Software Foundation, either version 3 of the License, or (at your option) any later version.

This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.

You should have received a copy of the GNU General Public License along with this program. If not, see http://www.gnu.org/licenses/.

Author
Adrien Krähenbühl (adrie.nosp@m.n.kr.nosp@m.ahenb.nosp@m.uhl@.nosp@m.loria.nosp@m..fr ) LORIA (CNRS, UMR 7503), Université de Lorraine, France
Date
2013/10/14

Functions for testing class DicomReader.

This file is part of the DGtal library.

Definition in file testDicomReader.cpp.

Function Documentation

◆ getFirstDicomSerieFileNames()

static std::vector<std::string> getFirstDicomSerieFileNames ( const std::string &  path)
static

Definition at line 75 of file testDicomReader.cpp.

76 {
77  typedef itk::GDCMSeriesFileNames NamesGeneratorType;
78  NamesGeneratorType::Pointer nameGenerator = NamesGeneratorType::New();
79  nameGenerator->SetUseSeriesDetails( true );
80  nameGenerator->SetDirectory( path );
81 
82  typedef itk::GDCMSeriesFileNames::SeriesUIDContainerType SeriesIdContainer;
83  const SeriesIdContainer & seriesUID = nameGenerator->GetSeriesUIDs();
84 
85  if (! seriesUID.empty() )
86  {
87  return nameGenerator->GetFileNames( *(seriesUID.begin()) );
88  }
89  return std::vector<std::string>();
90 }

Referenced by testDicomReaderFromDirectory(), and testSpatialInformation().

◆ main()

int main ( int  argc,
char **  argv 
)

Definition at line 164 of file testDicomReader.cpp.

165 {
166  trace.beginBlock ( "Testing class DicomReader" );
167  trace.info() << "Args:";
168  for ( int i = 0; i < argc; ++i )
169  trace.info() << " " << argv[ i ];
170  trace.info() << endl;
171 
172  bool res = testDicomReader<ImageContainerBySTLVector<Z3i::Domain, unsigned char> >()
174  && testDicomReader<ImageContainerByITKImage<Z3i::Domain, unsigned char> >()
176  && testDicomReaderFromDirectory<ImageContainerBySTLVector<Z3i::Domain, unsigned char> >()
178  && testSpatialInformation<unsigned char>()
179  && testSpatialInformation<uint16_t>()
180  && testIOException();
181  trace.emphase() << ( res ? "Passed." : "Error." ) << endl;
182  trace.endBlock();
183 
184  return !res;
185 }

References DGtal::Trace::beginBlock(), DGtal::Trace::emphase(), DGtal::Trace::endBlock(), DGtal::Trace::info(), testDicomReader(), testDicomReaderFromDirectory(), testIOException(), and DGtal::trace.

◆ testDicomReader()

template<typename Image3D >
bool testDicomReader ( )

Example of a test. To be completed.

Definition at line 53 of file testDicomReader.cpp.

54 {
55  const std::string filename = testPath + "samples/dicomSample/1629.dcm";
56  Image3D image = DicomReader< Image3D >::importDicom( filename );
57 
58  trace.info() << image <<endl;
59 
60  unsigned int nbVal=0, nbPos = 0;
61  typename Image3D::ConstRange r = image.constRange();
62  for ( typename Image3D::ConstRange::ConstIterator it=r.begin(), itend=r.end() ; it != itend ; ++it )
63  {
64  nbVal++;
65  if ( (*it) > 0 ) nbPos++;
66  }
67 
68  trace.info() << "Number of points with (val>0) = " << nbVal << endl;
69 
70  return nbVal==2130048 && nbPos==296030;
71 }

References DGtal::Trace::info(), and DGtal::trace.

Referenced by main().

◆ testDicomReaderFromDirectory()

template<typename Image3D >
bool testDicomReaderFromDirectory ( )

Definition at line 93 of file testDicomReader.cpp.

94 {
95  const std::string path = testPath + "samples/dicomSample";
96  const std::vector<std::string> fileNames = getFirstDicomSerieFileNames( path );
97  Image3D image = DicomReader< Image3D >::importDicomSeries( fileNames );
98 
99  trace.info() << image <<endl;
100 
101  unsigned int nbVal=0, nbPos = 0;
102  typename Image3D::ConstRange r = image.constRange();
103  for ( typename Image3D::ConstRange::ConstIterator it=r.begin(), itend=r.end() ; it != itend ; ++it )
104  {
105  nbVal++;
106  if ( (*it) > 0 ) nbPos++;
107  }
108 
109  trace.info() << "Number of points with (val>0) = " << nbVal << endl;
110 
111  return nbVal==2130048 && nbPos==296030;
112 }

References getFirstDicomSerieFileNames(), DGtal::Trace::info(), and DGtal::trace.

Referenced by main().

◆ testIOException()

bool testIOException ( )

Definition at line 142 of file testDicomReader.cpp.

143 {
144  //Default image selector = STLVector
146 
147  std::string filename = testPath + "samples/null.dcm";
148  try {
149  Image3D image = DicomReader< Image3D >::importDicom( filename );
150  }
151  catch(exception& e) {
152  trace.info() << "Exception catched. Message : " << e.what()<<endl;
153  return true;
154  }
155 
156  return false;
157 }

References DGtal::Trace::info(), and DGtal::trace.

Referenced by main().

◆ testSpatialInformation()

template<typename PixelType >
bool testSpatialInformation ( )

Definition at line 116 of file testDicomReader.cpp.

117 {
118  const std::string path = testPath + "samples/dicomSample";
119 
120  const std::vector<std::string> fileNames = getFirstDicomSerieFileNames( path );
121 
123  Image3D image = DicomReader< Image3D >::importDicomSeries( fileNames );
124  typename Image3D::ITKImagePointer dgtal_itk = image.getITKImagePointer();
125 
126  typedef itk::Image<PixelType, 3> ItkImage;
127  typedef itk::ImageSeriesReader<ItkImage> ItkReader;
128  typename ItkReader::Pointer reader = ItkReader::New();
129  reader->SetFileNames( fileNames );
130 
131  reader->Update();
132 
133  typename ItkImage::Pointer itk = reader->GetOutput();
134 
135  const bool ok1 = ( dgtal_itk->GetSpacing() == itk->GetSpacing() );
136  const bool ok2 = ( dgtal_itk->GetOrigin() == itk->GetOrigin() );
137  const bool ok3 = ( dgtal_itk->GetDirection() == itk->GetDirection() );
138  return ok1 && ok2 && ok3;
139 }

References getFirstDicomSerieFileNames().

testDicomReaderFromDirectory
bool testDicomReaderFromDirectory()
Definition: testDicomReader.cpp:93
ConstIterator
MyDigitalSurface::ConstIterator ConstIterator
Definition: greedy-plane-segmentation-ex2.cpp:93
DGtal::DicomReader
Aim: Import a 3D DICOM image from file series.
Definition: DicomReader.h:91
DGtal::Trace::endBlock
double endBlock()
getFirstDicomSerieFileNames
static std::vector< std::string > getFirstDicomSerieFileNames(const std::string &path)
Definition: testDicomReader.cpp:75
DGtal::ImageContainerByITKImage
Aim: implements a model of CImageContainer using a ITK Image.
Definition: ImageContainerByITKImage.h:93
DGtal::ImageContainerBySTLVector
Definition: ImageContainerBySTLVector.h:126
DGtal::Trace::emphase
std::ostream & emphase()
DGtal::trace
Trace trace
Definition: Common.h:154
DGtal::Trace::beginBlock
void beginBlock(const std::string &keyword="")
DGtal::Trace::info
std::ostream & info()
ConstRange
Image::ConstRange ConstRange
Definition: testSimpleRandomAccessRangeFromPoint.cpp:47
testIOException
bool testIOException()
Definition: testDicomReader.cpp:142
testDicomReader
bool testDicomReader()
Definition: testDicomReader.cpp:53