Topics | |
| Interfile support in the IO library | |
| support for "multi" files in the IO library | |
| ECAT6 ... ECAT8 support in the IO library | |
| support for GE data | |
| HDF5 utilities | |
Classes | |
| class | stir::FileSignature |
| A class to read/store the file signature. More... | |
| class | stir::GE::RDF_HDF5::GEHDF5ListmodeInputFileFormat |
| Class for being able to read list mode data from the GE Signa PET/MR scanner via the listmode-data registry. More... | |
| class | stir::GE::RDF_HDF5::GEHDF5Wrapper |
| A class that extracts and reads the necessary data from GE HDF5 input files. More... | |
| class | stir::InputFileFormat< DataT > |
| Base-class for file-formats for reading. More... | |
| class | stir::InputFileFormatRegistry< DataT > |
| A class for registering (and finding) all input file formats. More... | |
| struct | stir::RegisterInputFileFormat< Format > |
| A helper class to allow automatic registration to the default InputFileFormatRegistry. More... | |
| class | stir::InputStreamFromROOTFile |
| A helper class to read data from a ROOT file Generated by GATE simulation toolkit. More... | |
| class | stir::InputStreamFromROOTFileForCylindricalPET |
| Declaration of class stir::InputStreamFromROOTFileForCylindricalPET. More... | |
| class | stir::InputStreamFromROOTFileForECATPET |
| Declaration of class stir::InputStreamFromROOTFileForECATPET. More... | |
| class | stir::InputStreamWithRecords< RecordT, OptionsT > |
| A helper class to read data from a (presumably binary) stream. More... | |
| class | stir::GE::RDF_HDF5::InputStreamWithRecordsFromHDF5< RecordT > |
| A helper class to read data from a hdf5 file. More... | |
| class | stir::InputStreamWithRecordsFromUPENN |
| Base class for reading listmode files from the PENNPet Explorer scanner. More... | |
| class | stir::InputStreamWithRecordsFromUPENNbin |
| Class for reading binary listmode files from the PENNPet Explorer scanner. More... | |
| class | stir::InputStreamWithRecordsFromUPENNtxt |
| Class for reading listmode files in text format from the PENNPet Explorer scanner. More... | |
| class | stir::InterfileDynamicDiscretisedDensityInputFileFormat |
| Class for reading images in Interfile file-format. More... | |
| class | stir::InterfileImageInputFileFormat |
| Class for reading images in Interfile file-format. More... | |
| class | stir::InterfileParametricDiscretisedDensityInputFileFormat |
| Class for reading images in Interfile file-format. More... | |
| class | stir::ITKImageInputFileFormat< STIRImageType > |
| Class for reading images using ITK. More... | |
| class | stir::ITKOutputFileFormat |
| Implementation of OutputFileFormat paradigm using the ITK library for writing. More... | |
| class | stir::MultiDynamicDiscretisedDensityInputFileFormat |
| Class for reading images in Multi file-format. More... | |
| class | stir::MultiParametricDiscretisedDensityInputFileFormat |
| Class for reading images in Multi file-format. More... | |
| class | stir::OutputFileFormat< DataT > |
| Base class for classes that create output files. More... | |
Typedefs | |
| typedef itk::Image< float, 3 > | stir::ITKImageSingle |
| Class for reading images in ITK file-format. | |
Functions | |
| template<class DataT, class FileT> | |
| unique_ptr< DataT > | stir::read_from_file (const FileSignature &signature, FileT file) |
| Function that reads data from file using the default InputFileFormatRegistry, using the provided FileSignature to find the matching file format. | |
| template<class DataT, class FileT> | |
| unique_ptr< DataT > | stir::read_from_file (FileT file) |
| Function that reads data from file using the default InputFileFormatRegistry. | |
| template<class DataT> | |
| std::string | stir::write_to_file (const std::string &filename, const DataT &data) |
| Function that writes data to file using the default OutputFileFormat. | |
Detailed Description
Library with classes and functions to read and write images and projection from/to file.
Typedef Documentation
◆ ITKImageSingle
| typedef itk::Image<float, 3> stir::ITKImageSingle |
Class for reading images in ITK file-format.
Preliminary
Function Documentation
◆ read_from_file() [1/2]
|
inline |
Function that reads data from file using the default InputFileFormatRegistry, using the provided FileSignature to find the matching file format.
This is a convenience function that uses InputFileFormatRegistry::find_factory() to find the InputFileFormat factory, and uses it to create the DataT object.
Note that (at the time of writing) InputFileFormatRegistry::find_factory() calls error() if no matching file format was found.
The input file format class used is not for DataT but actually for DataT::hierarchy_base_type. This is necessary such that this function can work for data being from a derived class (e.g. VoxelsOnCartesianGrid) while the input file format is defined for the base (i.e. DiscretisedDensity).
Sadly, this requires that the DataT::hierarchy_base_type typedef exists.
References stir::InputFileFormatRegistry< DataT >::default_sptr(), error(), stir::InputFileFormat< DataT >::read_from_file(), and read_from_file().
Referenced by stir::BinNormalisationFromProjData::BinNormalisationFromProjData(), stir::ReconstructionTests< TargetT >::construct_input_data(), stir::FBP3DRPReconstruction::do_read_image2D(), stir::PoissonLogLikelihoodWithLinearModelForMean< stir::DiscretisedDensity< 3, float > >::fill_nonidentifiable_target_parameters(), stir::NonRigidObjectTransformationUsingBSplines< num_dimensions, elemT >::NonRigidObjectTransformationUsingBSplines(), stir::GibbsPenalty< elemT, potentialT >::post_processing(), stir::KOSMAPOSLReconstruction< TargetT >::post_processing(), stir::LogcoshPrior< elemT >::post_processing(), stir::MoveImage::post_processing(), stir::ParametricQuadraticPrior< TargetT >::post_processing(), stir::QuadraticPrior< elemT >::post_processing(), stir::RelativeDifferencePrior< elemT >::post_processing(), stir::ScatterEstimation::post_processing(), stir::ScatterEstimation::process_data(), stir::DiscretisedDensity< num_dimensions, elemT >::read_from_file(), read_from_file(), read_from_file(), stir::MatchTrackerAndScanner::run(), stir::IOTests_ITKMulticomponent::run_tests(), stir::OutputFileFormatTests::run_tests(), stir::stir_mathTests::run_tests(), stir::PLSPrior< elemT >::set_anatomical_filename(), stir::ScatterSimulation::set_density_image_for_scatter_points(), stir::LmToProjData::set_input_data(), stir::PLSPrior< elemT >::set_kappa_filename(), stir::OSSPSReconstruction< TargetT >::set_up(), stir::ProjMatrixByBinSPECTUB::set_up(), and stir::RigidObject3DMotionFromPolaris::synchronise().
◆ read_from_file() [2/2]
|
inline |
Function that reads data from file using the default InputFileFormatRegistry.
This is a convenience function that first reads the FileSignature, then uses InputFileFormatRegistry::find_factory() to find the factory, which then is used to create the object.
Note that (at the time of writing) InputFileFormatRegistry::find_factory() calls error() if no matching file format was found.
- Example
References read_from_file().
◆ write_to_file()
|
inline |
Function that writes data to file using the default OutputFileFormat.
This is a convenience function that uses OutputFileFormat::default_sptr(). It calls error() when the writing failed.
- Returns
- The actual filename being used (which might be different if no extension was specified).
- warning
The output file format class used is not for DataT but actually for DataT::hierarchy_base_type. This is necessary such that this function can work for data being from a derived class (e.g. VoxelsOnCartesianGrid) while the output file format is defined for the base (i.e. DiscretisedDensity).
Sadly, this requires that the DataT::hierarchy_base_type typedef exists.
References stir::OutputFileFormat< DataT >::default_sptr(), error(), and write_to_file().
Referenced by stir::ReconstructionTests< TargetT >::compare(), stir::ParametricQuadraticPrior< TargetT >::compute_gradient(), stir::PLSPrior< elemT >::compute_gradient(), stir::QuadraticPrior< elemT >::compute_gradient(), stir::RelativeDifferencePrior< elemT >::compute_gradient(), stir::ObjectiveFunctionTests< ObjectiveFunctionT, TargetT >::test_gradient(), stir::ObjectiveFunctionTests< ObjectiveFunctionT, TargetT >::test_Hessian(), stir::GeneralisedPriorTests::test_Hessian_against_numerical(), stir::ObjectiveFunctionTests< ObjectiveFunctionT, TargetT >::test_Hessian_concavity(), write_to_file(), and stir::GatedDiscretisedDensity::write_to_files().
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