Uses of Class
org.biojava.nbio.structure.io.FileParsingParameters

Packages that use FileParsingParameters

Package	Description
org.biojava.nbio.structure.align.util
org.biojava.nbio.structure.io	Input and Output of Structures
org.biojava.nbio.structure.io.cif

Uses of FileParsingParameters in org.biojava.nbio.structure.align.util

Fields in org.biojava.nbio.structure.align.util declared as FileParsingParameters

Modifier and Type	Field	Description
protected FileParsingParameters	AtomCache.params

Methods in org.biojava.nbio.structure.align.util that return FileParsingParameters

Modifier and Type	Method	Description
FileParsingParameters	AtomCache.getFileParsingParams()

Methods in org.biojava.nbio.structure.align.util with parameters of type FileParsingParameters

Modifier and Type	Method	Description
void	AtomCache.setFileParsingParams(FileParsingParameters params)

Uses of FileParsingParameters in org.biojava.nbio.structure.io

Methods in org.biojava.nbio.structure.io that return FileParsingParameters

Modifier and Type	Method	Description
FileParsingParameters	LocalPDBDirectory.getFileParsingParameters()
FileParsingParameters	PDBFileParser.getFileParsingParameters()
FileParsingParameters	StructureProvider.getFileParsingParameters()	Get the parameters that should be used for file parsing

Methods in org.biojava.nbio.structure.io with parameters of type FileParsingParameters

Modifier and Type	Method	Description
void	LocalPDBDirectory.setFileParsingParameters(FileParsingParameters params)
void	PDBFileParser.setFileParsingParameters(FileParsingParameters params)
void	StructureProvider.setFileParsingParameters(FileParsingParameters params)	Set the parameters that should be used for file parsing

Constructors in org.biojava.nbio.structure.io with parameters of type FileParsingParameters

Constructor	Description
BondMaker(Structure structure, FileParsingParameters params)

Uses of FileParsingParameters in org.biojava.nbio.structure.io.cif

Methods in org.biojava.nbio.structure.io.cif with parameters of type FileParsingParameters

Modifier and Type	Method	Description
static Structure	CifStructureConverter.fromCifFile(org.rcsb.cif.model.CifFile cifFile, FileParsingParameters parameters)	Convert CifFile to Structure.
static Structure	CifStructureConverter.fromInputStream(InputStream inputStream, FileParsingParameters parameters)	Convert InputStream to Structure.
static Structure	CifStructureConverter.fromPath(Path path, FileParsingParameters parameters)	Read data from a file and convert to Structure.
static Structure	CifStructureConverter.fromURL(URL url, FileParsingParameters parameters)	Get data from a URL and convert to Structure.

Constructors in org.biojava.nbio.structure.io.cif with parameters of type FileParsingParameters

Constructor	Description
CifStructureConsumerImpl(FileParsingParameters params)