Uses of Interface
org.openscience.cdk.io.ISimpleChemObjectReader

Packages that use ISimpleChemObjectReader

Package	Description
org.openscience.cdk.io
org.openscience.cdk.io.random
org.openscience.cdk.io.rdf

Uses of ISimpleChemObjectReader in org.openscience.cdk.io

Classes in org.openscience.cdk.io that implement ISimpleChemObjectReader

Modifier and Type	Class and Description
class	CIFReader This is not a reader for the CIF and mmCIF crystallographic formats.
class	CMLReader Reads a molecule in CML 1.x and 2.0 format.
class	CrystClustReader
class	CTXReader Reader that extracts information from the IDENT, NAME, ATOMS and BONDS blocks in CTX files.
class	DefaultChemObjectReader Abstract class that ChemObjectReader's can implement to have it take care of basic stuff, like managing the ReaderListeners.
class	GamessReader A reader for GAMESS log file.
class	Gaussian03Reader A reader for Gaussian03 output.
class	Gaussian98Reader A reader for Gaussian98 output.
class	GhemicalMMReader Reads Ghemical ( http://www.uku.fi/~thassine/ghemical/) molecular mechanics (*.mm1gp) files.
class	HINReader Reads an object from HIN formated input.
class	INChIPlainTextReader Reads the content of a IUPAC/NIST Chemical Identifier (INChI) plain text document.
class	INChIReader Reads the content of a IUPAC/NIST Chemical Identifier (INChI) document.
class	MDLReader Deprecated. This reader is only for molfiles without a version tag, typically the most common molfile now encountered is V2000 and the MDLV2000Reader should be used instead. The V2000 reader can actually read files missing the version tag when in relaxed mode.
class	MDLRXNReader Reads a molecule from an MDL RXN file [Dalby, A. and Nourse, J. G. and Hounshell, W. D. and Gushurst, A. K. and Grier, D. L. and Leland, B. A. and Laufer, J., Description of Several Chemical Structure File Formats Used by Computer Programs Developed at Molecular Design Limited, Journal of Chemical Information and Computer Sciences, 1992, 32:244-255].
class	MDLRXNV2000Reader Reads a molecule from an MDL RXN file [Dalby, A. and Nourse, J. G. and Hounshell, W. D. and Gushurst, A. K. and Grier, D. L. and Leland, B. A. and Laufer, J., Description of Several Chemical Structure File Formats Used by Computer Programs Developed at Molecular Design Limited, Journal of Chemical Information and Computer Sciences, 1992, 32:244-255].
class	MDLRXNV3000Reader Class that implements the new MDL mol format introduced in August 2002.
class	MDLV2000Reader Reads content from MDL molfiles and SD files.
class	MDLV3000Reader Class that implements the MDL mol V3000 format.
class	Mol2Reader Reads a molecule from an Mol2 file, such as written by Sybyl.
class	Mopac7Reader Reads MOPAC output, extracts several electronic parameters and assigns them as a molecule properties.
class	MoSSOutputReader Reader for MoSS output files [Unknown BibTeXML type: BOR2002] which present the results of a substructure mining study.
class	PCCompoundASNReader Reads an object from ASN formated input for PubChem Compound entries.
class	PCCompoundXMLReader Reads an object from ASN.1 XML formated input for PubChem Compound entries.
class	PCSubstanceXMLReader Reads an object from ASN formated input for PubChem Compound entries.
class	PDBReader Reads the contents of a PDBFile.
class	PMPReader Reads an frames from a PMP formated input.
class	RGroupQueryReader A reader for Symyx' Rgroup files (RGFiles).
class	ShelXReader A reader for ShelX output (RES) files.
class	SMILESReader This Reader reads files which has one SMILES string on each line, where the format is given as below:
class	VASPReader Read output files generated with the VASP software.
class	XYZReader Reads an object from XYZ formated input.
class	ZMatrixReader It reads Z matrices like in Gaussian input files.

Methods in org.openscience.cdk.io that return ISimpleChemObjectReader

Modifier and Type	Method and Description
ISimpleChemObjectReader	ReaderFactory.createReader(IChemFormat format) Creates a new IChemObjectReader based on the given IChemFormat.
ISimpleChemObjectReader	ReaderFactory.createReader(InputStream input) Detects the format of the Reader input, and if known, it will return a CDK Reader to read the format, or null when the reader is not implemented.
ISimpleChemObjectReader	ReaderFactory.createReader(Reader input) Detects the format of the Reader input, and if known, it will return a CDK Reader to read the format.

Uses of ISimpleChemObjectReader in org.openscience.cdk.io.random

Fields in org.openscience.cdk.io.random declared as ISimpleChemObjectReader

Modifier and Type	Field and Description
protected ISimpleChemObjectReader	RandomAccessReader.chemObjectReader

Methods in org.openscience.cdk.io.random that return ISimpleChemObjectReader

Modifier and Type	Method and Description
ISimpleChemObjectReader	RandomAccessSDFReader.createChemObjectReader()
abstract ISimpleChemObjectReader	RandomAccessReader.createChemObjectReader()

Methods in org.openscience.cdk.io.random with parameters of type ISimpleChemObjectReader

Modifier and Type	Method and Description
void	RandomAccessReader.setChemObjectReader(ISimpleChemObjectReader chemObjectReader)

Uses of ISimpleChemObjectReader in org.openscience.cdk.io.rdf

Classes in org.openscience.cdk.io.rdf that implement ISimpleChemObjectReader

Modifier and Type	Class and Description
class	CDKOWLReader Reads content from a CDK OWL serialization.