com.chemaxon.overlap.io

Class IndexProjectors.IndexProjectorMcb

java.lang.Object

com.chemaxon.overlap.io.IndexProjectors.IndexProjectorMcb

All Implemented Interfaces:

MoleculeCallback

Enclosing class:

IndexProjectors

public static class IndexProjectors.IndexProjectorMcb
extends Object
implements MoleculeCallback

Projector builder over molecule callbacks.

Constructor Summary

Constructors

Constructor and Description
IndexProjectorMcb() Instantiate without forwarding.
IndexProjectorMcb(int skip, MoleculeCallback fwd) Instantiate with a forwarding callback.
IndexProjectorMcb(MoleculeCallback fwd) Instantiate with a forwarding callback.

Method Summary

Modifier and Type	Method and Description
IndexProjector	build() Build serializable, immutable projector.
void	notifyMolecule(int readno, Optional<String> molString, Molecule m, int index) Introduce new processed molecule.
void	notifyParseError(int readno, Optional<String> molString, Throwable t) Notify a parsing error.
void	notifyProcessingError(int readno, Optional<String> molString, Molecule m, Throwable t) Notify a processing error.

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

IndexProjectorMcb

public IndexProjectorMcb()

Instantiate without forwarding.

IndexProjectorMcb

public IndexProjectorMcb(MoleculeCallback fwd)

Instantiate with a forwarding callback.

Parameters:

fwd - Callback to call; use null when no forwarding required

IndexProjectorMcb

public IndexProjectorMcb(int skip,
                         MoleculeCallback fwd)

Instantiate with a forwarding callback.

Parameters:

skip - Skipped in master indexes

fwd - Callback to call; use null when no forwarding required

Method Detail

notifyMolecule

public void notifyMolecule(int readno,
                           Optional<String> molString,
                           Molecule m,
                           int index)

Description copied from interface: MoleculeCallback

Introduce new processed molecule.

Specified by:

notifyMolecule in interface MoleculeCallback

Parameters:

readno - Read molecule count for this event (0 for the first molecule/record in the file). Note that value does not depend on possible index shift value specified for the import method.

molString - Molecule string from underlying MRecord.getMolString() if applicable

m - The given structure. If standardization was specified invocation is made after standardization. In this case the structure represents the standardized structure. In case the descriptor generation alters the molecule the altered molecule is passed.

index - Internal index which will refer to the given structure

notifyProcessingError

public void notifyProcessingError(int readno,
                                  Optional<String> molString,
                                  Molecule m,
                                  Throwable t)

Description copied from interface: MoleculeCallback

Notify a processing error.

This method is invoked when molecule parse was successfull but processing (standardization, descriptor generation, etc. failed

Specified by:

notifyProcessingError in interface MoleculeCallback

Parameters:

readno - Read molecule count for this event (0 for the first molecule/record in the file). Note that value does not depend on possible index shift value specified for the import method.

molString - Molecule string from underlying MRecord.getMolString() if applicable

m - The given structure when error caught. If standardization was specified and error occured during standardization then the state of the structure (original or partially/fully standardized) depends of the internal contracts realized by Standardizer.

t - Processing error

notifyParseError

public void notifyParseError(int readno,
                             Optional<String> molString,
                             Throwable t)

Description copied from interface: MoleculeCallback

Notify a parsing error.

This method is invoked when molecule parse from String format failed.

Specified by:

notifyParseError in interface MoleculeCallback

Parameters:

readno - Read molecule count for this event (0 for the first molecule/record in the file). Note that value does not depend on possible index shift value specified for the import method.

molString - Molecule string from underlying MRecord.getMolString() if applicable

t - Parsing error

build

public IndexProjector build()

Build serializable, immutable projector.

Returns:

ID projector to build.