Package chemaxon.structurechecker

Class BasicCheckerRunner

java.lang.Object

chemaxon.structurechecker.BasicCheckerRunner

All Implemented Interfaces:

CheckerRunner

Direct Known Subclasses:

AdvancedCheckerRunner

@PublicApi
@Deprecated
public class BasicCheckerRunner
extends Object
implements CheckerRunner

Deprecated.

Don't use this class directly, use AdvancedCheckerRunner instead.

The default basic implementation of CheckerRunner interface.

Since:

Marvin 5.7

Field Summary

Fields

Modifier and Type	Field	Description
protected Thread	backgroundThread	Deprecated. Background thread.
protected Molecule	molecule	Deprecated. The Molecule instance to check.

Constructor Summary

Constructors

Modifier	Constructor	Description
protected	BasicCheckerRunner(StructureCheckerConfigurationReader configurationReader)	Deprecated. Initiate a BasicCheckerRunner instance which can execute StructureChecker instances read from configurationReader
protected	BasicCheckerRunner(StructureCheckerConfigurationReader configurationReader, CheckerFixerFactory checkerFixerFactory)	Deprecated. Initiate a BasicCheckerRunner instance which can execute StructureChecker instances read from configurationReader
protected	BasicCheckerRunner(List<StructureChecker> checkerList)	Deprecated. Initiate a BasicCheckerRunner instance with specified StructureChecker list.
protected	BasicCheckerRunner(List<StructureChecker> checkerList, boolean addFixers)	Deprecated. Initiate a BasicCheckerRunner instance with specified StructureChecker list.

Method Summary

Modifier and Type	Method	Description
void	addPropertyChangeListener(PropertyChangeListener changeListener)	Deprecated. Adds a PropertyChangeListener that will receive all the PropertyChangeEvent fired by this class
void	addPropertyChangeListener(String propertyName, PropertyChangeListener listener)	Deprecated. Adds a PropertyChangeListener that will receive the PropertyChangeEvent fired when the property with the given name is changed
void	cancel()	Deprecated. Stops the background thread
void	check()	Deprecated. Invokes a background thread which will run all checkers on the given molecule
List<StructureCheckerResult>	checkAndWait()	Deprecated. Executes all the checker instances on the given molecule and returns a List of StructureCheckerResult containing all the identified problems
protected void	convertResult(StructureCheckerResult result)	Deprecated. This method provides the possibility to convert back the affected properties of the result if there was any convert in the molecule structure before check.
boolean	fix()	Deprecated. Runs all StructureChecker on the given molecule and after that fixes all identified problems with the first StructureFixer which is associated with the current problem.
boolean	fix(StructureCheckerResult result)	Deprecated. Fixes the problem identified by result with the first StructureFixer which is associated with the StructureCheckerErrorType of the result.
List<StructureChecker>	getCheckerConfiguration()	Deprecated. Gets the list of available checkers
protected List<StructureChecker>	getCheckerList()	Deprecated. Returns the checkerList
int	getCurrent()	Deprecated.
String	getCurrentCheckerName()	Deprecated.
List<StructureFixer>	getFixers(StructureCheckerResult result)	Deprecated. Returns all the StructureFixer instances which associated with the StructureCheckerErrorType of the result
protected Molecule	getMolecule()	Deprecated. Returns the molecule
int	getProgessLength()	Deprecated.
List<StructureCheckerResult>	getResultList()	Deprecated.
boolean	isChecking()	Deprecated. This function identifies the state of the checker thread
void	setConfigurationReader(StructureCheckerConfigurationReader configurationReader)	Deprecated. Sets a new configuration for the Runner.
void	setIgnoreConfigurationErrors(boolean ignore)	Deprecated. Sets whether configuration errors should be ignored on execution.
void	setMolecule(Molecule molecule)	Deprecated. Sets the molecule to be checked by the checkers

Methods inherited from class java.lang.Object

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

Field Details

molecule

protected Molecule molecule

Deprecated.

The Molecule instance to check.

backgroundThread

protected Thread backgroundThread

Deprecated.

Background thread.

Constructor Details

BasicCheckerRunner

protected BasicCheckerRunner(StructureCheckerConfigurationReader configurationReader)

Deprecated.

Initiate a BasicCheckerRunner instance which can execute StructureChecker instances read from configurationReader

Parameters:

configurationReader - a StructureCheckerConfigurationReader instance

BasicCheckerRunner

protected BasicCheckerRunner(StructureCheckerConfigurationReader configurationReader,
 CheckerFixerFactory checkerFixerFactory)

Deprecated.

Initiate a BasicCheckerRunner instance which can execute StructureChecker instances read from configurationReader

Parameters:

configurationReader - a StructureCheckerConfigurationReader instance

checkerFixerFactory - the factory for fixers

BasicCheckerRunner

protected BasicCheckerRunner(List<StructureChecker> checkerList)

Deprecated.

Initiate a BasicCheckerRunner instance with specified StructureChecker list.

Parameters:

checkerList - the checker list

Since:

5.9

BasicCheckerRunner

protected BasicCheckerRunner(List<StructureChecker> checkerList,
 boolean addFixers)

Deprecated.

Initiate a BasicCheckerRunner instance with specified StructureChecker list.

Parameters:

checkerList - the checker list

addFixers - whether the default set of fixers should be associated to the provided checkers

Since:

6.1

Method Details

setConfigurationReader

public void setConfigurationReader(StructureCheckerConfigurationReader configurationReader)

Deprecated.

Description copied from interface: CheckerRunner

Sets a new configuration for the Runner.

Specified by:

setConfigurationReader in interface CheckerRunner

Parameters:

configurationReader - is the StructureCheckerConfigurationReader instance which provides the current configuraiton

fix

public boolean fix()

Deprecated.

Description copied from interface: CheckerRunner

Runs all StructureChecker on the given molecule and after that fixes all identified problems with the first StructureFixer which is associated with the current problem.

Specified by:

fix in interface CheckerRunner

Returns:

true if the fix ended correctly false otherwise

fix

public boolean fix(StructureCheckerResult result)

Deprecated.

Description copied from interface: CheckerRunner

Fixes the problem identified by result with the first StructureFixer which is associated with the StructureCheckerErrorType of the result.

Specified by:

fix in interface CheckerRunner

Parameters:

result - a StructureCheckerResult instance which identifies the problem

Returns:

true if the fix ended correctly false otherwise

getFixers

public List<StructureFixer> getFixers(StructureCheckerResult result)

Deprecated.

Description copied from interface: CheckerRunner

Returns all the StructureFixer instances which associated with the StructureCheckerErrorType of the result

Specified by:

getFixers in interface CheckerRunner

Parameters:

result - a StructureCheckerResult instance which identifies the current problem

Returns:

a List of StructureFixer

setMolecule

public void setMolecule(Molecule molecule)

Deprecated.

Description copied from interface: CheckerRunner

Sets the molecule to be checked by the checkers

Specified by:

setMolecule in interface CheckerRunner

Parameters:

molecule - a Molecule instance to be checked

check

public void check()

Deprecated.

Description copied from interface: CheckerRunner

Invokes a background thread which will run all checkers on the given molecule

Specified by:

check in interface CheckerRunner

cancel

public void cancel()

Deprecated.

Description copied from interface: CheckerRunner

Stops the background thread

Specified by:

cancel in interface CheckerRunner

getCurrent

public int getCurrent()

Deprecated.

Specified by:

getCurrent in interface CheckerRunner

Returns:

the current progress percent

getCurrentCheckerName

public String getCurrentCheckerName()

Deprecated.

Specified by:

getCurrentCheckerName in interface CheckerRunner

Returns:

which StructureChecker instance run currently

getProgessLength

public int getProgessLength()

Deprecated.

Specified by:

getProgessLength in interface CheckerRunner

Returns:

the length of the checking process

getResultList

public List<StructureCheckerResult> getResultList()

Deprecated.

Specified by:

getResultList in interface CheckerRunner

Returns:

a List of StructureCheckerResult which contains all the dentified problem about the given molecule

isChecking

public boolean isChecking()

Deprecated.

Description copied from interface: CheckerRunner

This function identifies the state of the checker thread

Specified by:

isChecking in interface CheckerRunner

Returns:

true if the background thread runs false otherwise

addPropertyChangeListener

public void addPropertyChangeListener(PropertyChangeListener changeListener)

Deprecated.

Description copied from interface: CheckerRunner

Adds a PropertyChangeListener that will receive all the PropertyChangeEvent fired by this class

Specified by:

addPropertyChangeListener in interface CheckerRunner

Parameters:

changeListener - a PropertyChangeListener instance

addPropertyChangeListener

public void addPropertyChangeListener(String propertyName,
 PropertyChangeListener listener)

Deprecated.

Description copied from interface: CheckerRunner

Adds a PropertyChangeListener that will receive the PropertyChangeEvent fired when the property with the given name is changed

Specified by:

addPropertyChangeListener in interface CheckerRunner

Parameters:

propertyName - the name of the property to be listened

listener - a PropertyChangeListener instance

checkAndWait

public List<StructureCheckerResult> checkAndWait()

Deprecated.

Description copied from interface: CheckerRunner

Executes all the checker instances on the given molecule and returns a List of StructureCheckerResult containing all the identified problems

Specified by:

checkAndWait in interface CheckerRunner

Returns:

a List of StructureCheckerResult containing all the identified problem about the given molecule

convertResult

protected void convertResult(StructureCheckerResult result)

Deprecated.

This method provides the possibility to convert back the affected properties of the result if there was any convert in the molecule structure before check. By default this implementation is empty and isn't needed to override!

Parameters:

result - the StructureCheckerResult instance

getCheckerList

protected List<StructureChecker> getCheckerList()

Deprecated.

Returns the checkerList

Returns:

the checkerList

getMolecule

protected Molecule getMolecule()

Deprecated.

Returns the molecule

Returns:

the molecule

getCheckerConfiguration

public List<StructureChecker> getCheckerConfiguration()

Deprecated.

Description copied from interface: CheckerRunner

Gets the list of available checkers

Specified by:

getCheckerConfiguration in interface CheckerRunner

Returns:

the list of available checkers

setIgnoreConfigurationErrors

public void setIgnoreConfigurationErrors(boolean ignore)

Deprecated.

Description copied from interface: CheckerRunner

Sets whether configuration errors should be ignored on execution.

Specified by:

setIgnoreConfigurationErrors in interface CheckerRunner

Parameters:

ignore - true if configuration errors should be ignored on execution