StandardizerActionRunner (JChem Base API documentation (c) 1998-2020 ChemAxon Ltd.)

All Superinterfaces:

java.lang.Cloneable

All Known Implementing Classes:

BasicStandardizerRunner
```
@PublicAPI
public interface StandardizerActionRunner
extends java.lang.Cloneable
```
The descendant of StandardizerActionRunner interface has to provide the functionality to run StandardizerConfiguration instances automatically on the given molecule.
As standardizer configuration may contain actions in groups, using setTargetGroup(String) and setTargetGroups(String...) methods, the target groups, containing the actions to be executed can be defined.
By default, in case of the provided configuration containing error(s) the runner throws IllegalArgumentException. Configuration errors can be ignored using the method setIgnoreConfigurationErrors(boolean) with true as parameter. In this case the faulty actions are not executed, error message or exception should not occur!
If errors of configuration needs to be checked, use the getConfiguration() method to get the configuration, and check the validity of the configuration by using the function StandardizerConfiguration.isValid().
Standardization can be executed by standardize() and standardizeAndWait() method. The method standardize() executes the standardization in a background thread. The state of the standardization can be gathered using isRunning() method. Using standardizeAndWait() method the thread is blocked until the standardization finishes.
The applied standardizer actions can be collected using getAppliedActions(), and the changes applied on the molecule can be collected using getChanges() method.
Logs are generated to a Logger, that can be collected by using StandardizerLogger.getLogger() method.
Note, that setMolecule(Molecule) method must be called prior standardization.

Since:

5.11

Author:

Imre Barna

Method Summary

All Methods Instance Methods Abstract Methods
Modifier and Type	Method and Description
`void`	`addPropertyChangeListener(java.beans.PropertyChangeListener changeListener)` Adds a `PropertyChangeListener` that will receive all the `PropertyChangeEvent` fired by this class
`void`	`addPropertyChangeListener(java.lang.String propertyName, java.beans.PropertyChangeListener listener)` Adds a `PropertyChangeListener` that will receive the `PropertyChangeEvent` fired when the property with the given name is changed
`void`	`cancel()` Stops the background thread
`java.util.List<StandardizerAction>`	`getAppliedActions()` Gets the list of actions applied in the configuration at the last execution
`java.util.List<Changes>`	`getChanges()` Gets the list of changes applied on the molecule.
`StandardizerConfiguration`	`getConfiguration()` Gets the configuration of the runner
`int`	`getCurrent()` Gets the current progress percent
`java.lang.String`	`getCurrentActionName()` Gets which `StandardizerAction` instance run currently
`int`	`getProgessLength()` Gets the length of the standardization process
`boolean`	`isRunning()` This function identifies the state of the standardizer thread
`void`	`setConfiguration(StandardizerConfiguration configuration)` Sets the configuration of the runner
`void`	`setConfigurationReader(StandardizerConfigurationReader reader)` Sets a new configuration for the runner.
`void`	`setIgnoreConfigurationErrors(boolean ignore)` Sets whether configuration errors should be ignored
`void`	`setLicenseEnvironment(java.lang.String env)` Sets the license environment of the runner
`void`	`setMolecule(Molecule molecule)` Sets the molecule to be standardized by the standardizer actions
`void`	`setTargetGroup(java.lang.String groupName)` Sets the target group of standardizer action of the runner
`void`	`setTargetGroups(java.lang.String... groupNames)` Sets the target groups of standardizer action of the runner
`void`	`standardize()` Invoke a background thread which will run all standardizer actions on the given molecule
`java.util.List<Changes>`	`standardizeAndWait()` Executes all standardizer actions contained by the pre-set configuration on the given molecule and returns the list of applied changes.

- Method Detail
  - setConfigurationReader
```
void setConfigurationReader(StandardizerConfigurationReader reader)
```
    Sets a new configuration for the runner.
    
    Parameters:
    
    reader - is the StandardizerConfigurationReader instance which provides the current configuration
  - standardize
```
void standardize()
          throws java.lang.IllegalArgumentException
```
    Invoke a background thread which will run all standardizer actions on the given molecule
    
    Throws:
    
    java.lang.IllegalArgumentException - if the configuration or the molecule contains errors
  - standardizeAndWait
```
java.util.List<Changes> standardizeAndWait()
                                    throws java.lang.IllegalArgumentException
```
    Executes all standardizer actions contained by the pre-set configuration on the given molecule and returns the list of applied changes. For each action of the configuration there is a change object (or null) in the list.
    
    Returns:
    
    the list of changes applied on the molecule
    
    Throws:
    
    java.lang.IllegalArgumentException - if the configuration or the molecule contains errors
  - cancel
```
void cancel()
```
    Stops the background thread
  - isRunning
```
boolean isRunning()
```
    This function identifies the state of the standardizer thread
    
    Returns:
    
    true if the background thread runs false otherwise
  - getCurrent
```
int getCurrent()
```
    Gets the current progress percent
    
    Returns:
    
    the current progress percent
  - getCurrentActionName
```
java.lang.String getCurrentActionName()
```
    Gets which StandardizerAction instance run currently
    
    Returns:
    
    which StandardizerAction instance run currently
  - getProgessLength
```
int getProgessLength()
```
    Gets the length of the standardization process
    
    Returns:
    
    the length of the standardization process
  - getChanges
```
java.util.List<Changes> getChanges()
```
    Gets the list of changes applied on the molecule. For each action of the configuration there is a change object (or null) in the list.
    
    Returns:
    
    the list of changes applied on the molecule
  - setMolecule
```
void setMolecule(Molecule molecule)
```
    Sets the molecule to be standardized by the standardizer actions
    
    Parameters:
    
    molecule - a Molecule instance to be standardized
  - addPropertyChangeListener
```
void addPropertyChangeListener(java.beans.PropertyChangeListener changeListener)
```
    Adds a PropertyChangeListener that will receive all the PropertyChangeEvent fired by this class
    
    Parameters:
    
    changeListener - a PropertyChangeListener instance
  - addPropertyChangeListener
```
void addPropertyChangeListener(java.lang.String propertyName,
                               java.beans.PropertyChangeListener listener)
```
    Adds a PropertyChangeListener that will receive the PropertyChangeEvent fired when the property with the given name is changed
    
    Parameters:
    
    propertyName - the name of the property to be listened
    
    listener - a PropertyChangeListener instance
  - getConfiguration
```
StandardizerConfiguration getConfiguration()
```
    Gets the configuration of the runner
    
    Returns:
    
    the configuration of the runner
  - setConfiguration
```
void setConfiguration(StandardizerConfiguration configuration)
```
    Sets the configuration of the runner
    
    Parameters:
    
    configuration - the configuration to be set to the runner
  - getAppliedActions
```
java.util.List<StandardizerAction> getAppliedActions()
```
    Gets the list of actions applied in the configuration at the last execution
    
    Returns:
    
    the list of applied actions at the last execution
  - setTargetGroup
```
void setTargetGroup(java.lang.String groupName)
```
    Sets the target group of standardizer action of the runner
    
    Parameters:
    
    groupName - the name of the group of standardizer actions
  - setTargetGroups
```
void setTargetGroups(java.lang.String... groupNames)
```
    Sets the target groups of standardizer action of the runner
    
    Parameters:
    
    groupNames - the names of the groups of standardizer actions
  - setLicenseEnvironment
```
void setLicenseEnvironment(java.lang.String env)
```
    Sets the license environment of the runner
    
    Parameters:
    
    env - the license environment of the runner
  - setIgnoreConfigurationErrors
```
void setIgnoreConfigurationErrors(boolean ignore)
```
    Sets whether configuration errors should be ignored
    
    Parameters:
    
    ignore - whether configuration errors should be ignored

Interface StandardizerActionRunner

Method Summary

Method Detail

setConfigurationReader

standardize

standardizeAndWait

cancel

isRunning

getCurrent

getCurrentActionName

getProgessLength

getChanges

setMolecule

addPropertyChangeListener

addPropertyChangeListener

getConfiguration

setConfiguration

getAppliedActions

setTargetGroup

setTargetGroups

setLicenseEnvironment

setIgnoreConfigurationErrors