Package chemaxon.standardizer.actions
Class RemoveFragmentAction
java.lang.Object
chemaxon.standardizer.AbstractStandardizerAction
chemaxon.standardizer.actions.RemoveFragmentAction
- All Implemented Interfaces:
chemaxon.license.Licensable
,StandardizerAction
,PropertyChangeListener
,Cloneable
,EventListener
Removal standardizer action
- Since:
- 5.11
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Nested Class Summary
Modifier and TypeClassDescriptionstatic enum
Type of measurementstatic enum
Type of removal methods -
Field Summary
Modifier and TypeFieldDescriptionstatic final String
Key of measurement for parsing and property changestatic final String
Key of method for parsing and property changeFields inherited from class chemaxon.standardizer.AbstractStandardizerAction
CONFIG_PATH_KEY, FORMAT_KEY, ID_KEY, support
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Constructor Summary
ConstructorDescriptionRemoveFragmentAction
(Map<String, String> params) Initializes the action with parameters -
Method Summary
Modifier and TypeMethodDescriptionclone()
getComponents
(Molecule molecule) A recursive algorithm getting all components (reactants, agents and products of reaction molecules, R-group definitions of Rg-Molecules) of the molecule.Gets the measure of the actionGets the method of the actionvoid
setMeasure
(RemoveFragmentAction.Measurement measurement) Sets the measurement of the actionvoid
setMethod
(RemoveFragmentAction.Method method) Sets the method of the actionprotected Changes
standardize1
(Molecule molecule) This method contains the current standardization mechanism.toString()
Methods inherited from class chemaxon.standardizer.AbstractStandardizerAction
addPropertyChangeListener, addPropertyChangeListener, anyBooleanPropertyTrue, cloneItem, getDescriptor, getID, isActive, isAvailable, isLicensed, isValid, propertyChange, removePropertyChangeListener, removePropertyChangeListener, setActive, setID, setLicenseEnvironment, setValid, standardize
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Field Details
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MEASUREMENT_KEY
Key of measurement for parsing and property change- See Also:
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METHOD_KEY
Key of method for parsing and property change- See Also:
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Constructor Details
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RemoveFragmentAction
Initializes the action with parameters- Parameters:
params
- the parameters of the action
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Method Details
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getComponents
Description copied from class:AbstractStandardizerAction
A recursive algorithm getting all components (reactants, agents and products of reaction molecules, R-group definitions of Rg-Molecules) of the molecule. Used to collect all. If components must not be standardized, this method should be overridden.- Overrides:
getComponents
in classAbstractStandardizerAction
- Parameters:
molecule
- the target molecule- Returns:
- the resulted list of components
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setMethod
Sets the method of the action- Parameters:
method
- the method to be set
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setMeasure
Sets the measurement of the action- Parameters:
measurement
- the measurement of the action
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getMethod
Gets the method of the action- Returns:
- the method of the action
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getMeasure
Gets the measure of the action- Returns:
- the measure of the action
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standardize1
Description copied from class:AbstractStandardizerAction
This method contains the current standardization mechanism. Descendants needs to implement this method.
Special molecules containing more components (e.g.RgMolecule
,RxnMolecule
) are decomponented by the methodAbstractStandardizerAction.getComponents(Molecule)
, andAbstractStandardizerAction.standardize1(Molecule)
method is called on each component, before applied on the original molecule. If a descendant does not want this to occur, this method must be overridden.
Logs of standardization should be generated to aLogger
, that can be collected by usingStandardizerLogger.getLogger()
method.- Specified by:
standardize1
in classAbstractStandardizerAction
- Parameters:
molecule
- theMolecule
instance to be standardized- Returns:
- the changes applied on the molecule during the standardization process
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clone
- Overrides:
clone
in classAbstractStandardizerAction
- Throws:
CloneNotSupportedException
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toString
- Overrides:
toString
in classAbstractStandardizerAction
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