Package chemaxon.standardizer.actions
Class NeutralizeAction
java.lang.Object
chemaxon.standardizer.AbstractStandardizerAction
chemaxon.standardizer.actions.NeutralizeAction
- All Implemented Interfaces:
chemaxon.license.Licensable
,StandardizerAction
,PropertyChangeListener
,Cloneable
,EventListener
Neutralization standardizer action
- Since:
- 5.11
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Field Summary
Fields inherited from class chemaxon.standardizer.AbstractStandardizerAction
CONFIG_PATH_KEY, FORMAT_KEY, ID_KEY, support
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Constructor Summary
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Method Summary
Modifier and TypeMethodDescriptiongetComponents
(Molecule molecule) A recursive algorithm getting all components (reactants, agents and products of reaction molecules, R-group definitions of Rg-Molecules) of the molecule.protected Changes
standardize1
(Molecule molecule) This method contains the current standardization mechanism.Methods inherited from class chemaxon.standardizer.AbstractStandardizerAction
addPropertyChangeListener, addPropertyChangeListener, anyBooleanPropertyTrue, clone, cloneItem, getDescriptor, getID, isActive, isAvailable, isLicensed, isValid, propertyChange, removePropertyChangeListener, removePropertyChangeListener, setActive, setID, setLicenseEnvironment, setValid, standardize, toString
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Constructor Details
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NeutralizeAction
Initializes the action- 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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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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