chemaxon.standardizer.actions

Class RemoveExplicitHydrogensAction

java.lang.Object

chemaxon.standardizer.AbstractStandardizerAction

chemaxon.standardizer.actions.RemoveExplicitHydrogensAction

All Implemented Interfaces:

chemaxon.license.Licensable, StandardizerAction, java.beans.PropertyChangeListener, java.lang.Cloneable, java.util.EventListener

@PublicAPI
public final class RemoveExplicitHydrogensAction
extends AbstractStandardizerAction

Remove explicit H standardizer action

Since:

5.11

Author:

Imre Barna

Field Summary

Fields

Modifier and Type	Field and Description
static java.lang.String	PROPERTY_KEY_BRIDGEHEAD Bridgehead property
static java.lang.String	PROPERTY_KEY_CHARGED Charged property
static java.lang.String	PROPERTY_KEY_H_CONNECTED H connected property
static java.lang.String	PROPERTY_KEY_ISOTOPIC Isotopic property
static java.lang.String	PROPERTY_KEY_LONELY Lonely property
static java.lang.String	PROPERTY_KEY_MAPPED Mapped property
static java.lang.String	PROPERTY_KEY_METAL_CONNECTED Metal connected property
static java.lang.String	PROPERTY_KEY_POLYMER_END_GROUP Polymer end group property
static java.lang.String	PROPERTY_KEY_RADICAL Radical property
static java.lang.String	PROPERTY_KEY_SGROUP S-group property
static java.lang.String	PROPERTY_KEY_SGROUP_END S-group end property
static java.lang.String	PROPERTY_KEY_VALENCE_ERROR Valence error property
static java.lang.String	PROPERTY_KEY_WEDGED Wedged property

Fields inherited from class chemaxon.standardizer.AbstractStandardizerAction

CONFIG_PATH_KEY, FORMAT_KEY, ID_KEY, support

Constructor Summary

Constructors

Constructor and Description
RemoveExplicitHydrogensAction(java.util.Map<java.lang.String,java.lang.String> params) Initializes the remove explicit H action

Method Summary

Modifier and Type	Method and Description
RemoveExplicitHydrogensAction	clone()
boolean	isBridgehead() Gets the value of property for removing bridgehead H
boolean	isCharged() Gets the value of property for removing charged H
boolean	isHconnected() Gets the value of property for removing H connected H
boolean	isIsotopic() Gets the value of property for removing isotopic H
boolean	isLonely() Gets the value of property for removing lonely H
boolean	isMapped() Gets the value of property for removing mapped H
boolean	isMetalconnected() Gets the value of property for removing metal connected H
boolean	isPolymerendgroup() Gets the value of property for removing polymer end group H
boolean	isRadical() Gets the value of property for removing radical H
boolean	isSgroup() Gets the value of property for removing s-group H
boolean	isSgroupend() Gets the value of property for removing s-group end H
boolean	isValenceerror() Gets the value of property for removing valence error H
boolean	isWedged() Gets the value of property for removing wedged H
void	setBridgehead(boolean bridgehead) Sets the value of property for removing bridgehead H
void	setCharged(boolean charged) Sets the value of property for removing charged H
void	setHconnected(boolean hconnected) Sets the value of property for removing H connected H
void	setIsotopic(boolean isotopic) Sets the value of property for removing isotopic H
void	setLonely(boolean lonely) Sets the value of property for removing lonely H
void	setMapped(boolean mapped) Sets the value of property for removing mapped H
void	setMetalconnected(boolean metalconnected) Sets the value of property for removing metal connected H
void	setPolymerendgroup(boolean polymerendgroup) Sets the value of property for removing polymer end group H
void	setRadical(boolean radical) Sets the value of property for removing radical H
void	setSgroup(boolean sgroup) Sets the value of property for removing s-group H
void	setSgroupend(boolean sgroupend) Sets the value of property for removing s-group end H
void	setValenceerror(boolean valenceerror) Sets the value of property for removing valence error H
void	setWedged(boolean wedged) Sets the value of property for removing wedged H
protected Changes	standardize1(Molecule molecule) This method contains the current standardization mechanism.
java.lang.String	toString()

Methods inherited from class chemaxon.standardizer.AbstractStandardizerAction

addPropertyChangeListener, addPropertyChangeListener, cloneItem, getComponents, getDescriptor, getID, isActive, isAvailable, isLicensed, isValid, propertyChange, removePropertyChangeListener, removePropertyChangeListener, setActive, setID, setLicenseEnvironment, setValid, standardize

Methods inherited from class java.lang.Object

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

Field Detail

PROPERTY_KEY_LONELY

public static final java.lang.String PROPERTY_KEY_LONELY

Lonely property

See Also:

Constant Field Values

PROPERTY_KEY_CHARGED

public static final java.lang.String PROPERTY_KEY_CHARGED

Charged property

See Also:

Constant Field Values

PROPERTY_KEY_MAPPED

public static final java.lang.String PROPERTY_KEY_MAPPED

Mapped property

See Also:

Constant Field Values

PROPERTY_KEY_ISOTOPIC

public static final java.lang.String PROPERTY_KEY_ISOTOPIC

Isotopic property

See Also:

Constant Field Values

PROPERTY_KEY_RADICAL

public static final java.lang.String PROPERTY_KEY_RADICAL

Radical property

See Also:

Constant Field Values

PROPERTY_KEY_WEDGED

public static final java.lang.String PROPERTY_KEY_WEDGED

Wedged property

See Also:

Constant Field Values

PROPERTY_KEY_H_CONNECTED

public static final java.lang.String PROPERTY_KEY_H_CONNECTED

H connected property

See Also:

Constant Field Values

PROPERTY_KEY_METAL_CONNECTED

public static final java.lang.String PROPERTY_KEY_METAL_CONNECTED

Metal connected property

See Also:

Constant Field Values

PROPERTY_KEY_POLYMER_END_GROUP

public static final java.lang.String PROPERTY_KEY_POLYMER_END_GROUP

Polymer end group property

See Also:

Constant Field Values

PROPERTY_KEY_SGROUP_END

public static final java.lang.String PROPERTY_KEY_SGROUP_END

S-group end property

See Also:

Constant Field Values

PROPERTY_KEY_SGROUP

public static final java.lang.String PROPERTY_KEY_SGROUP

S-group property

See Also:

Constant Field Values

PROPERTY_KEY_VALENCE_ERROR

public static final java.lang.String PROPERTY_KEY_VALENCE_ERROR

Valence error property

See Also:

Constant Field Values

PROPERTY_KEY_BRIDGEHEAD

public static final java.lang.String PROPERTY_KEY_BRIDGEHEAD

Bridgehead property

See Also:

Constant Field Values

Constructor Detail

RemoveExplicitHydrogensAction

public RemoveExplicitHydrogensAction(java.util.Map<java.lang.String,java.lang.String> params)

Initializes the remove explicit H action

Parameters:

params - the parameters of the action

Method Detail

standardize1

protected Changes standardize1(Molecule molecule)

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 method AbstractStandardizerAction.getComponents(Molecule), and AbstractStandardizerAction.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 a Logger, that can be collected by using StandardizerLogger.getLogger() method.

Specified by:

standardize1 in class AbstractStandardizerAction

Parameters:

molecule - the Molecule instance to be standardized

Returns:

the changes applied on the molecule during the standardization process

clone

public RemoveExplicitHydrogensAction clone()
                                    throws java.lang.CloneNotSupportedException

Overrides:

clone in class AbstractStandardizerAction

Throws:

java.lang.CloneNotSupportedException

isLonely

public boolean isLonely()

Gets the value of property for removing lonely H

Returns:

property for removing lonely H

setLonely

public void setLonely(boolean lonely)

Sets the value of property for removing lonely H

Parameters:

lonely - property for removing lonely H

isCharged

public boolean isCharged()

Gets the value of property for removing charged H

Returns:

property for removing charged H

setCharged

public void setCharged(boolean charged)

Sets the value of property for removing charged H

Parameters:

charged - property for removing charged H

isMapped

public boolean isMapped()

Gets the value of property for removing mapped H

Returns:

property for removing mapped H

setMapped

public void setMapped(boolean mapped)

Sets the value of property for removing mapped H

Parameters:

mapped - property for removing mapped H

isIsotopic

public boolean isIsotopic()

Gets the value of property for removing isotopic H

Returns:

property for removing isotopic H

setIsotopic

public void setIsotopic(boolean isotopic)

Sets the value of property for removing isotopic H

Parameters:

isotopic - property for removing isotopic H

isRadical

public boolean isRadical()

Gets the value of property for removing radical H

Returns:

property for removing radical H

setRadical

public void setRadical(boolean radical)

Sets the value of property for removing radical H

Parameters:

radical - property for removing radical H

isWedged

public boolean isWedged()

Gets the value of property for removing wedged H

Returns:

property for removing wedged H

setWedged

public void setWedged(boolean wedged)

Sets the value of property for removing wedged H

Parameters:

wedged - property for removing wedged H

isHconnected

public boolean isHconnected()

Gets the value of property for removing H connected H

Returns:

property for removing H connected H

setHconnected

public void setHconnected(boolean hconnected)

Sets the value of property for removing H connected H

Parameters:

hconnected - property for removing H connected H

isMetalconnected

public boolean isMetalconnected()

Gets the value of property for removing metal connected H

Returns:

property for removing metal connected H

setMetalconnected

public void setMetalconnected(boolean metalconnected)

Sets the value of property for removing metal connected H

Parameters:

metalconnected - property for removing metal connected H

isPolymerendgroup

public boolean isPolymerendgroup()

Gets the value of property for removing polymer end group H

Returns:

property for removing polymer end group H

setPolymerendgroup

public void setPolymerendgroup(boolean polymerendgroup)

Sets the value of property for removing polymer end group H

Parameters:

polymerendgroup - property for removing polymer end group H

isSgroupend

public boolean isSgroupend()

Gets the value of property for removing s-group end H

Returns:

property for removing s-group end H

setSgroupend

public void setSgroupend(boolean sgroupend)

Sets the value of property for removing s-group end H

Parameters:

sgroupend - property for removing s-group end H

isSgroup

public boolean isSgroup()

Gets the value of property for removing s-group H

Returns:

property for removing s-group H

setSgroup

public void setSgroup(boolean sgroup)

Sets the value of property for removing s-group H

Parameters:

sgroup - property for removing s-group H

isValenceerror

public boolean isValenceerror()

Gets the value of property for removing valence error H

Returns:

property for removing valence error H

setValenceerror

public void setValenceerror(boolean valenceerror)

Sets the value of property for removing valence error H

Parameters:

valenceerror - property for removing valence error H

isBridgehead

public boolean isBridgehead()

Gets the value of property for removing bridgehead H

Returns:

property for removing bridgehead H

setBridgehead

public void setBridgehead(boolean bridgehead)

Sets the value of property for removing bridgehead H

Parameters:

bridgehead - property for removing bridgehead H

toString

public java.lang.String toString()

Overrides:

toString in class AbstractStandardizerAction