Serialized Form

Package chemaxon.alignment

Exception Class chemaxon.alignment.AlignmentException

class AlignmentException extends Exception implements Serializable

Class chemaxon.alignment.ShapeData

class ShapeData extends Object implements Serializable

serialVersionUID:

1L

Serialized Fields

atoms

chemaxon.alignment.ShapeData.Atom[] atoms

bonds

chemaxon.alignment.ShapeData.Bond[] bonds

coloringScheme

AlignmentProperties.ColoringScheme coloringScheme

maxs

double[] maxs

mins

double[] mins

shapeEnabledAtoms

BitSet shapeEnabledAtoms

Package chemaxon.calculations

Exception Class chemaxon.calculations.CalculatorPluginException

class CalculatorPluginException extends Exception implements Serializable

Exception Class chemaxon.calculations.CalculatorPluginInputException

class CalculatorPluginInputException extends CalculatorPluginException implements Serializable

Package chemaxon.calculations.services

Exception Class chemaxon.calculations.services.ServiceException

class ServiceException extends Exception implements Serializable

Package chemaxon.chemterms

Exception Class chemaxon.chemterms.ChemTermsException

class ChemTermsException extends Exception implements Serializable

Exception Class chemaxon.chemterms.ParseException

class ParseException extends ChemTermsException implements Serializable

Package chemaxon.descriptors

Exception Class chemaxon.descriptors.MDGeneratorException

class MDGeneratorException extends Exception implements Serializable

Exception Class chemaxon.descriptors.MDParametersException

class MDParametersException extends RuntimeException implements Serializable

Exception Class chemaxon.descriptors.SimilarityException

class SimilarityException extends Exception implements Serializable

Package chemaxon.formats

Class chemaxon.formats.Encoding

class Encoding extends Object implements Externalizable

serialVersionUID:

7349357653322173240L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException

Restores object state. For internal use only!

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Saves object state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Exception Class chemaxon.formats.MolExportException

class MolExportException extends IOException implements Serializable

Serialized Fields

molIndex

int molIndex

Exception Class chemaxon.formats.MolFormatException

class MolFormatException extends IOException implements Serializable

Serialized Fields

lineNumberInFile

int lineNumberInFile

lineNumberInRecord

int lineNumberInRecord

Package chemaxon.license.api

Exception Class chemaxon.license.api.LicenseException

class LicenseException extends RuntimeException implements Serializable

Serialized Fields

product

String product

Package chemaxon.marvin.beans

Class chemaxon.marvin.beans.MarvinPane

class MarvinPane extends JRootPane implements Serializable

serialVersionUID:

-9042549845769941129L

Serialized Fields

actionListener

chemaxon.marvin.beans.MarvinPane.MarvinActionListener actionListener

molPanel

chemaxon.marvin.swing.MolPanel molPanel

Underlying panel.

params

String params

Parameter string.

Class chemaxon.marvin.beans.MolRenderer

class MolRenderer extends JPanel implements Serializable

serialVersionUID:

7229361698115302929L

Serialized Fields

printer

MolPrinter printer

Class chemaxon.marvin.beans.MSketch

class MSketch extends Object implements Externalizable

serialVersionUID:

0L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Restores the sketcher's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Saves the sketcher's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.marvin.beans.MSketchPane

class MSketchPane extends MarvinPane implements Serializable

serialVersionUID:

602496692422927170L

Serialized Fields

commonActions

chemaxon.marvin.internal.swing.action.CommonActions commonActions

Class chemaxon.marvin.beans.MView

class MView extends Object implements Externalizable

serialVersionUID:

0L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Restores the viewer's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Saves the viewer's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.marvin.beans.MViewCellEditor

class MViewCellEditor extends AbstractCellEditor implements Serializable

serialVersionUID:

1549621132660875966L

Serialized Fields

editorComponent

MViewPane editorComponent

Class chemaxon.marvin.beans.MViewCellRenderer

class MViewCellRenderer extends MViewPane implements Serializable

serialVersionUID:

5566509759455312369L

Class chemaxon.marvin.beans.MViewPane

class MViewPane extends MarvinPane implements Serializable

serialVersionUID:

-4430811090653077262L

Serialized Fields

preferredSizeSet

boolean preferredSizeSet

Package chemaxon.marvin.common

Class chemaxon.marvin.common.MAction

class MAction extends chemaxon.marvin.internal.swing.action.DelegatingAction implements Serializable

serialVersionUID:

7192487516820206101L

Serialized Fields

accelerators

KeyStroke[] accelerators

actionCommand

String actionCommand

labelDo

String labelDo

labelWhat

String labelWhat

Exception Class chemaxon.marvin.common.MDocStorage.CancellationException

class CancellationException extends Exception implements Serializable

Exception Class chemaxon.marvin.common.MDocStorage.RecordUnavailableException

class RecordUnavailableException extends Exception implements Serializable

Serialized Fields

recordIndex

int recordIndex

Package chemaxon.naming

Exception Class chemaxon.naming.NameFormatException

class NameFormatException extends MolFormatException implements Serializable

Serialized Fields

prefix

String prefix

Exception Class chemaxon.naming.NameFormatException.FilteredCase

class FilteredCase extends NameFormatException implements Serializable

Exception Class chemaxon.naming.NamePrefixException

class NamePrefixException extends NameFormatException implements Serializable

Serialized Fields

token

String token

Package chemaxon.naming.document

Exception Class chemaxon.naming.document.D2SOptionsParser.UnknownOptionException

class UnknownOptionException extends Exception implements Serializable

Package chemaxon.reaction

Exception Class chemaxon.reaction.ReactionException

class ReactionException extends Exception implements Serializable

Package chemaxon.search.api

Exception Class chemaxon.search.api.SearchException

class SearchException extends Exception implements Serializable

Exception Class chemaxon.search.api.SearchTimeoutException

class SearchTimeoutException extends SearchException implements Serializable

Exception Class chemaxon.search.api.UnsupportedQueryException

class UnsupportedQueryException extends IllegalArgumentException implements Serializable

Package chemaxon.search.api.options

Class chemaxon.search.api.options.MolSearchOptions

class MolSearchOptions extends SearchOptions implements Serializable

serialVersionUID:

-6364233804214700841L

Serialized Fields

hitIncludesRNodes

boolean hitIncludesRNodes

If true, the result hit will contain R-nodes with dummy indexes

hitIndexType

int hitIndexType

In case of Markush search specifies the representation of the Markush structure on which the hit indexes are retrieved. (default MARKUSH_HIT_ORIGINAL)

markushEnabled

boolean markushEnabled

Decides whether targets with Markush features should be treated as Markush libraries (true) or just "strange" molecules (false) (default value: false).

queryAbsoluteStereo

boolean queryAbsoluteStereo

If true, chiral centers in the query molecules are regarded as absolute stereo, ignoring the chiral flag. If the molecule contains any enhanced stereo labels, this flag has no effect.

recursiveSMARTSMode

boolean recursiveSMARTSMode

True: at findAll searches only hits are retrieved where the first atom differs as well.

switchOffAllProtectsForTDF

boolean switchOffAllProtectsForTDF

If true, all protect features are switched of during generic tautomer creation

targetAbsoluteStereo

boolean targetAbsoluteStereo

If true, chiral centers in the target molecules are regarded as absolute stereo, ignoring the chiral flag. If the molecule contains any enhanced stereo labels, this flag has no effect.

tautomerEqualityMode

TautomerEqualityMode tautomerEqualityMode

The way tautomer duplication is checked. Used only at duplicate, full and full fragment searches. Internal use only.

tautomerSubstructureMode

TautomerSubstructureMode tautomerSubstructureMode

The way tautomer substructure is checked. Used only at substructure searches. Internal use only.

Class chemaxon.search.api.options.SearchOptions

class SearchOptions extends Object implements Serializable

serialVersionUID:

-6845044337680993338L

Serialized Fields

attachedDataMatch

int attachedDataMatch

Specifies attached data match type Default is SearchConstants.ATTACHED_DATA_MATCH_IGNORE.

attachedDataPrefixes

String attachedDataPrefixes

Data sgroup name prefixes that will be used for comparison When null, all data sgroups will be used.

bridgingRAllowed

boolean bridgingRAllowed

True: different undefined R-atoms can match the same group of atoms. Default value: false.

changedUserComparator

boolean changedUserComparator

True if user-defined comparators has changed

chargeMatching

int chargeMatching

Specifies the charge searching behavior. Default is CHARGE_MATCHING_DEFAULT (charged query matches only charged target, noncharged query matches all)

checkSpHyb

boolean checkSpHyb

If we need to check the sp-hybridization state of the atoms. If used together with vagueBond-4 (SearchConstants.VAGUE_BOND_LEVEL4) option then the bond types are ignored, but the sp hybridization state is still calculated considering the bond types. Benzene matches cyclohexene with double bonds outside (O=C1C(=O)C(=O)C(=O)C(=O)C(=O)1), both planar but different bonds.

Since:

5.1

chemTermsFilterOption

chemaxon.search.base.internal.options.ChemTermsFilterOption chemTermsFilterOption

copolymerMatching

boolean copolymerMatching

True: Polymers in copolymers can only be matched by copolymers (default: false).

dirty

boolean dirty

This flag is set to true whenever any of the options change. It can be used by Search objects to check whether options changed since the previous initialization. (They set the dirty flag to false during their own initialization.)

doubleBondStereoMatchingMode

int doubleBondStereoMatchingMode

Defines the double bond stereo matching mode. Default is DBS_MARKED.

Since:

JChem 2.2

See Also:

• SearchOptions.setDoubleBondStereoMatchingMode(int)

endGroupMatching

boolean endGroupMatching

True: polymer endgroups must match (default: false).

exactBondMatching

boolean exactBondMatching

True, if query bonds match only the same query bonds

exactQueryAtomMatching

boolean exactQueryAtomMatching

If true, query information (e.g. atom list, any atom, number of hydrogens, aromaticity, etc.) in atoms will not be evaluated, but rather exact matching of this information is required. It is useful for searching in query databases. Default value is false.

Since:

JChem 2.2

exactSpecialAtomMatching

String exactSpecialAtomMatching

exhaustiveModeLimit

int exhaustiveModeLimit

Upon reaching this number of steps, the search switches to exhaustive mode from fast mode.

hCountMatching

int hCountMatching

Defines the interpretation of H count in the query. Default is HCOUNT_MATCHING_AUTO.

hitOrdering

int hitOrdering

Specifies hit ordering, currently used in ordering undefined R-atom group matchings Default is SearchConstants.HIT_ORDERING_NONE.

homologyBroadTranslation

HomologyTranslationOption homologyBroadTranslation

If pseudo atoms with homology names are present in the target, they should be handled as homology group not as pseudo atoms. false - handle as pseudo atoms.

homologyNarrowTranslation

HomologyTranslationOption homologyNarrowTranslation

If pseudo atoms with homology names are present in the query, they should be handled as homology group not as pseudo atoms. false - handle as pseudo atoms.

ignoreAxialStereo

boolean ignoreAxialStereo

See Also:

• SearchOptions.setIgnoreAxialStereo(boolean)

ignoreCumuleneCisTransStereo

boolean ignoreCumuleneCisTransStereo

See Also:

• SearchOptions.setIgnoreCumuleneOrRingCisTransStereo(boolean)

ignoreDoubleBondStereo

boolean ignoreDoubleBondStereo

See Also:

• SearchOptions.setIgnoreDoubleBondStereo(boolean)

ignoreSynAntiStereo

boolean ignoreSynAntiStereo

See Also:

• SearchOptions.setIgnoreSynAntiStereo(boolean)

ignoreTetrahedralStereo

boolean ignoreTetrahedralStereo

See Also:

• SearchOptions.setIgnoreTetrahedralStereo(boolean)

implicitHMatching

int implicitHMatching

Specifies match between explicit and implicit hydrogens. Default is IMPLICIT_H_MATCHING_DEFAULT (matching depends on the circumstances of search).

isotopeMatching

int isotopeMatching

Specifies the isotope searching behavior. Default is ISOTOPE_MATCHING_DEFAULT (isotope query matches only isotope target, nonisotope query matches all)

keepQueryOrder

boolean keepQueryOrder

True: instructs search to rearrange query atoms for better search performance.

markushAromHandling

MarkushAromaticityHandlingOption markushAromHandling

Specifies handling Markush aromatization information (ambiguous aromatic rings) during Markush search. Currently, the default is MarkushAromaticityHandlingOption.ALL_MATCH_AMBIG: consider Markush aromatization during Markush search, but do not check the hit afterwards.

mixSgroupMatching

boolean mixSgroupMatching

True: consider COM, MIX and FOR sgroups during search (default value: true).

orderSensitiveSearch

boolean orderSensitiveSearch

Specifies whether the same set of target atoms found in a different order should be considered as a different hit.

phaseShift

boolean phaseShift

True: the phase-shifted polymers are matching on each other (default: true).

polymerMatching

boolean polymerMatching

True: consider polymer sgroups during search (default value: true).

radicalMatching

int radicalMatching

Specifies the radical searching behavior. Default is RADICAL_MATCHING_DEFAULT (radical query matches only radical target, non-radical query matches all)

reactionUnpairedMapMatching

boolean reactionUnpairedMapMatching

True: in reaction search unpaired (orphan and widow) atom maps can match any atom map (default value: true).

rLigandEqualityCheck

boolean rLigandEqualityCheck

True: undefined R-atoms with the same R-group ID should match the same structure. Default value: true.

searchType

int searchType

Search type: global mode of search.

ssrOption

SetOfSmallestRingsOption ssrOption

Which set of smallest rings to use for property calculations.

stereoModel

int stereoModel

Specifies the used stereo model.

stereoSearchType

int stereoSearchType

The way stereo information is considered in searching. Default is SearchConstants.STEREO_SPECIFIC.

See Also:

• SearchOptions.setStereoSearchType(int)

targetHomologyMatchingMode

TargetHomologyMatchingMode targetHomologyMatchingMode

tautomerSearch

boolean tautomerSearch

True: tautomer searching is enabled (default value: false).

tautomerSearchOption

int tautomerSearchOption

Specifies the tautomer searching behavior. Default: non-tautomer search, except: duplicate search in tautomer duplicate table

tautomerSearchOptionLeftDefault

boolean tautomerSearchOptionLeftDefault

Shows that tautomerSearch value has not been set.

throwExceptionOnTimeout

boolean throwExceptionOnTimeout

If the search should throw exception upon timeout.

timeoutLimitMilliseconds

int timeoutLimitMilliseconds

The search on a single target timeouts reaching this number of milliseconds.

transformMonomer

boolean transformMonomer

True: monomers are transformed to structural repeating units (default: true).

undefinedRAtom

int undefinedRAtom

Specifies match of undefined r-atom in query Default is SearchConstants.UNDEF_R_MATCHING_GROUP.

undefinedRAtomUserDefined

boolean undefinedRAtomUserDefined

True if undefinedRAtom option is user defined, false if automatically set by RgroupDecomposition depending on whether the original query has undefined R-atoms. Used in RgroupDecomposition only.

userComparators

ArrayList<MolComparator> userComparators

User defined MolComparators

vagueBondLevel

int vagueBondLevel

Option for less strict evaluation of query bonds (e.g. ambiguious aromaticity). Default value is SearchConstants.VAGUE_BOND_LEVEL_HALF

valenceMatching

boolean valenceMatching

True: valence is checked during search (default value: true).

verbose

boolean verbose

For debugging purposes. Public, because it does not count for the dirty flag.

Package chemaxon.struc

Class chemaxon.struc.BondTable

class BondTable extends Object implements Serializable

serialVersionUID:

-8372436801118701137L

Serialized Fields

atomCount

int atomCount

The size of the matrix, the number of atoms in the molecule it represents.

Class chemaxon.struc.ExtraAtomProperties

class ExtraAtomProperties extends Object implements Serializable

serialVersionUID:

-1980229820290558380L

Serialized Fields

aliasstr

String aliasstr

attachParentSgroup

Sgroup attachParentSgroup

countFlags

int countFlags

electronProp

int electronProp

extrargbs

long extrargbs

extrastr

String extrastr

flags

int flags

linkNodeOuterBonds

int linkNodeOuterBonds

list

int[] list

order

int order

qprops

LinkedHashMap<String,Object> qprops

querystr

String querystr

repetitionBits

int repetitionBits

rgroupId

short rgroupId

valence1

short valence1

Class chemaxon.struc.MDocument

class MDocument extends Object implements Serializable

serialVersionUID:

553557622036381832L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a document. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a document. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.MDocument.Prop

class Prop extends MProp implements Serializable

Class chemaxon.struc.MDocumentUtil

class MDocumentUtil extends Object implements Serializable

serialVersionUID:

12600100100892L

Serialized Fields

doc

MDocument doc

Class chemaxon.struc.MObject

class MObject extends Object implements Serializable

serialVersionUID:

2435517510938087080L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.MolAtom

class MolAtom extends Object implements Serializable

serialVersionUID:

-3974070468228529467L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an atom. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an atom. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.MolBond

class MolBond extends Object implements Serializable

serialVersionUID:

3656012871856958335L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a bond. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a bond. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.Molecule

class Molecule extends MoleculeGraph implements Serializable

serialVersionUID:

7275486436840296305L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a molecule. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a molecule. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

id

String id

Class chemaxon.struc.MoleculeGraph

class MoleculeGraph extends Object implements Serializable

serialVersionUID:

-2053719583816270190L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a molecule graph. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a molecule graph. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

hasBicycloStereo

boolean hasBicycloStereo

Molecule has bicyclo stereo information. Can be set by MolAtom.setBicycloStereo(BicycloStereoDescriptor[]).

valenceCheckOptions

ValenceCheckOptions valenceCheckOptions

Valence check options for the molecule.

Class chemaxon.struc.MPoint

class MPoint extends MObject implements Serializable

serialVersionUID:

-3067277054033050963L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.MProp

class MProp extends Object implements Serializable

serialVersionUID:

-5699803671884637223L

Serialized Fields

coordDependent

boolean coordDependent

grinvCC

long grinvCC

Class chemaxon.struc.MPropertyContainer

class MPropertyContainer extends Object implements Externalizable

serialVersionUID:

-2575268570438177098L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Restores the property container's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Saves the property container's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.MSelectionDocument

class MSelectionDocument extends MDocument implements Serializable

serialVersionUID:

2379294894434293119L

Class chemaxon.struc.PageSettings

class PageSettings extends Object implements Externalizable

serialVersionUID:

-7674028514396457694L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Throws:

IOException

ClassNotFoundException

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Throws:

IOException

Class chemaxon.struc.Point3D

class Point3D extends Object implements Externalizable

serialVersionUID:

0L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Deserializes a 3D point.

Parameters:

in - the object input stream

Throws:

IOException

ClassNotFoundException

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Serializes a 3D point.

Parameters:

out - the object output stream

Throws:

IOException

Class chemaxon.struc.QueryBond

class QueryBond extends MolBond implements Serializable

serialVersionUID:

-5025485107616067648L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a bond. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a bond. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.RgMolecule

class RgMolecule extends Molecule implements Serializable

serialVersionUID:

-939153732283455787L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an RgMolecule. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an RgMolecule. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.RxnMolecule

class RxnMolecule extends Molecule implements Serializable

serialVersionUID:

-2863036104564183121L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a reaction. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a reaction. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.SelectionMolecule

class SelectionMolecule extends MoleculeGraph implements Serializable

serialVersionUID:

234062772192819675L

Class chemaxon.struc.Sgroup

class Sgroup extends Object implements Serializable

serialVersionUID:

-6209766549185582411L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

id

String id

Class chemaxon.struc.Transform3D

class Transform3D extends Object implements Externalizable

serialVersionUID:

0L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException

Deserializes a transformation matrix.

Parameters:

in - the object input stream

Throws:

IOException

Since:

3.5, 11/02/2004

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Serializes a transformation matrix.

Parameters:

out - the object output stream

Throws:

IOException

Since:

3.5, 11/02/2004

Class chemaxon.struc.ValenceCheckOptions

class ValenceCheckOptions extends Object implements Serializable

serialVersionUID:

568843891825099500L

Serialized Fields

localAromatic

boolean localAromatic

traditionalNAllowed

boolean traditionalNAllowed

Package chemaxon.struc.graphics

Class chemaxon.struc.graphics.MAnalysisBox

class MAnalysisBox extends MTextBox implements Serializable

serialVersionUID:

-7630363128405095856L

Serialized Fields

mol

Molecule mol

terms

List<MAnalysisBoxTerm> terms

Class chemaxon.struc.graphics.MAssigner

class MAssigner extends MPolyline implements Serializable

serialVersionUID:

-2655833749380842667L

Serialized Fields

order

int order

Class chemaxon.struc.graphics.MAtomSetPoint

class MAtomSetPoint extends MPoint implements Serializable

serialVersionUID:

5932389976054063500L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MBracket

class MBracket extends MRectangle implements Serializable

serialVersionUID:

-5775562691065011181L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

bracketOrientation

int bracketOrientation

Bracket orientation, bracket can have two sides (T_DOUBLE) or just one (T_SINGLE). Possible values: T_SINGLE, T_DOUBLE

bracketType

int bracketType

Class chemaxon.struc.graphics.MChemicalStruct

class MChemicalStruct extends MObject implements Serializable

serialVersionUID:

7098670860634457343L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MEFlow

class MEFlow extends MPolyline implements Serializable

serialVersionUID:

891769518407563834L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

baseElectronContainerIndex

int baseElectronContainerIndex

baseElectronIndexInContainer

int baseElectronIndexInContainer

Class chemaxon.struc.graphics.MEFlowBasePoint

class MEFlowBasePoint extends MPoint implements Serializable

serialVersionUID:

1053944912020926984L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

electronIndex

int electronIndex

electronLabel

String electronLabel

Class chemaxon.struc.graphics.MElectron

class MElectron extends MAtomSetPoint implements Serializable

serialVersionUID:

-8283439146748878340L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws IOException

Throws:

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Throws:

IOException

Serialized Fields

difLoc

Point3D difLoc

isPointed

boolean isPointed

Class chemaxon.struc.graphics.MElectronContainer

class MElectronContainer extends MObject implements Serializable

serialVersionUID:

-3884760512825096006L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws IOException,
ClassNotFoundException

Throws:

IOException

ClassNotFoundException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Throws:

IOException

Serialized Fields

electronOccupation

boolean[] electronOccupation

electrons

MElectron[] electrons

radical

boolean radical

Class chemaxon.struc.graphics.MEllipse

class MEllipse extends MRectangle implements Serializable

serialVersionUID:

-1833510352719329019L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MFont

class MFont extends Object implements Serializable

serialVersionUID:

-7769715209509613515L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MMidPoint

class MMidPoint extends MPoint implements Serializable

serialVersionUID:

5307361876930807239L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MMidPoint.Sticky

class Sticky extends MMidPoint implements Serializable

serialVersionUID:

3223068581543532992L

Class chemaxon.struc.graphics.MMoleculeMovie

class MMoleculeMovie extends MObject implements Serializable

serialVersionUID:

6476041884742537582L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MNameTextBox

class MNameTextBox extends MTextBox implements Serializable

serialVersionUID:

6302424343157644471L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MPolyline

class MPolyline extends MObject implements Serializable

serialVersionUID:

4958026600768388648L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

internalPointAddCount

int internalPointAddCount

internalPointPos

int internalPointPos

Class chemaxon.struc.graphics.MRArrow

class MRArrow extends MPolyline implements Serializable

serialVersionUID:

8638690394107448092L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MReactionSign

class MReactionSign extends MTextBox implements Serializable

serialVersionUID:

-7025949002857142442L

Class chemaxon.struc.graphics.MRectangle

class MRectangle extends MPolyline implements Serializable

serialVersionUID:

2948229815278089239L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MRectanglePoint

class MRectanglePoint extends MPoint implements Serializable

serialVersionUID:

-3067277054033050963L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MRectanglePoint.Sticky

class Sticky extends MRectanglePoint implements Serializable

serialVersionUID:

3364078480306200948L

Class chemaxon.struc.graphics.MRoundedRectangle

class MRoundedRectangle extends MRectangle implements Serializable

serialVersionUID:

-9173206895507745852L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

arcHeight

double arcHeight

arcWidth

double arcWidth

Class chemaxon.struc.graphics.MTextAttributes

class MTextAttributes extends Object implements Externalizable

serialVersionUID:

6561552003080652755L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Throws:

IOException

ClassNotFoundException

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Throws:

IOException

Class chemaxon.struc.graphics.MTextBox

class MTextBox extends MRectangle implements Serializable

serialVersionUID:

-7272723232157967384L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes the object. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.graphics.MTextDocument

class MTextDocument extends Object implements Externalizable

serialVersionUID:

6305880304790247656L

Serialization Methods

readExternal

public void readExternal(ObjectInput in)
                  throws IOException,
ClassNotFoundException

Restores the document.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeExternal

public void writeExternal(ObjectOutput out)
                   throws IOException

Saves the document.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Package chemaxon.struc.prop

Class chemaxon.struc.prop.MBooleanProp

class MBooleanProp extends MProp implements Serializable

serialVersionUID:

-5366978422380739811L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MByteArrayProp

class MByteArrayProp extends MProp implements Serializable

serialVersionUID:

-4046371792715339701L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MCollectionProp

class MCollectionProp extends MProp implements Serializable

serialVersionUID:

-7479938988131387052L

Class chemaxon.struc.prop.MDoubleArrayProp

class MDoubleArrayProp extends MProp implements Serializable

serialVersionUID:

-5670039985685584647L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MDoubleProp

class MDoubleProp extends MProp implements Serializable

serialVersionUID:

-1221776439131689653L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MFontProp

class MFontProp extends MProp implements Serializable

serialVersionUID:

2369581307328116455L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Throws:

IOException

ClassNotFoundException

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Throws:

IOException

Class chemaxon.struc.prop.MHashProp

class MHashProp extends MCollectionProp implements Serializable

serialVersionUID:

5457649877894058447L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MHCoords3DProp

class MHCoords3DProp extends MProp implements Serializable

serialVersionUID:

6646271128663088908L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MIntegerArrayProp

class MIntegerArrayProp extends MProp implements Serializable

serialVersionUID:

6651869314046996057L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MIntegerProp

class MIntegerProp extends MProp implements Serializable

serialVersionUID:

-7179550727198941747L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MListProp

class MListProp extends MCollectionProp implements Serializable

serialVersionUID:

5360371881677476960L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MMoleculeProp

class MMoleculeProp extends MProp implements Serializable

serialVersionUID:

-7687559780023024273L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MMoleculeStringProp

class MMoleculeStringProp extends MStringProp implements Serializable

serialVersionUID:

-1005074014113755196L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Serialized Fields

format

String format

Class chemaxon.struc.prop.MObjectProp

class MObjectProp extends MProp implements Serializable

serialVersionUID:

4005646748655675692L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Class chemaxon.struc.prop.MStringProp

class MStringProp extends MProp implements Serializable

serialVersionUID:

1373831606368751112L

Serialization Methods

readObject

private void readObject(ObjectInputStream in)
                 throws IOException,
ClassNotFoundException

Restores the property's state.

Parameters:

in - the stream to read data from in order to restore the object

Throws:

IOException - if I/O errors occur

ClassNotFoundException - If the class for an object being restored cannot be found.

writeObject

private void writeObject(ObjectOutputStream out)
                  throws IOException

Saves the property's state.

Parameters:

out - the stream to write the object to

Throws:

IOException - Includes any I/O exceptions that may occur

Package chemaxon.struc.sgroup

Class chemaxon.struc.sgroup.AminoAcidSgroup

class AminoAcidSgroup extends SuperatomSgroup implements Serializable

serialVersionUID:

-4078870750580716173L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an amino acid s-group. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

Since:

Marvin 6.1, 2013.05.27.

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an amino acid s-group. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Since:

Marvin 6.1, 2013.05.27.

Serialized Fields

modified

boolean modified

Is the amino acid modified or not.

oneLetterName

String oneLetterName

The one letter name of the amino acid.

threeLetterName

String threeLetterName

The three letter name of the amino acid.

Class chemaxon.struc.sgroup.AttachmentPoint

class AttachmentPoint extends Object implements Serializable

serialVersionUID:

-7484860308765339862L

Serialized Fields

atom

MolAtom atom

bond

MolBond bond

order

int order

Class chemaxon.struc.sgroup.DataSgroup

class DataSgroup extends Sgroup implements Serializable

serialVersionUID:

-3132191586564122343L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a data Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a data Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.sgroup.MulticenterSgroup

class MulticenterSgroup extends Sgroup implements Serializable

serialVersionUID:

-7213879722783498112L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a Multicenter Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a Multicenter Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.sgroup.MultipleSgroup

class MultipleSgroup extends Sgroup implements Serializable

serialVersionUID:

-1146464131016252826L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a multiple Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a multiple Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Exception Class chemaxon.struc.sgroup.NoFreeAttachmentPointException

class NoFreeAttachmentPointException extends RuntimeException implements Serializable

Serialized Fields

sga

SgroupAtom sga

Class chemaxon.struc.sgroup.RepeatingUnitSgroup

class RepeatingUnitSgroup extends Sgroup implements Serializable

serialVersionUID:

-3209611525734625009L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an SRU S-group. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an SRU S-group. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Class chemaxon.struc.sgroup.SgroupAtom

class SgroupAtom extends MolAtom implements Serializable

serialVersionUID:

-3185634359981637075L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes an Sgroup superatom. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes an Sgroup superatom. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException

Serialized Fields

labelCenter

int labelCenter

Class chemaxon.struc.sgroup.SuperatomSgroup

class SuperatomSgroup extends Sgroup implements Serializable

serialVersionUID:

2968529752634209305L

Serialization Methods

readObject

private void readObject(ObjectInputStream ois)
                 throws ClassNotFoundException,
IOException

Deserializes a superatom Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

ois - the object input stream

Throws:

ClassNotFoundException

IOException

writeObject

private void writeObject(ObjectOutputStream oos)
                  throws IOException

Serializes a superatom Sgroup. Be extremely cautious when editing this method! Backward compatibility must be maintained.

Parameters:

oos - the object output stream

Throws:

IOException