ambit2.db.processors

Class RepositoryWriter

java.lang.Object

net.idea.modbcum.p.DefaultAmbitProcessor<Target,Result>

net.idea.modbcum.p.AbstractDBProcessor<Target,Result>

ambit2.db.processors.AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

ambit2.db.processors.RepositoryWriter

All Implemented Interfaces:

Serializable, net.idea.modbcum.i.IDBProcessor<IStructureRecord,List<IStructureRecord>>, net.idea.modbcum.i.processors.IProcessor<IStructureRecord,List<IStructureRecord>>

public class RepositoryWriter
extends AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

tables chemicals, structure

http://bugs.mysql.com/bug.php?id=39191

Author:

nina

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class ambit2.db.processors.AbstractRepositoryWriter

AbstractRepositoryWriter.OP

Field Summary

Fields

Modifier and Type	Field and Description
protected String	idchemical_tag
protected StructureNormalizer	normalizer
protected PreparedStatement	ps_seekdataset
protected QueryByIdentifierWithStructureFallback	query
protected QueryFieldNumeric	queryNum
protected static String	seek_dataset
protected DbStructureWriter	structureWriter
protected boolean	useExistingStructure

Fields inherited from class ambit2.db.processors.AbstractRepositoryWriter

exec, operation, queryexec

Fields inherited from class net.idea.modbcum.p.AbstractDBProcessor

closeConnection, connection

Fields inherited from class net.idea.modbcum.p.DefaultAmbitProcessor

enabled, logger, propertyChangeSupport

Constructor Summary

Constructors

Constructor and Description
RepositoryWriter()

Method Summary

Modifier and Type	Method and Description
void	close()
List<IStructureRecord>	create(IStructureRecord arg0)
protected void	findChemical(IStructureRecord record)
SourceDataset	getDataset()
IStructureKey	getPropertyKey()
protected AbstractStructureQuery	getQuery(IStructureRecord record)
boolean	isBuild2D()
boolean	isUseExistingStructure()
void	open()
protected void	prepareStatement(Connection connection)
void	setBuild2D(boolean build2d)
void	setConnection(Connection connection)
void	setDataset(SourceDataset dataset)
void	setPropertyKey(IStructureKey propertyKey)
void	setUseExistingStructure(boolean useExistingStructure)
List<IStructureRecord>	update(IStructureRecord arg0)
List<IStructureRecord>	write(IStructureRecord structure)

Methods inherited from class ambit2.db.processors.AbstractRepositoryWriter

delete, getOperation, process, read, setOperation, transaction

Methods inherited from class net.idea.modbcum.p.AbstractDBProcessor

getConnection, isCloseConnection, isEnabled, setCloseConnection

Methods inherited from class net.idea.modbcum.p.DefaultAmbitProcessor

addPropertyChangeListener, addPropertyChangeListener, getID, removePropertyChangeListener, removePropertyChangeListener, setEnabled, toString

Methods inherited from class java.lang.Object

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

Methods inherited from interface net.idea.modbcum.i.processors.IProcessor

getID, setEnabled

Field Detail

structureWriter

protected DbStructureWriter structureWriter

query

protected QueryByIdentifierWithStructureFallback query

queryNum

protected QueryFieldNumeric queryNum

seek_dataset

protected static final String seek_dataset

See Also:

Constant Field Values

ps_seekdataset

protected PreparedStatement ps_seekdataset

normalizer

protected StructureNormalizer normalizer

useExistingStructure

protected boolean useExistingStructure

idchemical_tag

protected final String idchemical_tag

See Also:

Constant Field Values

Constructor Detail

RepositoryWriter

public RepositoryWriter()

Method Detail

isUseExistingStructure

public boolean isUseExistingStructure()

setUseExistingStructure

public void setUseExistingStructure(boolean useExistingStructure)

isBuild2D

public boolean isBuild2D()

setBuild2D

public void setBuild2D(boolean build2d)

getPropertyKey

public IStructureKey getPropertyKey()

setPropertyKey

public void setPropertyKey(IStructureKey propertyKey)

open

public void open()
          throws net.idea.modbcum.i.exceptions.DbAmbitException

Specified by:

open in interface net.idea.modbcum.i.processors.IProcessor<IStructureRecord,List<IStructureRecord>>

Overrides:

open in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

net.idea.modbcum.i.exceptions.DbAmbitException

setConnection

public void setConnection(Connection connection)
                   throws net.idea.modbcum.i.exceptions.DbAmbitException

Specified by:

setConnection in interface net.idea.modbcum.i.IDBProcessor<IStructureRecord,List<IStructureRecord>>

Overrides:

setConnection in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

net.idea.modbcum.i.exceptions.DbAmbitException

getDataset

public SourceDataset getDataset()

setDataset

public void setDataset(SourceDataset dataset)

getQuery

protected AbstractStructureQuery getQuery(IStructureRecord record)

findChemical

protected void findChemical(IStructureRecord record)
                     throws SQLException,
                            net.idea.modbcum.i.exceptions.AmbitException

Throws:

SQLException

net.idea.modbcum.i.exceptions.AmbitException

write

public List<IStructureRecord> write(IStructureRecord structure)
                             throws SQLException,
                                    net.idea.modbcum.i.exceptions.AmbitException,
                                    OperationNotSupportedException

Overrides:

write in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

SQLException

net.idea.modbcum.i.exceptions.AmbitException

OperationNotSupportedException

prepareStatement

protected void prepareStatement(Connection connection)
                         throws SQLException

Overrides:

prepareStatement in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

SQLException

close

public void close()
           throws Exception

Specified by:

close in interface net.idea.modbcum.i.processors.IProcessor<IStructureRecord,List<IStructureRecord>>

Overrides:

close in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

Exception

update

public List<IStructureRecord> update(IStructureRecord arg0)
                              throws SQLException,
                                     OperationNotSupportedException,
                                     net.idea.modbcum.i.exceptions.AmbitException

Overrides:

update in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

SQLException

OperationNotSupportedException

net.idea.modbcum.i.exceptions.AmbitException

create

public List<IStructureRecord> create(IStructureRecord arg0)
                              throws SQLException,
                                     OperationNotSupportedException,
                                     net.idea.modbcum.i.exceptions.AmbitException

Overrides:

create in class AbstractRepositoryWriter<IStructureRecord,List<IStructureRecord>>

Throws:

SQLException

OperationNotSupportedException

net.idea.modbcum.i.exceptions.AmbitException