ambit2.db.search.structure

Class AbstractStructureQuery<F,T,C extends net.idea.modbcum.i.IQueryCondition>

java.lang.Object

ambit2.db.search.AbstractQuery<F,T,C,IStructureRecord>

ambit2.db.search.structure.AbstractStructureQuery<F,T,C>

All Implemented Interfaces:

Serializable, net.idea.modbcum.i.IParameterizedQuery<F,T,C>, net.idea.modbcum.i.IQueryObject<IStructureRecord>, net.idea.modbcum.i.IQueryRetrieval<IStructureRecord>, net.idea.modbcum.i.IRetrieval<IStructureRecord>, net.idea.modbcum.i.IStatement

Direct Known Subclasses:

ChemicalByDataset, ChemicalByQueryFolder, ChemicalBySubstanceRelation, DatasetQueryFieldGeneric, FingerprintsByStatus, FreeTextQuery, MissingFingerprintsQuery, MissingInChIsQuery, NumberQuery, QueryByIdentifierWithStructureFallback, QueryDataset, QueryDatasetByID, QueryDistance, QueryExactStructure, QueryFieldAbstract, QueryFieldNumeric, QueryFunctionalGroups, QueryLookupStructure, QueryMissingDescriptor, QueryMissingDistances, QueryMissingProperty, QueryPrescreenBitSet, QueryQMapStructures, QuerySimilarity, QuerySMARTS, QueryStoredResults, QueryStoredResultsByName, QueryStructure, QueryStructureByID, QueryStructureByProperty, QueryStructureByQuality, QueryStructureByQualityPairLabel, QueryStructureByValueQuality, QueryStructureType, QueryStrucType, ReadChemicalsByBundle, ReadStructureRelation, ReadStructuresByFingerprint, ReadSubstanceRelation

public abstract class AbstractStructureQuery<F,T,C extends net.idea.modbcum.i.IQueryCondition>
extends AbstractQuery<F,T,C,IStructureRecord>
implements net.idea.modbcum.i.IQueryRetrieval<IStructureRecord>

See Also:

Serialized Form

Nested Class Summary

Nested Classes

Modifier and Type	Class and Description
static class	AbstractStructureQuery.FIELD_NAMES

Field Summary

Fields

Modifier and Type	Field and Description
protected boolean	chemicalsOnly
protected static String	group
protected boolean	nanomaterial
protected boolean	order_descendant
protected static String	where_group

Fields inherited from class ambit2.db.search.AbstractQuery

condition, fieldname, id, logger, maxRecords, name, page, selected, value

Fields inherited from interface net.idea.modbcum.i.IQueryRetrieval

NaN

Constructor Summary

Constructors

Constructor and Description
AbstractStructureQuery()

Method Summary

Modifier and Type	Method and Description
double	calculateMetric(IStructureRecord object)
IStructureRecord	getObject(ResultSet rs)
boolean	isChemicalsOnly()
boolean	isNanomaterial()
boolean	isOrder_descendant()
protected boolean	isPreferredStructure()
boolean	isPrescreen()
protected void	retrieveMetric(IStructureRecord record, ResultSet rs)
protected void	retrieveStrucType(IStructureRecord record, ResultSet rs)
protected Object	retrieveValue(ResultSet rs)
void	setChemicalsOnly(boolean chemicalsOnly)
void	setNanomaterial(boolean nanomaterial)
void	setOrder_descendant(boolean order_descendant)

Methods inherited from class ambit2.db.search.AbstractQuery

getCategory, getCondition, getFieldname, getId, getKey, getName, getPage, getPageSize, getValue, isSelected, setCondition, setFieldname, setId, setName, setPage, setPageSize, setSelected, setValue, stringify, supportsPaging, test, 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.IQueryObject

getCategory, getId, getKey, getPage, getPageSize, getParameters, getSQL, setId, setPage, setPageSize, supportsPaging

Field Detail

order_descendant

protected boolean order_descendant

chemicalsOnly

protected boolean chemicalsOnly

nanomaterial

protected boolean nanomaterial

group

protected static final String group

See Also:

Constant Field Values

where_group

protected static final String where_group

See Also:

Constant Field Values

Constructor Detail

AbstractStructureQuery

public AbstractStructureQuery()

Method Detail

isNanomaterial

public boolean isNanomaterial()

setNanomaterial

public void setNanomaterial(boolean nanomaterial)

getObject

public IStructureRecord getObject(ResultSet rs)
                           throws net.idea.modbcum.i.exceptions.AmbitException

Specified by:

getObject in interface net.idea.modbcum.i.IRetrieval<IStructureRecord>

Throws:

net.idea.modbcum.i.exceptions.AmbitException

isPreferredStructure

protected boolean isPreferredStructure()

retrieveStrucType

protected void retrieveStrucType(IStructureRecord record,
                                 ResultSet rs)
                          throws SQLException

Throws:

SQLException

retrieveMetric

protected void retrieveMetric(IStructureRecord record,
                              ResultSet rs)
                       throws SQLException

Throws:

SQLException

retrieveValue

protected Object retrieveValue(ResultSet rs)
                        throws SQLException

Throws:

SQLException

isPrescreen

public boolean isPrescreen()

Specified by:

isPrescreen in interface net.idea.modbcum.i.IQueryRetrieval<IStructureRecord>

calculateMetric

public double calculateMetric(IStructureRecord object)

Specified by:

calculateMetric in interface net.idea.modbcum.i.IQueryRetrieval<IStructureRecord>

isChemicalsOnly

public boolean isChemicalsOnly()

setChemicalsOnly

public void setChemicalsOnly(boolean chemicalsOnly)

isOrder_descendant

public boolean isOrder_descendant()

setOrder_descendant

public void setOrder_descendant(boolean order_descendant)