ambit2.db.search.structure

Class QueryStructure

java.lang.Object

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

ambit2.db.search.structure.AbstractStructureQuery<ExactStructureSearchMode,String,net.idea.modbcum.q.conditions.StringCondition>

ambit2.db.search.structure.QueryStructure

All Implemented Interfaces:

Serializable, net.idea.modbcum.i.IParameterizedQuery<ExactStructureSearchMode,String,net.idea.modbcum.q.conditions.StringCondition>, net.idea.modbcum.i.IQueryObject<IStructureRecord>, net.idea.modbcum.i.IQueryRetrieval<IStructureRecord>, net.idea.modbcum.i.IRetrieval<IStructureRecord>, net.idea.modbcum.i.IStatement

public class QueryStructure
extends AbstractStructureQuery<ExactStructureSearchMode,String,net.idea.modbcum.q.conditions.StringCondition>

Search for smiles, inchi, formula

Author:

Nina Jeliazkova nina@acad.bg

See Also:

Serialized Form

Nested Class Summary

Nested classes/interfaces inherited from class ambit2.db.search.structure.AbstractStructureQuery

AbstractStructureQuery.FIELD_NAMES

Field Summary

Fields

Modifier and Type	Field and Description
protected AtomConfigurator	configurator
protected SmilesKey	smilesKey
protected static String	sql_chemical
protected static String	sql_prefered

Fields inherited from class ambit2.db.search.structure.AbstractStructureQuery

chemicalsOnly, group, nanomaterial, order_descendant, 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
QueryStructure()

Method Summary

Modifier and Type	Method and Description
IStructureRecord	getObject(ResultSet rs)
List<net.idea.modbcum.i.query.QueryParam>	getParameters()
String	getSQL()
protected String	normalizeValue()
String	toString()

Methods inherited from class ambit2.db.search.structure.AbstractStructureQuery

calculateMetric, isChemicalsOnly, isNanomaterial, isOrder_descendant, isPreferredStructure, isPrescreen, retrieveMetric, retrieveStrucType, retrieveValue, setChemicalsOnly, setNanomaterial, setOrder_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

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, setId, setPage, setPageSize, supportsPaging

Field Detail

smilesKey

protected SmilesKey smilesKey

configurator

protected AtomConfigurator configurator

sql_chemical

protected static final String sql_chemical

See Also:

Constant Field Values

sql_prefered

protected static final String sql_prefered

See Also:

Constant Field Values

Constructor Detail

QueryStructure

public QueryStructure()

Method Detail

getSQL

public String getSQL()
              throws net.idea.modbcum.i.exceptions.AmbitException

Throws:

net.idea.modbcum.i.exceptions.AmbitException

getParameters

public List<net.idea.modbcum.i.query.QueryParam> getParameters()
                                                        throws net.idea.modbcum.i.exceptions.AmbitException

Throws:

net.idea.modbcum.i.exceptions.AmbitException

normalizeValue

protected String normalizeValue()
                         throws net.idea.modbcum.i.exceptions.AmbitException,
                                org.openscience.cdk.exception.InvalidSmilesException

Throws:

net.idea.modbcum.i.exceptions.AmbitException

org.openscience.cdk.exception.InvalidSmilesException

getObject

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

Specified by:

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

Overrides:

getObject in class AbstractStructureQuery<ExactStructureSearchMode,String,net.idea.modbcum.q.conditions.StringCondition>

Throws:

net.idea.modbcum.i.exceptions.AmbitException

toString

public String toString()

Overrides:

toString in class AbstractQuery<ExactStructureSearchMode,String,net.idea.modbcum.q.conditions.StringCondition,IStructureRecord>