Package ubic.gemma.core.analysis.sequence

Class ArrayDesignMapResultServiceImpl

java.lang.Object

ubic.gemma.core.analysis.sequence.ArrayDesignMapResultServiceImpl

All Implemented Interfaces:

ArrayDesignMapResultService

@Component
public class ArrayDesignMapResultServiceImpl
extends Object
implements ArrayDesignMapResultService

Supports obtaining detailed information about the sequence analysis of probes on microarrays.

Author:

Paul

Constructor Summary

Constructors

Constructor	Description
ArrayDesignMapResultServiceImpl(BlatResultService blatResultService, BlatAssociationService blatAssociationService, ArrayDesignService arrayDesignService, CompositeSequenceService compositeSequenceService)

Method Summary

Modifier and Type	Method	Description
Collection<CompositeSequenceMapValueObject>	getSummaryMapValueObjects(Collection<Object[]> sequenceData)	FIXME this is only public so we can use it in the DesignElementController; need refactoring (see CompositeSequenceService) Function to get a collection of CompositeSequenceMapValueObjects that contain information about a composite sequence and related tables.
Collection<CompositeSequenceMapValueObject>	getSummaryMapValueObjects(ArrayDesign arrayDesign)
Collection<CompositeSequenceMapSummary>	summarizeMapResults(Collection<CompositeSequence> compositeSequences)	Non-HQL version of the composite sequence data summary query.
Collection<CompositeSequenceMapSummary>	summarizeMapResults(ArrayDesign arrayDesign)

Methods inherited from class java.lang.Object

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

Constructor Detail

ArrayDesignMapResultServiceImpl

@Autowired
public ArrayDesignMapResultServiceImpl(BlatResultService blatResultService,
                                       BlatAssociationService blatAssociationService,
                                       ArrayDesignService arrayDesignService,
                                       CompositeSequenceService compositeSequenceService)

Method Detail

summarizeMapResults

public Collection<CompositeSequenceMapSummary> summarizeMapResults(ArrayDesign arrayDesign)

Specified by:

summarizeMapResults in interface ArrayDesignMapResultService

getSummaryMapValueObjects

public Collection<CompositeSequenceMapValueObject> getSummaryMapValueObjects(ArrayDesign arrayDesign)

Specified by:

getSummaryMapValueObjects in interface ArrayDesignMapResultService

getSummaryMapValueObjects

public Collection<CompositeSequenceMapValueObject> getSummaryMapValueObjects(Collection<Object[]> sequenceData)

Description copied from interface: ArrayDesignMapResultService

FIXME this is only public so we can use it in the DesignElementController; need refactoring (see CompositeSequenceService) Function to get a collection of CompositeSequenceMapValueObjects that contain information about a composite sequence and related tables.

Specified by:

getSummaryMapValueObjects in interface ArrayDesignMapResultService

Parameters:

sequenceData - sequence data

Returns:

composite sequence VOS

summarizeMapResults

public Collection<CompositeSequenceMapSummary> summarizeMapResults(Collection<CompositeSequence> compositeSequences)

Description copied from interface: ArrayDesignMapResultService

Non-HQL version of the composite sequence data summary query. Returns a summary of the composite sequence data and related tables.

Specified by:

summarizeMapResults in interface ArrayDesignMapResultService

Parameters:

compositeSequences - composite sequences

Returns:

composite sequence map summaries