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java.lang.Objectorg.biomage.Common.Extendable
org.biomage.Common.Describable
org.biomage.Common.Identifiable
org.biomage.BioEvent.BioEvent
org.biomage.BioAssay.FeatureExtraction
public class FeatureExtraction
The process by which data is extracted from an image producing a measuredBioAssayData and a measuredBioAssay.
Nested Class Summary |
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Nested classes/interfaces inherited from interface org.biomage.Interface.HasProtocolApplications |
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HasProtocolApplications.ProtocolApplications_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasAuditTrail |
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HasAuditTrail.AuditTrail_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasDescriptions |
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HasDescriptions.Descriptions_list |
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets |
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HasPropertySets.PropertySets_list |
Field Summary | |
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protected MeasuredBioAssay |
measuredBioAssayTarget
The association between the MeasuredBioAssay and the FeatureExtraction Event. |
protected PhysicalBioAssay |
physicalBioAssaySource
The PhysicalBioAssay used in the FeatureExtraction event. |
Fields inherited from class org.biomage.Common.Describable |
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security |
Fields inherited from class org.biomage.Common.Extendable |
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editable, id, securedElementId |
Constructor Summary | |
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FeatureExtraction()
Default constructor. |
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FeatureExtraction(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
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boolean |
emptyMAGEobject()
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MeasuredBioAssay |
getMeasuredBioAssayTarget()
Get method for measuredBioAssayTarget |
java.lang.String |
getModelClassName()
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PhysicalBioAssay |
getPhysicalBioAssaySource()
Get method for physicalBioAssaySource |
void |
setAttributes(org.xml.sax.Attributes atts)
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void |
setMeasuredBioAssayTarget(MeasuredBioAssay measuredBioAssayTarget)
Set method for measuredBioAssayTarget |
void |
setPhysicalBioAssaySource(PhysicalBioAssay physicalBioAssaySource)
Set method for physicalBioAssaySource |
void |
writeAssociations(java.io.Writer out)
writeAssociations This method is responsible for assembling the association data into XML. |
void |
writeAttributes(java.io.Writer out)
writeAttributes This method is responsible for assembling the attribute data into XML. |
void |
writeMAGEML(java.io.Writer out)
writeMAGEML This method is responsible for assembling the attribute and association data into XML. |
Methods inherited from class org.biomage.BioEvent.BioEvent |
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addToProtocolApplications, addToProtocolApplications, getFromProtocolApplications, getProtocolApplications, removeElementAtFromProtocolApplications, removeFromProtocolApplications, setProtocolApplications |
Methods inherited from class org.biomage.Common.Identifiable |
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getIdentifier, getName, setIdentifier, setName, toString |
Methods inherited from class org.biomage.Common.Describable |
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addToAuditTrail, addToAuditTrail, addToDescriptions, addToDescriptions, getAuditTrail, getDescriptions, getFromAuditTrail, getFromDescriptions, getSecurity, removeElementAtFromAuditTrail, removeElementAtFromDescriptions, removeFromAuditTrail, removeFromDescriptions, setAuditTrail, setDescriptions, setSecurity |
Methods inherited from class org.biomage.Common.Extendable |
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addToPropertySets, addToPropertySets, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setId, setIsEditable, setPropertySets, setSecuredElementId |
Methods inherited from class java.lang.Object |
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clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
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protected PhysicalBioAssay physicalBioAssaySource
protected MeasuredBioAssay measuredBioAssayTarget
Constructor Detail |
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public FeatureExtraction()
public FeatureExtraction(org.xml.sax.Attributes atts)
atts:
- the attribute list.Method Detail |
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public void setAttributes(org.xml.sax.Attributes atts)
setAttributes
in class BioEvent
public void writeMAGEML(java.io.Writer out) throws java.io.IOException
writeMAGEML
in class BioEvent
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
writeAttributes
in class BioEvent
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
writeAssociations
in class BioEvent
java.io.IOException
public java.lang.String getModelClassName()
getModelClassName
in class BioEvent
public void setPhysicalBioAssaySource(PhysicalBioAssay physicalBioAssaySource)
setPhysicalBioAssaySource
in interface HasPhysicalBioAssaySource
value
- to setpublic PhysicalBioAssay getPhysicalBioAssaySource()
getPhysicalBioAssaySource
in interface HasPhysicalBioAssaySource
public void setMeasuredBioAssayTarget(MeasuredBioAssay measuredBioAssayTarget)
setMeasuredBioAssayTarget
in interface HasMeasuredBioAssayTarget
value
- to setpublic MeasuredBioAssay getMeasuredBioAssayTarget()
getMeasuredBioAssayTarget
in interface HasMeasuredBioAssayTarget
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