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java.lang.Objectorg.biomage.Common.Extendable
org.biomage.Array.FeatureDefect
public class FeatureDefect
Stores the defect information for a feature.
Nested Class Summary |
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Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets |
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HasPropertySets.PropertySets_list |
Field Summary | |
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protected OntologyEntry |
defectType
Indicates the type of defect (e.g. |
protected Feature |
feature
The feature that was manufactured defectively. |
protected PositionDelta |
positionDelta
How the feature deviates in position from the ArrayDesign. |
Fields inherited from class org.biomage.Common.Extendable |
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editable, id, securedElementId |
Constructor Summary | |
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FeatureDefect()
Default constructor. |
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FeatureDefect(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
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boolean |
emptyMAGEobject()
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OntologyEntry |
getDefectType()
Get method for defectType |
Feature |
getFeature()
Get method for feature |
java.lang.String |
getModelClassName()
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PositionDelta |
getPositionDelta()
Get method for positionDelta |
void |
setDefectType(OntologyEntry defectType)
Set method for defectType |
void |
setFeature(Feature feature)
Set method for feature |
void |
setPositionDelta(PositionDelta positionDelta)
Set method for positionDelta |
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.Common.Extendable |
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addToPropertySets, addToPropertySets, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setAttributes, setId, setIsEditable, setPropertySets, setSecuredElementId, toString |
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 OntologyEntry defectType
protected PositionDelta positionDelta
protected Feature feature
Constructor Detail |
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public FeatureDefect()
public FeatureDefect(org.xml.sax.Attributes atts)
atts:
- the attribute list.Method Detail |
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public void writeMAGEML(java.io.Writer out) throws java.io.IOException
writeMAGEML
in class Extendable
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
writeAttributes
in class Extendable
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
writeAssociations
in class Extendable
java.io.IOException
public java.lang.String getModelClassName()
getModelClassName
in class Extendable
public void setDefectType(OntologyEntry defectType)
setDefectType
in interface HasDefectType
value
- to setpublic OntologyEntry getDefectType()
getDefectType
in interface HasDefectType
public void setPositionDelta(PositionDelta positionDelta)
setPositionDelta
in interface HasPositionDelta
value
- to setpublic PositionDelta getPositionDelta()
getPositionDelta
in interface HasPositionDelta
public void setFeature(Feature feature)
setFeature
in interface HasFeature
value
- to setpublic Feature getFeature()
getFeature
in interface HasFeature
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