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java.lang.Objectorg.biomage.Common.Extendable
org.biomage.Common.Describable
org.biomage.Common.Identifiable
org.biomage.BioEvent.BioEvent
org.biomage.BioEvent.Map
org.biomage.BioAssayData.QuantitationTypeMap
public class QuantitationTypeMap
A QuantitationTypeMap is the description of how source QuantitationTypes are mathematically transformed into a target QuantitationType.
Nested Class Summary |
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Nested classes/interfaces inherited from interface org.biomage.Interface.HasSourcesQuantitationType |
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HasSourcesQuantitationType.SourcesQuantitationType_list |
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 java.util.List |
sourcesQuantitationType
The QuantitationType sources for values for the transformation. |
protected QuantitationType |
targetQuantitationType
The QuantitationType whose value will be produced from the values of the source QuantitationType according to the Protocol. |
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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QuantitationTypeMap()
Default constructor. |
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QuantitationTypeMap(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
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void |
addToSourcesQuantitationType(int position,
QuantitationType quantitationType)
Method to add QuantitationType at position to SourcesQuantitationType_list |
void |
addToSourcesQuantitationType(QuantitationType quantitationType)
Method to add QuantitationType to SourcesQuantitationType_list |
boolean |
emptyMAGEobject()
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QuantitationType |
getFromSourcesQuantitationType(int position)
Method to get QuantitationType from SourcesQuantitationType_list |
java.lang.String |
getModelClassName()
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HasSourcesQuantitationType.SourcesQuantitationType_list |
getSourcesQuantitationType()
Get method for sourcesQuantitationType |
QuantitationType |
getTargetQuantitationType()
Get method for targetQuantitationType |
void |
removeElementAtFromSourcesQuantitationType(int position)
Method to remove by position from SourcesQuantitationType_list |
void |
removeFromSourcesQuantitationType(QuantitationType quantitationType)
Method to remove first QuantitationType from SourcesQuantitationType_list |
void |
setAttributes(org.xml.sax.Attributes atts)
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void |
setSourcesQuantitationType(HasSourcesQuantitationType.SourcesQuantitationType_list sourcesQuantitationType)
Set method for sourcesQuantitationType |
void |
setTargetQuantitationType(QuantitationType targetQuantitationType)
Set method for targetQuantitationType |
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 QuantitationType targetQuantitationType
protected java.util.List sourcesQuantitationType
Constructor Detail |
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public QuantitationTypeMap()
public QuantitationTypeMap(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 Map
public void writeMAGEML(java.io.Writer out) throws java.io.IOException
writeMAGEML
in class Map
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
writeAttributes
in class Map
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
writeAssociations
in class Map
java.io.IOException
public java.lang.String getModelClassName()
getModelClassName
in class Map
public void setTargetQuantitationType(QuantitationType targetQuantitationType)
setTargetQuantitationType
in interface HasTargetQuantitationType
value
- to setpublic QuantitationType getTargetQuantitationType()
getTargetQuantitationType
in interface HasTargetQuantitationType
public void setSourcesQuantitationType(HasSourcesQuantitationType.SourcesQuantitationType_list sourcesQuantitationType)
setSourcesQuantitationType
in interface HasSourcesQuantitationType
value
- to setpublic HasSourcesQuantitationType.SourcesQuantitationType_list getSourcesQuantitationType()
getSourcesQuantitationType
in interface HasSourcesQuantitationType
public void addToSourcesQuantitationType(QuantitationType quantitationType)
addToSourcesQuantitationType
in interface HasSourcesQuantitationType
public void addToSourcesQuantitationType(int position, QuantitationType quantitationType)
addToSourcesQuantitationType
in interface HasSourcesQuantitationType
public QuantitationType getFromSourcesQuantitationType(int position)
getFromSourcesQuantitationType
in interface HasSourcesQuantitationType
public void removeElementAtFromSourcesQuantitationType(int position)
removeElementAtFromSourcesQuantitationType
in interface HasSourcesQuantitationType
public void removeFromSourcesQuantitationType(QuantitationType quantitationType)
removeFromSourcesQuantitationType
in interface HasSourcesQuantitationType
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