org.biomage.Array
Class ManufactureLIMS

java.lang.Object
  extended by org.biomage.Common.Extendable
      extended by org.biomage.Common.Describable
          extended by org.biomage.Array.ManufactureLIMS
All Implemented Interfaces:
SecuredElementItf, java.io.Serializable, HasAuditTrail, HasBioMaterial, HasDescriptions, HasFeature, HasIdentifierLIMS, HasPropertySets, HasSecurity
Direct Known Subclasses:
ManufactureLIMSBiomaterial

public class ManufactureLIMS
extends Describable
implements java.io.Serializable, HasFeature, HasIdentifierLIMS, HasBioMaterial

Information on the physical production of arrays within the laboratory.

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasAuditTrail
HasAuditTrail.AuditTrail_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasDescriptions
HasDescriptions.Descriptions_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasPropertySets
HasPropertySets.PropertySets_list
 
Field Summary
protected  BioMaterial bioMaterial
          The BioMaterial used for the feature.
protected  Feature feature
          The feature whose LIMS information is being described.
protected  DatabaseEntry identifierLIMS
          Association to a LIMS data source for further information on the manufacturing process.
protected  java.lang.String ojbConcreteClass
           
 
Fields inherited from class org.biomage.Common.Describable
security
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
ManufactureLIMS()
          Default constructor.
ManufactureLIMS(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 boolean emptyMAGEobject()
           
 BioMaterial getBioMaterial()
          Get method for bioMaterial
 Feature getFeature()
          Get method for feature
 DatabaseEntry getIdentifierLIMS()
          Get method for identifierLIMS
 java.lang.String getModelClassName()
           
 java.lang.String getQuality()
          Get method for quality
 void setBioMaterial(BioMaterial bioMaterial)
          Set method for bioMaterial
 void setFeature(Feature feature)
          Set method for feature
 void setIdentifierLIMS(DatabaseEntry identifierLIMS)
          Set method for identifierLIMS
 void setQuality(java.lang.String quality)
          Set method for quality
 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.Describable
addToAuditTrail, addToAuditTrail, addToDescriptions, addToDescriptions, getAuditTrail, getDescriptions, getFromAuditTrail, getFromDescriptions, getSecurity, removeElementAtFromAuditTrail, removeElementAtFromDescriptions, removeFromAuditTrail, removeFromDescriptions, setAttributes, setAuditTrail, setDescriptions, setSecurity
 
Methods inherited from class org.biomage.Common.Extendable
addToPropertySets, addToPropertySets, equals, getFromPropertySets, getId, getIsEditable, getPropertySets, getSecuredElementId, isEditable, removeElementAtFromPropertySets, removeFromPropertySets, setId, setIsEditable, setPropertySets, setSecuredElementId, toString
 
Methods inherited from class java.lang.Object
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait
 

Field Detail

ojbConcreteClass

protected java.lang.String ojbConcreteClass

feature

protected Feature feature
The feature whose LIMS information is being described.


bioMaterial

protected BioMaterial bioMaterial
The BioMaterial used for the feature.


identifierLIMS

protected DatabaseEntry identifierLIMS
Association to a LIMS data source for further information on the manufacturing process.

Constructor Detail

ManufactureLIMS

public ManufactureLIMS()
Default constructor.


ManufactureLIMS

public ManufactureLIMS(org.xml.sax.Attributes atts)
Attribute constructor. Looks up the attributes in the parameter and casts them from strings appropriately

Parameters:
atts: - the attribute list.
Method Detail

writeMAGEML

public void writeMAGEML(java.io.Writer out)
                 throws java.io.IOException
writeMAGEML This method is responsible for assembling the attribute and association data into XML. It creates the object tag and then calls the writeAttributes and writeAssociation methods.

Overrides:
writeMAGEML in class Describable
Throws:
java.io.IOException

emptyMAGEobject

public boolean emptyMAGEobject()

writeAttributes

public void writeAttributes(java.io.Writer out)
                     throws java.io.IOException
writeAttributes This method is responsible for assembling the attribute data into XML. It calls the super method to write out all attributes of this class and it's ancestors.

Overrides:
writeAttributes in class Describable
Throws:
java.io.IOException

writeAssociations

public void writeAssociations(java.io.Writer out)
                       throws java.io.IOException
writeAssociations This method is responsible for assembling the association data into XML. It calls the super method to write out all associations of this class's ancestors.

Overrides:
writeAssociations in class Describable
Throws:
java.io.IOException

setQuality

public void setQuality(java.lang.String quality)
Set method for quality

Parameters:
value - to set

getQuality

public java.lang.String getQuality()
Get method for quality

Returns:
value of the attribute

getModelClassName

public java.lang.String getModelClassName()
Overrides:
getModelClassName in class Describable

setFeature

public void setFeature(Feature feature)
Set method for feature

Specified by:
setFeature in interface HasFeature
Parameters:
value - to set

getFeature

public Feature getFeature()
Get method for feature

Specified by:
getFeature in interface HasFeature
Returns:
value of the attribute

setBioMaterial

public void setBioMaterial(BioMaterial bioMaterial)
Set method for bioMaterial

Specified by:
setBioMaterial in interface HasBioMaterial
Parameters:
value - to set

getBioMaterial

public BioMaterial getBioMaterial()
Get method for bioMaterial

Specified by:
getBioMaterial in interface HasBioMaterial
Returns:
value of the attribute

setIdentifierLIMS

public void setIdentifierLIMS(DatabaseEntry identifierLIMS)
Set method for identifierLIMS

Specified by:
setIdentifierLIMS in interface HasIdentifierLIMS
Parameters:
value - to set

getIdentifierLIMS

public DatabaseEntry getIdentifierLIMS()
Get method for identifierLIMS

Specified by:
getIdentifierLIMS in interface HasIdentifierLIMS
Returns:
value of the attribute