org.biomage.DesignElement
Class DesignElement
java.lang.Object
org.biomage.Common.Extendable
org.biomage.Common.Describable
org.biomage.Common.Identifiable
org.biomage.DesignElement.DesignElement
- All Implemented Interfaces:
- SecuredElementItf, java.io.Serializable, HasAuditTrail, HasControlType, HasDescriptions, HasPropertySets, HasSecurity
- Direct Known Subclasses:
- CompositeSequence, Feature, Reporter
public abstract class DesignElement
- extends Identifiable
- implements java.io.Serializable, HasControlType
An element of an array. This is generally of type feature but can be
specified as reporters or compositeSequence for arrays that are
abstracted from a physical array.
- See Also:
- Serialized Form
Field Summary |
protected OntologyEntry |
controlType
If the design element represents a control, the type of control
it is (normalization, deletion, negative, positive, etc.) |
Methods inherited from class org.biomage.Common.Describable |
addToAuditTrail, addToAuditTrail, addToDescriptions, addToDescriptions, getAuditTrail, getDescriptions, getFromAuditTrail, getFromDescriptions, getSecurity, removeElementAtFromAuditTrail, removeElementAtFromDescriptions, removeFromAuditTrail, removeFromDescriptions, 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 |
Methods inherited from class java.lang.Object |
clone, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
controlType
protected OntologyEntry controlType
- If the design element represents a control, the type of control
it is (normalization, deletion, negative, positive, etc.)
DesignElement
public DesignElement()
- Default constructor.
DesignElement
public DesignElement(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.
setAttributes
public void setAttributes(org.xml.sax.Attributes atts)
- Overrides:
setAttributes
in class Identifiable
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 Identifiable
- Throws:
java.io.IOException
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 Identifiable
- 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 Identifiable
- Throws:
java.io.IOException
getModelClassName
public java.lang.String getModelClassName()
- Overrides:
getModelClassName
in class Identifiable
setControlType
public void setControlType(OntologyEntry controlType)
- Set method for controlType
- Specified by:
setControlType
in interface HasControlType
- Parameters:
value
- to set
getControlType
public OntologyEntry getControlType()
- Get method for controlType
- Specified by:
getControlType
in interface HasControlType
- Returns:
- value of the attribute