org.biomage.BioAssay
Class ImageAcquisition

java.lang.Object
  extended by org.biomage.Common.Extendable
      extended by org.biomage.Common.Describable
          extended by org.biomage.Common.Identifiable
              extended by org.biomage.BioEvent.BioEvent
                  extended by org.biomage.BioAssay.BioAssayTreatment
                      extended by org.biomage.BioAssay.ImageAcquisition
All Implemented Interfaces:
SecuredElementItf, java.io.Serializable, HasAuditTrail, HasDescriptions, HasImages, HasPhysicalBioAssay, HasPropertySets, HasProtocolApplications, HasSecurity, HasTarget

public class ImageAcquisition
extends BioAssayTreatment
implements java.io.Serializable, HasImages

The process by which an image is generated (typically scanning).

See Also:
Serialized Form

Nested Class Summary
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasImages
HasImages.Images_list
 
Nested classes/interfaces inherited from interface org.biomage.Interface.HasProtocolApplications
HasProtocolApplications.ProtocolApplications_list
 
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  java.util.List images
          The images produced by the ImageAcquisition event.
 
Fields inherited from class org.biomage.BioAssay.BioAssayTreatment
ojbConcreteClass, physicalBioAssay, target
 
Fields inherited from class org.biomage.Common.Describable
security
 
Fields inherited from class org.biomage.Common.Extendable
editable, id, securedElementId
 
Constructor Summary
ImageAcquisition()
          Default constructor.
ImageAcquisition(org.xml.sax.Attributes atts)
          Attribute constructor.
 
Method Summary
 void addToImages(Image image)
          Method to add Image to Images_list
 void addToImages(int position, Image image)
          Method to add Image at position to Images_list
 boolean emptyMAGEobject()
           
 Image getFromImages(int position)
          Method to get Image from Images_list
 HasImages.Images_list getImages()
          Get method for images
 java.lang.String getModelClassName()
           
 void removeElementAtFromImages(int position)
          Method to remove by position from Images_list
 void removeFromImages(Image image)
          Method to remove first Image from Images_list
 void setAttributes(org.xml.sax.Attributes atts)
           
 void setImages(HasImages.Images_list images)
          Set method for images
 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.BioAssay.BioAssayTreatment
getPhysicalBioAssay, getTarget, setPhysicalBioAssay, setTarget
 
Methods inherited from class org.biomage.BioEvent.BioEvent
addToProtocolApplications, addToProtocolApplications, getFromProtocolApplications, getProtocolApplications, removeElementAtFromProtocolApplications, removeFromProtocolApplications, setProtocolApplications
 
Methods inherited from class org.biomage.Common.Identifiable
getIdentifier, getName, setIdentifier, setName, toString
 
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
 

Field Detail

images

protected java.util.List images
The images produced by the ImageAcquisition event.

Constructor Detail

ImageAcquisition

public ImageAcquisition()
Default constructor.


ImageAcquisition

public ImageAcquisition(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

setAttributes

public void setAttributes(org.xml.sax.Attributes atts)
Overrides:
setAttributes in class BioAssayTreatment

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 BioAssayTreatment
Throws:
java.io.IOException

emptyMAGEobject

public boolean emptyMAGEobject()
Overrides:
emptyMAGEobject in class BioAssayTreatment

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 BioAssayTreatment
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 BioAssayTreatment
Throws:
java.io.IOException

getModelClassName

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

setImages

public void setImages(HasImages.Images_list images)
Set method for images

Specified by:
setImages in interface HasImages
Parameters:
value - to set

getImages

public HasImages.Images_list getImages()
Get method for images

Specified by:
getImages in interface HasImages
Returns:
value of the attribute

addToImages

public void addToImages(Image image)
Method to add Image to Images_list

Specified by:
addToImages in interface HasImages

addToImages

public void addToImages(int position,
                        Image image)
Method to add Image at position to Images_list

Specified by:
addToImages in interface HasImages

getFromImages

public Image getFromImages(int position)
Method to get Image from Images_list

Specified by:
getFromImages in interface HasImages

removeElementAtFromImages

public void removeElementAtFromImages(int position)
Method to remove by position from Images_list

Specified by:
removeElementAtFromImages in interface HasImages

removeFromImages

public void removeFromImages(Image image)
Method to remove first Image from Images_list

Specified by:
removeFromImages in interface HasImages