Overview  Package   Class  Use  Deprecated  Index
Home >> All >> org >> biomage >> [ BioAssay overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

---

org.biomage.BioAssay
Class Channel  

java.lang.Object
  org.biomage.Common.Extendable
      org.biomage.Common.Describable
          org.biomage.Common.Identifiable
              org.biomage.BioAssay.Channel

All Implemented Interfaces:

org.biomage.Interface.HasAuditTrail, org.biomage.Interface.HasDescriptions, org.biomage.Interface.HasLabels, org.biomage.Interface.HasPropertySets, org.biomage.Interface.HasSecurity, java.io.Serializable

---

public class Channel

extends org.biomage.Common.Identifiable

implements java.io.Serializable, org.biomage.Interface.HasLabels

A channel represents an independent acquisition scheme for the ImageAcquisition event, typically a wavelength.

---

Nested Class Summary

 

Nested classes inherited from class org.biomage.Interface.HasLabels

org.biomage.Interface.HasLabels.Labels_list

 

Nested classes inherited from class org.biomage.Interface.HasAuditTrail

org.biomage.Interface.HasAuditTrail.AuditTrail_list

 

Nested classes inherited from class org.biomage.Interface.HasDescriptions

org.biomage.Interface.HasDescriptions.Descriptions_list

 

Nested classes inherited from class org.biomage.Interface.HasPropertySets

org.biomage.Interface.HasPropertySets.PropertySets_list

 

Field Summary
private  org.biomage.Interface.HasLabels.Labels_list	labels           The compound used to label the extract.

 

Fields inherited from class org.biomage.Common.Identifiable

 

Fields inherited from class org.biomage.Common.Describable

 

Fields inherited from class org.biomage.Common.Extendable

 

Constructor Summary

Channel()           Default constructor.

Channel(org.xml.sax.Attributes atts)           Attribute constructor.

 

Method Summary
void	addToLabels(org.biomage.BioMaterial.Compound compound)           Method to add Compound to Labels_list
void	addToLabels(int position, org.biomage.BioMaterial.Compound compound)           Method to add Compound at position to Labels_list
org.biomage.BioMaterial.Compound	getFromLabels(int position)           Method to get Compound from Labels_list
org.biomage.Interface.HasLabels.Labels_list	getLabels()           Get method for labels
void	removeElementAtFromLabels(int position)           Method to remove by position from Labels_list
void	removeFromLabels(org.biomage.BioMaterial.Compound compound)           Method to remove first Compound from Labels_list
void	setLabels(org.biomage.Interface.HasLabels.Labels_list labels)           Set method for labels
void	writeAssociations(java.io.Writer out)           writeAssociations
void	writeAttributes(java.io.Writer out)           writeAttributes
void	writeMAGEML(java.io.Writer out)           writeMAGEML

 

Methods inherited from class org.biomage.Common.Identifiable

getIdentifier, getName, setIdentifier, setName

 

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, getFromPropertySets, getPropertySets, removeElementAtFromPropertySets, removeFromPropertySets, setPropertySets

 

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

 

Field Detail

labels

private org.biomage.Interface.HasLabels.Labels_list labels

The compound used to label the extract.

Constructor Detail

Channel

public Channel()

Default constructor.

---

Channel

public Channel(org.xml.sax.Attributes atts)

Attribute constructor. Looks up the attributes in the parameter and casts them from strings appropriately

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.

---

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.

---

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.

---

setLabels

public void setLabels(org.biomage.Interface.HasLabels.Labels_list labels)

Set method for labels

Specified by:

setLabels in interface org.biomage.Interface.HasLabels

---

getLabels

public org.biomage.Interface.HasLabels.Labels_list getLabels()

Get method for labels

Specified by:

getLabels in interface org.biomage.Interface.HasLabels

---

addToLabels

public void addToLabels(org.biomage.BioMaterial.Compound compound)

Method to add Compound to Labels_list

Specified by:

addToLabels in interface org.biomage.Interface.HasLabels

---

addToLabels

public void addToLabels(int position,
                        org.biomage.BioMaterial.Compound compound)

Method to add Compound at position to Labels_list

Specified by:

addToLabels in interface org.biomage.Interface.HasLabels

---

getFromLabels

public org.biomage.BioMaterial.Compound getFromLabels(int position)

Method to get Compound from Labels_list

Specified by:

getFromLabels in interface org.biomage.Interface.HasLabels

---

removeElementAtFromLabels

public void removeElementAtFromLabels(int position)

Method to remove by position from Labels_list

Specified by:

removeElementAtFromLabels in interface org.biomage.Interface.HasLabels

---

removeFromLabels

public void removeFromLabels(org.biomage.BioMaterial.Compound compound)

Method to remove first Compound from Labels_list

Specified by:

removeFromLabels in interface org.biomage.Interface.HasLabels

---

Overview  Package   Class  Use  Deprecated  Index
Home >> All >> org >> biomage >> [ BioAssay overview ]	PREV CLASS  NEXT CLASS
SUMMARY:  JAVADOC |  SOURCE |  DOWNLOAD | NESTED | FIELD | CONSTR | METHOD	DETAIL: FIELD | CONSTR | METHOD

---