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

---

org.biomage.Experiment
Class Experiment_package  

java.lang.Object
  org.biomage.Experiment.Experiment_package

All Implemented Interfaces:

java.io.Serializable

---

public class Experiment_package

extends java.lang.Object

implements java.io.Serializable

Represents the container for a hierarchical grouping of BioAssays. Can have the end results of Clustering Analysis specified and, through the ExperimentDesign, a description and annotation of the overall design of the experiment and what it was to show.

---

Nested Class Summary
class	Experiment_package.Experiment_list           Inner list class for holding multiple entries for attribute experiment_list.

 

Field Summary
Experiment_package.Experiment_list	experiment_list           The Experiment is the collection of all the BioAssays that are related by the ExperimentDesign.

 

Constructor Summary

Experiment_package()           Default constructor.

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

 

Method Summary
void	addToExperiment_list(Experiment experiment)           Method to add Experiment to Experiment_list
void	addToExperiment_list(int position, Experiment experiment)           Method to add Experiment at position to Experiment_list
Experiment_package.Experiment_list	getExperiment_list()           Get method for experiment_list
Experiment	getFromExperiment_list(int position)           Method to get Experiment from Experiment_list
void	removeElementAtFromExperiment_list(int position)           Method to remove by position from Experiment_list
void	removeFromExperiment_list(Experiment experiment)           Method to remove first Experiment from Experiment_list
void	setExperiment_list(Experiment_package.Experiment_list experiment_list)           Set method for experiment_list
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 java.lang.Object

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

 

Field Detail

experiment_list

public Experiment_package.Experiment_list experiment_list

The Experiment is the collection of all the BioAssays that are related by the ExperimentDesign.

Constructor Detail

Experiment_package

public Experiment_package()

Default constructor.

---

Experiment_package

public Experiment_package(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.

---

setExperiment_list

public void setExperiment_list(Experiment_package.Experiment_list experiment_list)

Set method for experiment_list

---

getExperiment_list

public Experiment_package.Experiment_list getExperiment_list()

Get method for experiment_list

---

addToExperiment_list

public void addToExperiment_list(Experiment experiment)

Method to add Experiment to Experiment_list

---

addToExperiment_list

public void addToExperiment_list(int position,
                                 Experiment experiment)

Method to add Experiment at position to Experiment_list

---

getFromExperiment_list

public Experiment getFromExperiment_list(int position)

Method to get Experiment from Experiment_list

---

removeElementAtFromExperiment_list

public void removeElementAtFromExperiment_list(int position)

Method to remove by position from Experiment_list

---

removeFromExperiment_list

public void removeFromExperiment_list(Experiment experiment)

Method to remove first Experiment from Experiment_list

---

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

---