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java.lang.Objectorg.biomage.Experiment.Experiment_package
public class Experiment_package
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 | |
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class |
Experiment_package.Experiment_list
Inner list class for holding multiple entries for attribute experiment. |
Field Summary | |
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Experiment_package.Experiment_list |
experiment_list
The Experiment is the collection of all the BioAssays that are related by the ExperimentDesign. |
Constructor Summary | |
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Experiment_package()
Default constructor. |
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Experiment_package(org.xml.sax.Attributes atts)
Attribute constructor. |
Method Summary | |
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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 |
boolean |
emptyMAGEobject()
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Experiment_package.Experiment_list |
getExperiment_list()
Get method for experiment_list |
Experiment |
getFromExperiment_list(int position)
Method to get Experiment from Experiment_list |
java.lang.String |
getModelClassName()
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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 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 java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
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public Experiment_package.Experiment_list experiment_list
Constructor Detail |
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public Experiment_package()
public Experiment_package(org.xml.sax.Attributes atts)
atts:
- the attribute list.Method Detail |
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public void writeMAGEML(java.io.Writer out) throws java.io.IOException
java.io.IOException
public boolean emptyMAGEobject()
public void writeAttributes(java.io.Writer out) throws java.io.IOException
java.io.IOException
public void writeAssociations(java.io.Writer out) throws java.io.IOException
java.io.IOException
public java.lang.String getModelClassName()
public void setExperiment_list(Experiment_package.Experiment_list experiment_list)
value
- to setpublic Experiment_package.Experiment_list getExperiment_list()
public void addToExperiment_list(Experiment experiment)
public void addToExperiment_list(int position, Experiment experiment)
public Experiment getFromExperiment_list(int position)
public void removeElementAtFromExperiment_list(int position)
public void removeFromExperiment_list(Experiment experiment)
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