Class CreateKEGGOrthologyGraphAlgorithm
java.lang.Object
org.graffiti.plugin.algorithm.AbstractAlgorithm
de.ipk_gatersleben.ag_nw.graffiti.plugins.gui.dbe.database_processing.hierarchies.CreateKEGGOrthologyGraphAlgorithm
- All Implemented Interfaces:
UndoableEdit
,Algorithm
public class CreateKEGGOrthologyGraphAlgorithm extends AbstractAlgorithm
This class replaces the CreateFuncatGraphAlgorithm,
The first class created KEGG hierarchies based on direct given hierarchies
(using alternative labels in the nodes), or
- Author:
- Matthias Klapperstueck
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Constructor Summary
Constructors Constructor Description CreateKEGGOrthologyGraphAlgorithm()
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Method Summary
Modifier and Type Method Description void
execute()
Executes the whole algorithm.String
getCategory()
Returns the category an algorithm should assigned to.String
getDescription()
The algorithm description.String
getName()
Returns the name (ID) of the algorithm.Parameter[]
getParameters()
Returns a list ofParameter
that are set for this algorithm.void
setParameters(Parameter[] params)
Sets the parameters for this algorithm.Methods inherited from class org.graffiti.plugin.algorithm.AbstractAlgorithm
addEdit, attach, canRedo, canUndo, check, die, doesUndo, getAcceleratorKeyStroke, getActionEvent, getMenuCategory, getPresentationName, getRedoPresentationName, getSetCategory, getUndoPresentationName, isAlwaysExecutable, isLayoutAlgorithm, isSignificant, markExecutionDone, markRedoDone, markUndoDone, mayWorkOnMultipleGraphs, redo, replaceEdit, reset, setActionEvent, showMenuIcon, undo
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Constructor Details
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CreateKEGGOrthologyGraphAlgorithm
public CreateKEGGOrthologyGraphAlgorithm()
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Method Details
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getName
Description copied from interface:Algorithm
Returns the name (ID) of the algorithm.- Returns:
- DOCUMENT ME!
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getDescription
Description copied from class:AbstractAlgorithm
The algorithm description.- Specified by:
getDescription
in interfaceAlgorithm
- Overrides:
getDescription
in classAbstractAlgorithm
- Returns:
- String, could be HTML-styled.
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getCategory
Description copied from interface:Algorithm
Returns the category an algorithm should assigned to. Return NULL if the algorithm should be sorted directly in the plugin menu.- Specified by:
getCategory
in interfaceAlgorithm
- Overrides:
getCategory
in classAbstractAlgorithm
- Returns:
- The category an algorithm should assigned to.
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getParameters
Description copied from interface:Algorithm
Returns a list ofParameter
that are set for this algorithm.- Specified by:
getParameters
in interfaceAlgorithm
- Overrides:
getParameters
in classAbstractAlgorithm
- Returns:
- a collection of
Parameter
that are needed by theAlgorithm
.
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setParameters
Description copied from interface:Algorithm
Sets the parameters for this algorithm. Must have the same types and order as the array returned bygetParameter
.- Specified by:
setParameters
in interfaceAlgorithm
- Overrides:
setParameters
in classAbstractAlgorithm
- Parameters:
params
- Parameter array
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execute
public void execute()Description copied from interface:Algorithm
Executes the whole algorithm.
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