VectorMergingCli (Gemma 1.32.0 API)

java.lang.Object
- ubic.gemma.cli.util.AbstractCLI
- - ubic.gemma.cli.util.AbstractAuthenticatedCLI
  - - ubic.gemma.cli.util.AbstractAutoSeekingCLI<ExpressionExperiment>
    - - ubic.gemma.apps.ExpressionExperimentManipulatingCLI
      - ubic.gemma.apps.VectorMergingCli

All Implemented Interfaces:

org.springframework.beans.factory.Aware, org.springframework.beans.factory.InitializingBean, org.springframework.context.ApplicationContextAware, org.springframework.context.EnvironmentAware, CLI
```
public class VectorMergingCli
extends ExpressionExperimentManipulatingCLI
```
For experiments that used multiple array designs, merge the expression profiles

Author:

pavlidis

Nested Class Summary
- Nested classes/interfaces inherited from interface ubic.gemma.cli.util.CLI
  CLI.CommandGroup

Field Summary
- Fields inherited from class ubic.gemma.apps.ExpressionExperimentManipulatingCLI
  auditEventService, auditTrailService, eeService, entityLocator, entityUrlBuilder
- Fields inherited from class ubic.gemma.cli.util.AbstractAutoSeekingCLI
  FORCE_OPTION
- Fields inherited from class ubic.gemma.cli.util.AbstractCLI
  ABORTED, FAILURE, FAILURE_FROM_ERROR_OBJECTS, log, SUCCESS

Constructor Summary

Constructors
Constructor Description

VectorMergingCli()

Method Summary

All Methods Instance Methods Concrete Methods
Modifier and Type	Method	Description
`protected void`	`buildExperimentOptions(org.apache.commons.cli.Options options)`
`String`	`getCommandName()`	A short memorable name for the command that can be used to locate this class.
`String`	`getShortDesc()`	Obtain a short description for this command explaining what it does.
`protected void`	`processExpressionExperiment(ExpressionExperiment expressionExperiment)`	Process an `ExpressionExperiment`.

Methods inherited from class ubic.gemma.cli.util.AbstractAutoSeekingCLI
addAutoOption, addAutoOption, addErrorObject, addErrorObject, addErrorObject, addForceOption, addForceOption, addLimitingDateOption, addSuccessObject, addSuccessObject, addWarningObject, addWarningObject, getAutoSeekEventType, getLimitingDate, isAutoSeek, isForce, setForce

Methods inherited from class ubic.gemma.cli.util.AbstractAuthenticatedCLI
afterPropertiesSet, createBatchTaskExecutorService, doWork, setEnvironment, setRequireLogin

Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

- Constructor Detail
  - VectorMergingCli
```
public VectorMergingCli()
```
- Method Detail
  - buildExperimentOptions
```
protected void buildExperimentOptions(org.apache.commons.cli.Options options)
```
    Overrides:
    
    buildExperimentOptions in class ExpressionExperimentManipulatingCLI
  - getCommandName
```
public String getCommandName()
```
    Description copied from interface: CLI
    
    A short memorable name for the command that can be used to locate this class.
    
    Specified by:
    
    getCommandName in interface CLI
    
    Overrides:
    
    getCommandName in class AbstractCLI
    
    Returns:
    
    name; if null or blank, this will not be available as a shortcut command.
  - getShortDesc
```
public String getShortDesc()
```
    Description copied from interface: CLI
    
    Obtain a short description for this command explaining what it does.
    
    Specified by:
    
    getShortDesc in interface CLI
    
    Overrides:
    
    getShortDesc in class AbstractCLI
  - processExpressionExperiment
```
protected void processExpressionExperiment(ExpressionExperiment expressionExperiment)
```
    Description copied from class: ExpressionExperimentManipulatingCLI
    
    Process an ExpressionExperiment.
    
    Overrides:
    
    processExpressionExperiment in class ExpressionExperimentManipulatingCLI