### Full Example: Synthetic Image and PSF with Reference

Source: https://context7.com/biomedical-imaging-group/deconvolutionlab2/llms.txt

A complete command-line example demonstrating the use of synthetic images and PSFs, along with a reference image, for a deconvolution task.

```bash
java -jar DeconvolutionLab_2.jar run \
  -image     synthetic CubeSphericalBeads 5.0 0.2 12.0 12.0 size 96 80 64 intensity 128 \
  -psf       synthetic Gaussian 2.0 2.0 2.0 size 64 64 64 \
  -reference file reference.tif \
  -algorithm RL 100 \
  -out stack noshow deconvolved \
  -path current -monitor console
```

--------------------------------

### System Settings

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Controller.html

Methods to get and set the system flag.

```APIDOC
## isSystem

### Description
Returns the system flag.

### Method
public boolean isSystem()

## setSystem

### Description
Sets the system flag.

### Method
public void setSystem(boolean system)

### Parameters
* **system** (boolean) - Required - the system to set
```

--------------------------------

### printInit

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Prints the initial configuration to the console.

```APIDOC
## printInit

### Description
Prints the initial DeconvolutionLab2 configuration to the console.

### Method Signature
public static void printInit()
```

--------------------------------

### getReference

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the reference signal.

```APIDOC
## getReference

### Description
Gets the reference signal.

### Method
public RealSignal

### Signature
getReference()
```

--------------------------------

### FISTAPanel.getCommand()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the command associated with the FISTAPanel.

```APIDOC
## getCommand()

### Description
Gets the command associated with the FISTAPanel.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Initialization and Help

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Lab.html

Methods for initializing the DeconvolutionLab and accessing help.

```APIDOC
## help

### Description
Open a web page on the DeconvolutionLab2.

### Method
`static void`

### Signature
`help()`

## init (Platform)

### Description
Initializes the Lab with a given platform.

### Method
`static void`

### Signature
`init(Platform platform)`

## init (Platform, configFilename)

### Description
Initializes the Lab with a given platform and a given configuration file.

### Method
`static void`

### Signature
`init(Platform platformInit, java.lang.String configFilename)`
```

--------------------------------

### help() Static Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Opens a web page on the DeconvolutionLab2.

```APIDOC
## help() Static Method

### Description
Opens a web page providing help and information about DeconvolutionLab2.

### Method
`static void help()`
```

--------------------------------

### ConvolutionPanel.getCommand()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the command associated with the ConvolutionPanel.

```APIDOC
## getCommand()

### Description
Gets the command associated with the ConvolutionPanel.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### AlgorithmPanel.getCommand()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the command associated with the AlgorithmPanel.

```APIDOC
## getCommand()

### Description
Gets the command associated with the AlgorithmPanel.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Initialization Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Lab.html

Methods for initializing the DeconvolutionLab2 environment with different configurations.

```APIDOC
## init

### Description
Initializes the Lab with a give platform.

### Method
`public static void init(Platform platform)`

### Parameters
#### Path Parameters
- **platform** (Platform) - Required - The platform is ImageJ, ICY, Standalone, or Matlab.

## init

### Description
Initializes the Lab with a give platform and a given configuration file.

### Method
`public static void init(Platform platformInit, String configFilename)`

### Parameters
#### Path Parameters
- **platformInit** (Platform) - Required - 
- **configFilename** (String) - Required - 
```

--------------------------------

### Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/dropdownbuttons/ShowImageDropDownButton.html

Initializes a new instance of the ShowImageDropDownButton.

```APIDOC
## ShowImageDropDownButton(String moduleName, String text)

### Description
Constructs a new ShowImageDropDownButton with the specified module name and text.

### Parameters
* **moduleName** (String) - The name of the module.
* **text** (String) - The text to display on the button.
```

--------------------------------

### JSplitButton.getArrowSize()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the size of the arrow in a JSplitButton.

```APIDOC
## getArrowSize()

### Description
Gets the size of the arrow.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### print

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Prints the current configuration to the console.

```APIDOC
## print

### Description
Prints the current DeconvolutionLab2 configuration to the console.

### Method Signature
public static void print()
```

--------------------------------

### get

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/factory/SignalFactory.html

Retrieves a SignalFactory instance by its name.

```APIDOC
## get

### Description
Retrieves a SignalFactory instance by its name.

### Method
static

### Signature
SignalFactory get(String name)

### Parameters
#### Path Parameters
- **name** (String) - Required - The name of the SignalFactory to retrieve.
```

--------------------------------

### getName

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/TikhonovMiller.html

Gets the name of the TikhonovMiller algorithm.

```APIDOC
## getName

### Description
Returns the name of the algorithm.

### Signature
public java.lang.String getName()
```

--------------------------------

### create

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/monitor/Monitors.html

Creates a monitor instance based on an abstract monitor.

```APIDOC
## create

### Description
Creates a monitor instance based on an abstract monitor.

### Method
public static Monitors create(AbstractMonitor monitor)

### Parameters
* **monitor** (AbstractMonitor) - The abstract monitor to base the new monitor on.

### Returns
* Monitors - A new monitor instance.
```

--------------------------------

### Config Initialization and Management

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Methods for initializing, loading, storing, and checking the configuration.

```APIDOC
## init

### Description
Initializes the configuration system with a given filename.

### Method
`static Config init(String filename)`

### Parameters
*   **filename** (String) - The path to the configuration file.

## load

### Description
Loads the configuration settings.

### Method
`static void load()`

## store

### Description
Stores the current configuration settings.

### Method
`static boolean store()`

## check

### Description
Checks the validity of the configuration.

### Method
`static boolean check()`
```

--------------------------------

### getCommand

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/TikhonovRegularizedInverseFilterPanel.html

Gets the command identifier for this panel.

```APIDOC
## getCommand

### Description
Returns the command string associated with this algorithm panel.

### Method
`getCommand()`

### Returns
`java.lang.String` - The command identifier.
```

--------------------------------

### list

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Lists all available configuration keys.

```APIDOC
## list

### Description
Returns a list of all available configuration keys.

### Method Signature
public static ArrayList<String> list()

### Returns
(ArrayList<String>) - A list of configuration keys.
```

--------------------------------

### getPath

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

Gets the path associated with the algorithm.

```APIDOC
## getPath

### Description
Gets the path associated with the algorithm.

### Method
`getPath()`

### Returns
- **String** - The path.
```

--------------------------------

### getMemory

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

Gets the memory usage of the algorithm.

```APIDOC
## getMemory

### Description
Gets the memory usage of the algorithm.

### Method
`getMemory()`

### Returns
- **double** - The memory usage.
```

--------------------------------

### main Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DeconvolutionLab2_Lab.html

The entry point for the DeconvolutionLab2 application.

```APIDOC
## main(String[] arg)

### Description
The entry point for the DeconvolutionLab2 application. This static method starts the deconvolution process.

### Method
`public static void main(java.lang.String[] arg)`

### Parameters
#### Path Parameters
- **arg** (String[]) - Required - Command-line arguments passed to the application.
```

--------------------------------

### Instance Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/system/SystemInfo.html

Details instance methods available on SystemInfo objects, including event handlers and update/restart functionalities.

```APIDOC
## actionPerformed

### Description
Handles action events, typically from UI components.

### Method
public void actionPerformed(java.awt.event.ActionEvent e)

Specified by:
`actionPerformed` in interface `java.awt.event.ActionListener`

## update

### Description
Updates the system information.

### Method
public void update()

## restart

### Description
Restarts the system information component.

### Method
public void restart()

## mouseClicked

### Description
Handles mouse click events.

### Method
public void mouseClicked(java.awt.event.MouseEvent e)

Specified by:
`mouseClicked` in interface `java.awt.event.MouseListener`

## mousePressed

### Description
Handles mouse press events.

### Method
public void mousePressed(java.awt.event.MouseEvent e)

Specified by:
`mousePressed` in interface `java.awt.event.MouseListener`
```

--------------------------------

### getImage

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the input image signal.

```APIDOC
## getImage

### Description
Gets the input image signal.

### Method
public RealSignal

### Signature
getImage()
```

--------------------------------

### Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/dropdownbuttons/ChooseImageDropDownButton.html

Initializes a new instance of the ChooseImageDropDownButton.

```APIDOC
## ChooseImageDropDownButton Constructor

### Description
Constructs a new ChooseImageDropDownButton with the specified module name, associated module, and button text.

### Parameters
* **moduleName** (String) - The name of the module.
* **module** (AbstractImageSelectionModule) - The image selection module associated with this button.
* **text** (String) - The text to display on the button.
```

--------------------------------

### getName

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the name of the deconvolution process.

```APIDOC
## getName

### Description
Gets the name of the deconvolution process.

### Method
public String

### Signature
getName()
```

--------------------------------

### DeconvolutionLab2 CLI Help and GUI Launch

Source: https://context7.com/biomedical-imaging-group/deconvolutionlab2/llms.txt

Basic commands to show help or launch the graphical user interface. The 'lab' command opens the full GUI, while 'launch' starts a deconvolution with an interactive progress dialog.

```bash
java -jar DeconvolutionLab_2.jar help
```

```bash
java -jar DeconvolutionLab_2.jar lab
```

```bash
java -jar DeconvolutionLab_2.jar lab /path/to/MyConfig.config
```

```bash
java -jar DeconvolutionLab_2.jar fft
```

--------------------------------

### getOutput

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the output signal from the deconvolution.

```APIDOC
## getOutput

### Description
Gets the output signal from the deconvolution.

### Method
public RealSignal

### Signature
getOutput()
```

--------------------------------

### getController

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the current deconvolution controller.

```APIDOC
## getController

### Description
Gets the current deconvolution controller.

### Method
public Controller

### Signature
getController()
```

--------------------------------

### Instance Padding Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/padding/Padding.html

Details on instance methods for performing padding and cropping operations.

```APIDOC
## Instance Padding Methods

### pad(int nx, int ny, int nz)

**Description**: Pads the signal dimensions according to the current padding configuration.

**Parameters**:
- **nx** (int) - The size of the extension in the X dimension.
- **ny** (int) - The size of the extension in the Y dimension.
- **nz** (int) - The size of the extension in the Z dimension.

**Returns**: `int[]` - An array representing the padded dimensions.

### pad(Monitors monitors, RealSignal input)

**Description**: Pads the input RealSignal using the current padding configuration and provided monitors.

**Parameters**:
- **monitors** (Monitors) - The monitors to use during the padding process.
- **input** (RealSignal) - The input signal to be padded.

**Returns**: `RealSignal` - The padded signal.

### crop(Monitors monitors, RealSignal large)

**Description**: Crops a larger RealSignal to a smaller size using the current padding configuration and provided monitors.

**Parameters**:
- **monitors** (Monitors) - The monitors to use during the cropping process.
- **large** (RealSignal) - The larger signal to be cropped.

**Returns**: `RealSignal` - The cropped signal.

### toString()

**Description**: Returns a string representation of the Padding object.

**Overrides**: `toString` in class `java.lang.Object`

**Returns**: `String`
```

--------------------------------

### load

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Loads the configuration.

```APIDOC
## load

### Description
Loads the DeconvolutionLab2 configuration.

### Method Signature
public static void load()
```

--------------------------------

### getAlgorithm

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the current deconvolution algorithm.

```APIDOC
## getAlgorithm

### Description
Gets the current deconvolution algorithm.

### Method
public Algorithm

### Signature
getAlgorithm()
```

--------------------------------

### Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/AbstractImageSelectionModule.html

Initializes a new instance of the AbstractImageSelectionModule.

```APIDOC
## AbstractImageSelectionModule Constructor

### Description
Initializes a new instance of the AbstractImageSelectionModule with a specified name.

### Parameters
*   **name** (String) - The name for this module.
```

--------------------------------

### get

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DL2.html

Retrieves an image or data object.

```APIDOC
## get

### Description
Retrieves an image or data object.

### Method
`static Object get(String image)`

### Parameters
*   **image** (String) - The identifier of the image or data to retrieve.
```

--------------------------------

### CustomizedColumn.getColumnClass()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the class of the column in a customized table.

```APIDOC
## getColumnClass()

### Description
Gets the class of the column in a customized table.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### open

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Imager.html

Opens and returns a RealSignal from a specified file.

```APIDOC
## open

### Description
Opens and returns a RealSignal from a specified file.

### Method Signature
`public abstract RealSignal open(String filename)`

### Parameters
*   **filename** (String) - The name of the file to open.

### Returns
*   (RealSignal) - The loaded RealSignal.
```

--------------------------------

### AbstractModule.getCollapsedPanel()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the collapsed panel of an abstract module.

```APIDOC
## getCollapsedPanel()

### Description
Gets the collapsed panel of an abstract module.

### Method
Method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### ShowMIP Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/output/ShowMIP.html

Initializes a new instance of the ShowMIP class with a specified name.

```APIDOC
## ShowMIP Constructor

### Description
Initializes a new instance of the ShowMIP class with a specified name.

### Signature
`public ShowMIP(java.lang.String name)`

### Parameters
*   **name** (java.lang.String) - The name to assign to the ShowMIP instance.
```

--------------------------------

### Padding.getByName(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets a Padding object by its name.

```APIDOC
## getByName(String name)

### Description
Gets a Padding object by its name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **name** (String) - The name of the Padding.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Initialize Platform and Open Files with Lab Class

Source: https://context7.com/biomedical-imaging-group/deconvolutionlab2/llms.txt

Initializes the DeconvolutionLab2 platform for different environments and opens image files from disk or directories. Supports custom configuration paths and regex filtering for directory scanning.

```java
import deconvolutionlab.Lab;
import deconvolutionlab.Platform;
import deconvolutionlab.Imager;
import deconvolutionlab.monitor.Monitors;
import signal.RealSignal;

// Initialize for a specific platform
Lab.init(Platform.STANDALONE);   // or IMAGEJ, ICY, MATLAB
Lab.init(Platform.STANDALONE, "/path/to/DeconvolutionLab2.config");

// Open a TIFF file from disk
RealSignal image = Lab.openFile("/data/cell_stack.tif");

// Open a directory of 2D slices into a 3D stack
RealSignal stack = Lab.openDir("/data/slices/");
// With a regex filter:
RealSignal filtered = Lab.openDir(Monitors.createDefaultMonitor(), "/data/slices/ pattern .*_z\\d+\\.tif");
```

--------------------------------

### signal.Constraint.getByName(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets a Constraint object by its name.

```APIDOC
## getByName(String name)

### Description
Gets a Constraint object by its name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **name** (String) - The name of the Constraint.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Utility Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Lab.html

Utility methods for accessing help, checking FFT, and creating image containers.

```APIDOC
## help

### Description
Open a web page on the DeconvolutionLab2.

### Method
`public static void help()`

## checkFFT

### Description
Checks the installed FFT libraries on a small (40, 30, 20) signal.

### Method
`public static void checkFFT(Monitors monitors)`

### Parameters
#### Path Parameters
- **monitors** (Monitors) - Required - 

## createContainer

### Description
Creates an image container.

### Method
`public static Imager.ContainerImage createContainer(Monitors monitors, String title)`

### Parameters
#### Path Parameters
- **monitors** (Monitors) - Required - 
- **title** (String) - Required - 
```

--------------------------------

### Algorithm Configuration Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

This section details the methods available to configure the Algorithm object, including setting FFT, monitors, normalization, memory footprint, outputs, padding, parameters, path, reference signal, residual minimum, statistics, time limit, and verbosity.

```APIDOC
## setFFT

### Description
Sets the Fast Fourier Transform (FFT) implementation to be used.

### Method
`setFFT(AbstractFFT fft)`

### Parameters
*   **fft** (AbstractFFT) - The FFT implementation to set.
```

```APIDOC
## setMonitors

### Description
Sets the monitors for observing the deconvolution process.

### Method
`setMonitors(Monitors monitors)`

### Parameters
*   **monitors** (Monitors) - The monitors object to set.
```

```APIDOC
## setNormalizationPSF

### Description
Sets the normalization factor for the Point Spread Function (PSF).

### Method
`setNormalizationPSF(double normalizationPSF)`

### Parameters
*   **normalizationPSF** (double) - The normalization value for the PSF.
```

```APIDOC
## setOptimizedMemoryFootprint

### Description
Enables or disables an optimized memory footprint for the algorithm.

### Method
`setOptimizedMemoryFootprint(boolean optimizedMemoryFootprint)`

### Parameters
*   **optimizedMemoryFootprint** (boolean) - True to enable optimized memory footprint, false otherwise.
```

```APIDOC
## setOuts

### Description
Sets the list of outputs for the deconvolution process.

### Method
`setOuts(ArrayList<Output> outs)`

### Parameters
*   **outs** (ArrayList<Output>) - The list of output objects to set.
```

```APIDOC
## setPadding

### Description
Sets the padding strategy for the deconvolution algorithm.

### Method
`setPadding(Padding padding)`

### Parameters
*   **padding** (Padding) - The padding object to set.
```

```APIDOC
## setParameters

### Description
Sets the deconvolution algorithm parameters.

### Method
`setParameters(double... params)`

### Parameters
*   **params** (double...) - A variable number of double parameters.
```

```APIDOC
## setPath

### Description
Sets the path for the algorithm, potentially for output files or resources.

### Method
`setPath(String path)`

### Parameters
*   **path** (String) - The path to set.
```

```APIDOC
## setReference

### Description
Sets the reference signal for the deconvolution process.

### Method
`setReference(RealSignal ref)`

### Parameters
*   **ref** (RealSignal) - The reference signal to set.
```

```APIDOC
## setResiduMin

### Description
Sets the minimum residual value for the deconvolution process.

### Method
`setResiduMin(double residuMin)`

### Parameters
*   **residuMin** (double) - The minimum residual value.
```

```APIDOC
## setStats

### Description
Initializes or sets the statistics object for the algorithm. Overloaded versions allow for different initialization methods.

### Method
`setStats()`
`setStats(Stats stats)`
`setStats(String name)`

### Parameters
*   `setStats()`: No parameters.
*   `setStats(Stats stats)`: **stats** (Stats) - The statistics object to set.
*   `setStats(String name)`: **name** (String) - The name to associate with the statistics.
```

```APIDOC
## setTimeLimit

### Description
Sets the time limit for the deconvolution process.

### Method
`setTimeLimit(double timeLimit)`

### Parameters
*   **timeLimit** (double) - The time limit in seconds.
```

```APIDOC
## setVerbose

### Description
Sets the verbosity level for the deconvolution process.

### Method
`setVerbose(Verbose verbose)`

### Parameters
*   **verbose** (Verbose) - The verbosity level to set.
```

```APIDOC
## setWavelets

### Description
Sets the name of the wavelets to be used in the deconvolution process.

### Method
`setWavelets(String waveletsName)`

### Parameters
*   **waveletsName** (String) - The name of the wavelets.
```

```APIDOC
## showStats

### Description
Displays the statistics of the deconvolution process. Overloaded versions allow displaying all stats or stats by name.

### Method
`showStats()`
`showStats(String name)`

### Parameters
*   `showStats()`: No parameters.
*   `showStats(String name)`: **name** (String) - The name of the statistics to display.
```

```APIDOC
## toString

### Description
Returns a string representation of the Algorithm object.

### Method
`toString()`
```

--------------------------------

### Apodization.getByName(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets an Apodization object by its name.

```APIDOC
## getByName(String name)

### Description
Gets an Apodization object by its name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **name** (String) - The name of the Apodization.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### SystemUsage.getAvailableSpace()

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets the available disk space on the system.

```APIDOC
## getAvailableSpace()

### Description
Gets the available disk space on the system.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
None

### Request Example
N/A

### Response
N/A
```

--------------------------------

### LicenceModule Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/LicenceModule.html

Initializes a new instance of the LicenceModule.

```APIDOC
## LicenceModule Constructor

### Description
Initializes a new instance of the LicenceModule.

### Signature
public LicenceModule()
```

--------------------------------

### launch

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DL2.html

Launches a process or application.

```APIDOC
## launch

### Description
Launches a process or application.

### Method
`static void launch(String command)`

### Parameters
*   **command** (String) - The command to launch.
```

--------------------------------

### getDocumentation

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/wavelets/spline/Spline3Wavelets.html

Gets the documentation string for the wavelet transform.

```APIDOC
## getDocumentation

### Description
Retrieves the documentation string for the wavelet transform.

### Method
`java.lang.String getDocumentation()`

### Response
#### Success Response (200)
- **documentation** (string) - The documentation string.
```

--------------------------------

### Get Energy

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/RealSignal.html

Calculates and returns the energy of the signal.

```APIDOC
## RealSignal.getEnergy()

### Description
Calculates and returns the energy of the signal.

### Method
public float getEnergy()
```

--------------------------------

### ShowOrtho Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/output/ShowOrtho.html

Initializes a new instance of the ShowOrtho class with the specified name.

```APIDOC
## ShowOrtho Constructor

### Description
Initializes a new instance of the ShowOrtho class.

### Signature
`public ShowOrtho(java.lang.String name)`

### Parameters
* **name** (java.lang.String) - The name for the ShowOrtho instance.
```

--------------------------------

### AbstractModule Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/AbstractModule.html

Initializes a new instance of the AbstractModule.

```APIDOC
## AbstractModule()

### Description
Constructs a new AbstractModule.

### Constructor
`public AbstractModule()`
```

--------------------------------

### getParameter Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/HammingApodization.html

Gets the parameter string for the apodization.

```APIDOC
## getParameter()

### Description
Returns the parameter string for the Hamming apodization.

### Method
`public String getParameter()`

### Returns
* (String) - The parameter string.
```

--------------------------------

### show (RealSignal, z-slice, overlay)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Imager.html

Displays a RealSignal at a specific z-slice with overlay lines.

```APIDOC
## show (RealSignal, z-slice, overlay)

### Description
Displays a real signal at a specified z-depth, with the option to add overlay lines.

### Method
`void show(RealSignal signal, String title, Imager.Type type, int z, ArrayList<Line2D.Double> overlayLines)`

### Parameters
- **signal** (RealSignal) - The real signal data to display.
- **title** (String) - The title for the display window.
- **type** (Imager.Type) - The type of image representation.
- **z** (int) - The z-coordinate (slice index) to display.
- **overlayLines** (ArrayList<Line2D.Double>) - A list of lines to draw as overlays on the image.
```

--------------------------------

### getVerbose

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/monitor/Monitors.html

Gets the current verbosity level of the monitor.

```APIDOC
## getVerbose

### Description
Gets the current verbosity level of the monitor.

### Method
public Verbose getVerbose()

### Returns
* Verbose - The current verbosity level.
```

--------------------------------

### getActiveImage

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Lab.html

Gets the name of the currently active image.

```APIDOC
## getActiveImage

### Description
Gets the name of the currently active image.

### Method Signature
public static String getActiveImage()

### Returns
- **String** - The name of the active image.
```

--------------------------------

### ReferenceModule Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/ReferenceModule.html

This section details the instance methods directly available on the ReferenceModule.

```APIDOC
## ReferenceModule

### Description
Provides access to various methods for managing and interacting with reference data within the DeconvolutionLab2 module.

### Methods

- **buildExpandedPanel()**
  - Description: Builds the expanded panel for the module.
  - Return Type: `javax.swing.JPanel`

- **close()**
  - Description: Closes the module.
  - Return Type: `void`

- **edit()**
  - Description: Edits the module's content.
  - Return Type: `void`

- **expand()**
  - Description: Expands the module view.
  - Return Type: `void`

- **getCommand()**
  - Description: Retrieves the command associated with the module.
  - Return Type: `java.lang.String`

- **setReference(boolean doReference)**
  - Description: Sets the reference status for the module.
  - Parameters:
    - **doReference** (boolean) - Required - Indicates whether to set as reference.
  - Return Type: `void`

- **update()**
  - Description: Updates the module's state.
  - Return Type: `void`
```

--------------------------------

### getSelectedImage

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Imager.html

Gets the name of the currently selected image.

```APIDOC
## getSelectedImage

### Description
Gets the name of the currently selected image.

### Method Signature
`public abstract String getSelectedImage()`

### Returns
*   (String) - The name of the selected image.
```

--------------------------------

### ShowPlanar Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/output/ShowPlanar.html

Initializes a new instance of the ShowPlanar class with the specified name.

```APIDOC
## ShowPlanar(String name)

### Description
Constructs a new ShowPlanar object with the given name.

### Constructor
`public ShowPlanar(java.lang.String name)`

### Parameters
*   **name** (java.lang.String) - The name to assign to this ShowPlanar instance.
```

--------------------------------

### OutputDialog Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/dialog/OutputDialog.html

Initializes a new instance of the OutputDialog class.

```APIDOC
## OutputDialog Constructor

### Description
Initializes a new instance of the OutputDialog class.

### Parameters
*   **view** (Output.View) - The view to associate with the dialog.
*   **snapshot** (int) - The snapshot identifier.
```

--------------------------------

### getParameters

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/TikhonovMiller.html

Gets the current parameters of the TikhonovMiller algorithm.

```APIDOC
## getParameters

### Description
Returns an array of the current parameters of the algorithm.

### Signature
public double[] getParameters()
```

--------------------------------

### getParametersAsString

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

Gets the current parameters of the algorithm as a string.

```APIDOC
## getParametersAsString

### Description
Gets the current parameters of the algorithm as a string.

### Method
`getParametersAsString()`

### Returns
- **String** - A string representation of the current parameters.
```

--------------------------------

### ShowStack Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/output/ShowStack.html

Initializes a new instance of the ShowStack class with the specified name.

```APIDOC
## ShowStack(String name)

### Description
Constructs a ShowStack object with a given name.

### Method Signature
`public ShowStack(java.lang.String name)`

### Parameters
*   **name** (java.lang.String) - Required - The name for the ShowStack instance.
```

--------------------------------

### getIterations

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

Gets the current number of iterations for the algorithm.

```APIDOC
## getIterations

### Description
Gets the current number of iterations for the algorithm.

### Method
`getIterations()`

### Returns
- **int** - The current number of iterations.
```

--------------------------------

### Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/system/AbstractMeter.html

Initializes a new instance of the AbstractMeter class with a specified width.

```APIDOC
## AbstractMeter(int width)

### Description
Constructs an AbstractMeter with the given width.

### Parameters
#### Path Parameters
- **width** (int) - The width of the meter.
```

--------------------------------

### getEpsilon

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/Algorithm.html

Gets the epsilon value used in the algorithm.

```APIDOC
## getEpsilon

### Description
Gets the epsilon value used in the algorithm.

### Method
`getEpsilon()`

### Returns
- **double** - The epsilon value.
```

--------------------------------

### help Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DL2.html

Displays help information for DeconvolutionLab2.

```APIDOC
## help

### Description
Displays help information for DeconvolutionLab2.

### Method Signature
`static void help()`

### Response
This method does not return a value.
```

--------------------------------

### FISTA Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/FISTA.html

Initializes the FISTA algorithm with specified parameters.

```APIDOC
## FISTA Constructor

### Description
Initializes the FISTA algorithm with the maximum number of iterations, gamma, lambda, wavelet name, and scale.

### Signature
`public FISTA(int iterMax, double gamma, double lambda, java.lang.String waveletsName, int scale)`

### Parameters
*   **iterMax** (int) - Maximum number of iterations.
*   **gamma** (double) - Gamma parameter.
*   **lambda** (double) - Lambda parameter.
*   **waveletsName** (java.lang.String) - Name of the wavelets to be used.
*   **scale** (int) - Scale parameter.
```

--------------------------------

### getCommand

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the command string used for deconvolution.

```APIDOC
## getCommand

### Description
Gets the command string used for deconvolution.

### Method
public String

### Signature
getCommand()
```

--------------------------------

### getMonitors

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/Deconvolution.html

Gets the monitors associated with the deconvolution process.

```APIDOC
## getMonitors

### Description
Gets the monitors associated with the deconvolution process.

### Method
public Monitors

### Signature
getMonitors()
```

--------------------------------

### FISTA Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/FISTA.html

Initializes the FISTA algorithm with specified parameters.

```APIDOC
## FISTA Constructor

### Description
Initializes the FISTA algorithm with the maximum number of iterations, the step size (gamma), the regularization parameter (lambda), the name of the wavelets to be used, and the scale.

### Parameters
*   **iterMax** (int) - The maximum number of iterations.
*   **gamma** (double) - The step size parameter.
*   **lambda** (double) - The regularization parameter.
*   **waveletsName** (java.lang.String) - The name of the wavelets to use.
*   **scale** (int) - The scale parameter for wavelets.
```

--------------------------------

### get Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DL2.html

Retrieves an image based on its name.

```APIDOC
## get

### Description
Retrieves an image based on its name.

### Method Signature
`static java.lang.Object get(java.lang.String image)`

### Parameters
*   `image` (java.lang.String) - The name of the image to retrieve.

### Response
*   `java.lang.Object` - The requested image data.
```

--------------------------------

### RuntimeInfoPanel Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/system/RuntimeInfoPanel.html

Initializes a new instance of the RuntimeInfoPanel with a specified rate.

```APIDOC
## RuntimeInfoPanel Constructor

### Description
Initializes a new instance of the RuntimeInfoPanel with a specified rate.

### Parameters
*   **rate** (long) - The rate to initialize the panel with.
```

--------------------------------

### Padding.getByShortname(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets a Padding object by its short name.

```APIDOC
## getByShortname(String shortname)

### Description
Gets a Padding object by its short name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **shortname** (String) - The short name of the Padding.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Utility Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Config.html

Utility methods for printing and listing configuration information.

```APIDOC
## print

### Description
Prints the current configuration.

### Method
`static void print()`

## printInit

### Description
Prints the initial configuration.

### Method
`static void printInit()`

## list

### Description
Lists all available configuration keys.

### Method
`static java.util.ArrayList<String> list()`
```

--------------------------------

### Apodization.getByShortname(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets an Apodization object by its short name.

```APIDOC
## getByShortname(String shortname)

### Description
Gets an Apodization object by its short name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **shortname** (String) - The short name of the Apodization.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### DirectoryModule Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/DirectoryModule.html

Initializes a new instance of the DirectoryModule.

```APIDOC
## DirectoryModule Constructor

### Description
Initializes a new instance of the DirectoryModule.

### Method
public DirectoryModule()

```

--------------------------------

### Constraint.getByName(String)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/index-all.html

Gets a Constraint enum constant by its name.

```APIDOC
## getByName(String name)

### Description
Gets a Constraint enum constant by its name.

### Method
Static method

### Endpoint
N/A (Java Method)

### Parameters
* **name** (String) - The name of the Constraint.

### Request Example
N/A

### Response
N/A
```

--------------------------------

### Get Default Wavelets

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/wavelets/Wavelets.html

Retrieves the default AbstractWavelets object.

```APIDOC
## getDefaultWavelets

### Description
Retrieves the default AbstractWavelets object.

### Method
GET

### Endpoint
/wavelets/default

### Parameters
None

### Response
#### Success Response (200)
- **defaultWavelet** (AbstractWavelets) - The default AbstractWavelets object.

### Response Example
```json
{
  "defaultWavelet": {
    "name": "Haar",
    "description": "Haar wavelet"
  }
}
```
```

--------------------------------

### create Method Overloads

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/AbstractModule.html

Methods for creating and initializing the module with various configurations.

```APIDOC
## create(String name)

### Description
Creates the module with a given name.

### Method
`public void create(java.lang.String name)`
```

```APIDOC
## create(String name, String key)

### Description
Creates the module with a given name and key.

### Method
`public void create(java.lang.String name, java.lang.String key)`
```

```APIDOC
## create(String name, String key, AbstractDropDownButton button1)

### Description
Creates the module with a given name, key, and a dropdown button.

### Method
`public void create(java.lang.String name, java.lang.String key, deconvolutionlab.module.dropdownbuttons.AbstractDropDownButton button1)`
```

```APIDOC
## create(String name, String key, AbstractDropDownButton button1, AbstractDropDownButton button2)

### Description
Creates the module with a given name, key, and two dropdown buttons.

### Method
`public void create(java.lang.String name, java.lang.String key, deconvolutionlab.module.dropdownbuttons.AbstractDropDownButton button1, deconvolutionlab.module.dropdownbuttons.AbstractDropDownButton button2)`
```

```APIDOC
## create(String name, String key, String action)

### Description
Creates the module with a given name, key, and an action string.

### Method
`public void create(java.lang.String name, java.lang.String key, java.lang.String action)`
```

```APIDOC
## create(String name, String key, String action, AbstractDropDownButton button1)

### Description
Creates the module with a given name, key, an action string, and a dropdown button.

### Method
`public void create(java.lang.String name, java.lang.String key, java.lang.String action, deconvolutionlab.module.dropdownbuttons.AbstractDropDownButton button1)`
```

--------------------------------

### LanguageModule Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/LanguageModule.html

Initializes a new instance of the LanguageModule.

```APIDOC
## LanguageModule Constructor

### Description

Constructs a new LanguageModule.

### Constructor

`public LanguageModule()`
```

--------------------------------

### Get All Wavelets

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/wavelets/Wavelets.html

Retrieves a list of all available AbstractWavelets objects.

```APIDOC
## getWavelets

### Description
Retrieves a list of all available AbstractWavelets objects.

### Method
GET

### Endpoint
/wavelets

### Parameters
None

### Response
#### Success Response (200)
- **wavelets** (ArrayList<AbstractWavelets>) - A list of AbstractWavelets objects.

### Response Example
```json
{
  "wavelets": [
    {
      "name": "Haar",
      "description": "Haar wavelet"
    },
    {
      "name": "Daubechies4",
      "description": "Daubechies 4 wavelet"
    }
  ]
}
```
```

--------------------------------

### show(Monitors monitors, RealSignal signal, String title, Imager.Type type, int z, ArrayList<Line2D.Double> overlayLines)

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/Lab.html

Displays a real 3D signal with advanced options including monitors, image type, z-slice, and overlay lines.

```APIDOC
## show(Monitors monitors, RealSignal signal, String title, Imager.Type type, int z, ArrayList<Line2D.Double> overlayLines)

### Description
Displays a real 3D signal with advanced options including monitors, image type, z-slice, and overlay lines.

### Method
static void

### Parameters
- **monitors** (Monitors) - The monitors to associate with the display.
- **signal** (RealSignal) - The 3D signal to display.
- **title** (String) - The title for the display.
- **type** (Imager.Type) - The type of imager.
- **z** (int) - The z-slice index.
- **overlayLines** (ArrayList<Line2D.Double>) - A list of lines to overlay on the image.
```

--------------------------------

### getRealX

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/ComplexSignal.html

Gets the real component at a specific y and z index.

```APIDOC
## getRealX

### Description
Retrieves the real component of the signal at the specified y and z indices.

### Signature
`float[] getRealX(int j, int k)`

### Parameters
* **j** (int) - The index in the y-dimension.
* **k** (int) - The index in the z-dimension.
```

--------------------------------

### run

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/DL2.html

Executes a command or process.

```APIDOC
## run (Overload 1)

### Description
Executes a command.

### Method
`static void run(String command)`

### Parameters
*   **command** (String) - The command to execute.
```

```APIDOC
## run (Overload 2)

### Description
Runs a deconvolution process on an image with a specified algorithm.

### Method
`static Object run(Object arrayImage, Object arrayPSF, String algo)`

### Parameters
*   **arrayImage** (Object) - The input image data.
*   **arrayPSF** (Object) - The Point Spread Function (PSF) data.
*   **algo** (String) - The deconvolution algorithm to use.
```

--------------------------------

### getImagZ

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/ComplexSignal.html

Gets the imaginary component at a specific x and y index.

```APIDOC
## getImagZ

### Description
Retrieves the imaginary component of the signal at the specified x and y indices.

### Signature
`float[] getImagZ(int i, int j)`

### Parameters
* **i** (int) - The index in the x-dimension.
* **j** (int) - The index in the y-dimension.
```

--------------------------------

### StarkParker Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/StarkParker.html

Initializes the StarkParker algorithm with maximum iterations and a gamma value.

```APIDOC
## StarkParker Constructor

### Description
Initializes the StarkParker algorithm with maximum iterations and a gamma value.

### Signature
public StarkParker(int iterMax, double gamma)
```

--------------------------------

### getImagXYZ

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/ComplexSignal.html

Gets the entire imaginary component as a 1D array.

```APIDOC
## getImagXYZ

### Description
Retrieves the entire imaginary component of the complex signal as a 1D array.

### Signature
`float[] getImagXYZ()`
```

--------------------------------

### getImagX

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/ComplexSignal.html

Gets the imaginary component at a specific y and z index.

```APIDOC
## getImagX

### Description
Retrieves the imaginary component of the signal at the specified y and z indices.

### Signature
`float[] getImagX(int j, int k)`

### Parameters
* **j** (int) - The index in the y-dimension.
* **k** (int) - The index in the z-dimension.
```

--------------------------------

### ICTMPanel Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/ICTMPanel.html

Initializes a new instance of the ICTMPanel class.

```APIDOC
## ICTMPanel()

### Description
Constructs a new ICTMPanel.

### Constructor
`ICTMPanel()`
```

--------------------------------

### getParameter Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/UniformApodization.html

Gets the parameter string for the apodization method.

```APIDOC
## getParameter()

### Description
Returns the parameter string for the apodization method. This method is specified by the AbstractApodization class.

### Method Signature
`String getParameter()`
```

--------------------------------

### OutputModule Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/module/OutputModule.html

Initializes a new instance of the OutputModule class.

```APIDOC
## OutputModule()

### Description
Constructs a new OutputModule.

### Constructor
`public OutputModule()`
```

--------------------------------

### RichardsonLucyTV Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/RichardsonLucyTV.html

Initializes the RichardsonLucyTV algorithm with specified maximum iterations and regularization factor.

```APIDOC
## RichardsonLucyTV(int iterMax, double lambda)

### Description
Constructs a RichardsonLucyTV object with the given maximum number of iterations and regularization factor.

### Parameters
#### Path Parameters
- **iterMax** (int) - Required - The maximum number of iterations for the deconvolution process.
- **lambda** (double) - Required - The regularization factor for the Total Variation component.
```

--------------------------------

### Get Default Apodization

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/Apodization.html

Retrieves the default apodization implementation.

```APIDOC
## getDefault

### Description
Retrieves the default apodization implementation.

### Method
public static AbstractApodization getDefault()

### Returns
The default AbstractApodization object.
```

--------------------------------

### Static Methods

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/system/SystemInfo.html

Provides documentation for static methods that can be called directly on the SystemInfo class.

```APIDOC
## activate

### Description
Activates the system information component.

### Method
public static void activate()

## close

### Description
Closes the system information component.

### Method
public static void close()
```

--------------------------------

### Get All Apodizations

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/Apodization.html

Retrieves a list of all available apodization implementations.

```APIDOC
## getApodizations

### Description
Retrieves a list of all available apodization implementations.

### Method
public static java.util.ArrayList<AbstractApodization> getApodizations()

### Returns
An ArrayList containing AbstractApodization objects.
```

--------------------------------

### getShortname Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/HammingApodization.html

Gets the short name of the apodization method.

```APIDOC
## getShortname()

### Description
Returns the short name of the Hamming apodization.

### Method
`public String getShortname()`

### Returns
* (String) - The short name "Hamming".
```

--------------------------------

### ShowFigure Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolutionlab/output/ShowFigure.html

Initializes a new instance of the ShowFigure class with a specified name.

```APIDOC
## ShowFigure(String name)

### Description
Constructs a ShowFigure object with the given name.

### Constructor
`public ShowFigure(java.lang.String name)`

### Parameters
* **name** (java.lang.String) - The name to assign to the ShowFigure instance.
```

--------------------------------

### getName Method

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/signal/apodization/HammingApodization.html

Gets the full name of the apodization method.

```APIDOC
## getName()

### Description
Returns the full name of the Hamming apodization.

### Method
`public String getName()`

### Returns
* (String) - The name "Hamming".
```

--------------------------------

### RichardsonLucyTV Constructor

Source: https://github.com/biomedical-imaging-group/deconvolutionlab2/blob/master/doc/deconvolution/algorithm/RichardsonLucyTV.html

Initializes the RichardsonLucyTV deconvolution algorithm with maximum iterations and a regularization parameter.

```APIDOC
## RichardsonLucyTV Constructor

### Description
Initializes the RichardsonLucyTV deconvolution algorithm.

### Parameters
*   **iterMax** (int) - The maximum number of iterations for the deconvolution process.
*   **lambda** (double) - The regularization parameter for Total Variation (TV).

### Method Signature
```java
public RichardsonLucyTV(int iterMax, double lambda)
```
```