ImageDev

FillHoles3d

Fills the holes inside particles of a three-dimensional binary image.

Access to parameter description

For an introduction: This algorithm fills the holes inside particles, irrespective of their size.
Holes inside objects are filled using a numerical reconstruction applied on the complement of the input image, from markers made of voxels of the image frame.

<b> Figure 1.</b> Illustration of the hole filling algorithm
Figure 1. Illustration of the hole filling algorithm

Note: Since the reconstruction is applied on the input image complement, selecting a 6-neighbor connectivity fills holes connected to the background with a 26-neighbor connectivity.

See also

Function Syntax

This function returns outputObjectImage. 
// Function prototype
std::shared_ptr< iolink::ImageView >
fillHoles3d( std::shared_ptr< iolink::ImageView > inputObjectImage,
             FillHoles3d::Neighborhood neighborhood,
             std::shared_ptr< iolink::ImageView > outputObjectImage = nullptr );
This function returns outputObjectImage. 
// Function prototype.
fill_holes_3d(input_object_image: idt.ImageType,
              neighborhood: FillHoles3d.Neighborhood = FillHoles3d.Neighborhood.CONNECTIVITY_26,
              output_object_image: idt.ImageType = None) -> idt.ImageType
This function returns outputObjectImage. 
// Function prototype.
public static IOLink.ImageView
FillHoles3d( IOLink.ImageView inputObjectImage,
             FillHoles3d.Neighborhood neighborhood = ImageDev.FillHoles3d.Neighborhood.CONNECTIVITY_26,
             IOLink.ImageView outputObjectImage = null );

Class Syntax

Parameters

Parameter Name Description Type Supported Values Default Value
input
inputObjectImage
The 3D binary input image. Image Binary or Label nullptr
input
neighborhood
The 3D neighborhood configuration.
CONNECTIVITY_6 The structuring element is composed of voxels with a common face with the voxel of interest.
CONNECTIVITY_18 The structuring element is composed of voxels with at least one common edge.
CONNECTIVITY_26 The structuring element is a full cube.
Enumeration CONNECTIVITY_26
output
outputObjectImage
The binary output image. Its dimensions are forced to the same values as the input. Image nullptr
Parameter Name Description Type Supported Values Default Value
input
input_object_image
The 3D binary input image. image Binary or Label None
input
neighborhood
The 3D neighborhood configuration.
CONNECTIVITY_6 The structuring element is composed of voxels with a common face with the voxel of interest.
CONNECTIVITY_18 The structuring element is composed of voxels with at least one common edge.
CONNECTIVITY_26 The structuring element is a full cube.
enumeration CONNECTIVITY_26
output
output_object_image
The binary output image. Its dimensions are forced to the same values as the input. image None
Parameter Name Description Type Supported Values Default Value
input
inputObjectImage
The 3D binary input image. Image Binary or Label null
input
neighborhood
The 3D neighborhood configuration.
CONNECTIVITY_6 The structuring element is composed of voxels with a common face with the voxel of interest.
CONNECTIVITY_18 The structuring element is composed of voxels with at least one common edge.
CONNECTIVITY_26 The structuring element is a full cube.
Enumeration CONNECTIVITY_26
output
outputObjectImage
The binary output image. Its dimensions are forced to the same values as the input. Image null

Object Examples

auto foam_sep = readVipImage( std::string( IMAGEDEVDATA_IMAGES_FOLDER ) + "foam_sep.vip" );

FillHoles3d fillHoles3dAlgo;
fillHoles3dAlgo.setInputObjectImage( foam_sep );
fillHoles3dAlgo.setNeighborhood( FillHoles3d::Neighborhood::CONNECTIVITY_26 );
fillHoles3dAlgo.execute();

std::cout << "outputObjectImage:" << fillHoles3dAlgo.outputObjectImage()->toString();

foam_sep = imagedev.read_vip_image(imagedev_data.get_image_path("foam_sep.vip"))

fill_holes_3d_algo = imagedev.FillHoles3d()
fill_holes_3d_algo.input_object_image = foam_sep
fill_holes_3d_algo.neighborhood = imagedev.FillHoles3d.CONNECTIVITY_26
fill_holes_3d_algo.execute()

print("output_object_image:", str(fill_holes_3d_algo.output_object_image))

ImageView foam_sep = Data.ReadVipImage( @"Data/images/foam_sep.vip" );

FillHoles3d fillHoles3dAlgo = new FillHoles3d
{
    inputObjectImage = foam_sep,
    neighborhood = FillHoles3d.Neighborhood.CONNECTIVITY_26
};
fillHoles3dAlgo.Execute();

Console.WriteLine( "outputObjectImage:" + fillHoles3dAlgo.outputObjectImage.ToString() );

Function Examples

auto foam_sep = readVipImage( std::string( IMAGEDEVDATA_IMAGES_FOLDER ) + "foam_sep.vip" );

auto result = fillHoles3d( foam_sep, FillHoles3d::Neighborhood::CONNECTIVITY_26 );

std::cout << "outputObjectImage:" << result->toString();

foam_sep = imagedev.read_vip_image(imagedev_data.get_image_path("foam_sep.vip"))

result = imagedev.fill_holes_3d(foam_sep, imagedev.FillHoles3d.CONNECTIVITY_26)

print("output_object_image:", str(result))

ImageView foam_sep = Data.ReadVipImage( @"Data/images/foam_sep.vip" );

IOLink.ImageView result = Processing.FillHoles3d( foam_sep, FillHoles3d.Neighborhood.CONNECTIVITY_26 );

Console.WriteLine( "outputObjectImage:" + result.ToString() );