Table of content

New Features

New Algorithms

Library	Algorithm	Comments
Image Geometric transformation	Elastic Warp 2d	Apply a generic motion field to an image
Image Registration	DeepFlow between two 2d images	Computes a dense optical flow occurred between two input images
Image Registration	Image registration using 2D grey signed features	Apply to the first input image the transform estimated between the two input images using Extract grey signed features 2d
Filtering image operations	Masked Mean Smoothing 2d	Masked mean filter used to blur a 2d image
Filtering image operations	Masked Mean Smoothing 3d	Masked mean filter used to blur a 3d image
Utility image processing algorithms	Build 2D Lines	Generates a binary image with oriented lines
Utility image processing algorithms	Build 3D Lines	Generates a 3D binary image with oriented lines
Image Registration	Stack registration	Registration of the slices in a 3D stack using grey signed features and taking into account a cumulative angular bias
Global measure image operations	Area Percent 2d measurement	Computes the ratio between the number of pixels and the total image size.
Global measure image operations	Volume Percent 3d measurement	Computes the ratio between the number of voxels and the total image size.
Global measure image operations	Counting 2d objects	Count the number of objects in the image.
Global measure image operations	Counting 3d objects	Count the number of objects in the 3D input label image.

New Low Level features

New C++ features

Library	Feature	Comments
IPSDKImage library	Geometry interpretation	New functions to reinterpret a geometry : Volume<->Sequence, Volume<->MultiChannel, MultiChannel<->Sequence. The reinterpretation Volume<->Sequence was already available in Python. All of these reinterpretations are now available in C++. Note We assume that the size along 2 of the 3 dimensions is equal to 1.

Behavior modifications

Modified Algorithms

Library	Algorithm	Comments
Advanced Morphological image operations	Generic Seeded Distance Map 2d	The output distance map has now Real32 data type by default (instead of UInt16)
Advanced Morphological image operations	Generic Seeded Distance Map 3d	The output distance map has now Real32 data type by default (instead of UInt16)
Advanced Morphological image operations	Seeded Distance Map 2d	The output distance map has now Real32 data type by default (instead of UInt16)
Advanced Morphological image operations	Seeded Distance Map 3d	The output distance map has now Real32 data type by default (instead of UInt16)
Global measure image operations	Masked histogram measurement 2d	In the case of integer images, the algorithm does not forbid binwidth lower than 1 anymore but uses 1 instead of the input binwidth value
Global measure image operations	Masked histogram measurement 3d	In the case of integer images, the algorithm does not forbid binwidth lower than 1 anymore but uses 1 instead of the input binwidth value
Global measure image operations	Histogram measurement 2d	In the case of integer images, the algorithm does not forbid binwidth lower than 1 anymore but uses 1 instead of the input binwidth value
Global measure image operations	Histogram measurement 3d	In the case of integer images, the algorithm does not forbid binwidth lower than 1 anymore but uses 1 instead of the input binwidth value

Modified Low Level features

New SIMD function : moduloCentered. Given a value v to adjust according to a modulo value mv, the function computes the corresponding value in the range [-mv/2, mv/2[.

Modified C++ features

Library	Feature	Comments
IPSDKImage library	Geometric Calibration	Every image now contains a geometric calibration by default (scale = 1px, origin = (0, 0) in 2D and (0, 0, 0) in 3D
IPSDKImageFile library	Loading TIFF files	IPSDK can now load Tiff images saved with ImageJ with a specific format that is supported by only a few external tools such as the tifffile python module

Bug Fixes

Algorithms Bug Fixes

Library	Algorithm	Comments
Basic Morphological image operations	Pruning of 3d skeletons	Some voxels were considered as endpoints whereas they have neighbours in another slice
Basic Morphological image operations	Pruning of 3d skeletons	Correction allowing to prune the object in cntact with the border
Basic Morphological image operations	Distance Map 3d	Correction of overflow for large Z coordinates
Arithmetic image operations	Formula 2d image algorithm	Automatic allocation of the output image has now the same nature (Memory, disk, etc.) than the first define input optional image in the order : Grey Image 1, Grey Image 2, Grey Image 3, Binary Image 1, Binary Image 2, Binary Image 3, Label Image 1, Label Image 2, Label Image 3
Arithmetic image operations	Formula 3d image algorithm	Automatic allocation of the output image has now the same nature (Memory, disk, etc.) than the first define input optional image in the order : Grey Image 1, Grey Image 2, Grey Image 3, Binary Image 1, Binary Image 2, Binary Image 3, Label Image 1, Label Image 2, Label Image 3
Advanced Morphological image operations	Watershed Binary Separation 3d	Correction of rules for 3D sequence images and correction for the SplitLabel option
Shape analysis	Shape Analysis 2d	Modification of the algorithm rule to allow the analysis with empty shapes
Shape analysis	Shape Analysis 3d	Modification of the algorithm rule to allow the analysis with empty shapes
Basic Morphological image operations	Skeleton 2d calculation	In some cases, when the objects touches the right of the image, the smooth skeleton algorithm infinitely looped

Measures Bug Fixes

Measure Type	Measure	Comments
Inertia	Inertia2d	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Inertia	Inertia Orientation 2d	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Inertia	GreyInertia	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Inertia	GreyInertiaOrientation2d	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Angularity	Disparity angularity 2d	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Angularity	Radius angularity index 2d	Correction of a rotation of PI/2 in the calculatoin of the inertia based 2D orientation
Energy	Statistics	Management of empty shapes
Entropy	Statistics	Management of empty shapes
Local histogram module	Statistics	Management of empty shapes
Roughness2d	FormFactor	Management of calibrated shapes
IPSDKGeometry	IPSDK libraries	Applying a transform to a shape does not remove the row intersections anymore. Please keep in mind that a transformed (or calibrated) shape will have transformed polygons/meshes but the row intersections won't be transformed/calibrated.

Embedded applications

IPSDK Explorer

The exe launcher now calls the RegisteLicense app if the license is not valid.
Possibility to specify the number of channels and the number of frames when openning a RAW file. If the image has several channels, the color geometry is considered as a User Color Geometry.
The 4 views mode for the 3D viewer inside Explorer has now improved with orthoslices visualization and 3D selection box live visualization
Raw image import window has been improved allowing to give the geometry of the image including C and T for multi-channels and sequence images, as well as a calibration of the image
2 new buttons were added to the interface to create images with a colorbar calibration
Label images visualization inside the 3D viewer of Explorer improved
A new measure tool allows to draw angles on images
STL files can now be loaded into the software by going to File -> Load STL
Interpolation modes are now inside a drop-down list with a new invert interpolation mode
The macro edition window has been improved with a new text edition area with better completion and optimization, but also a new display
Code examples, inside a new tab, are now provided inside the macro edition window to help users develop their macros
Functions display has now changed for a better visual of the inputs and outputs of the functions
The smart segmentation module has now the possibility to compute the confusion matrix linked to the model
It is now possible to save a session of Explorer and reload it
The moviemaker module for 3D visualization now has a button to apply a rotation
It is now possible to choose the sieves preferences or to import sieves to display customized histograms
Origins of an image or a volume are now saved directly inside the data, and applied to the 3D visualization of volumes