Short Description

SDK for 3D ROI creation and manipulation using polygonal (surface) and polyhedral (volume) meshes.

Source code: https://gitlab.pasteur.fr/bia/3d-mesh-roi

Documentation

This library provides the two major types of mesh representation:

  • Polygonal meshes (defining the region via its surface, see ROI3DPolygonalMesh)
  • Polyhederal meshes (defining the region by its interior, see ROI3DPolyhedralMesh)

The VTK library provided with Icy already contains all the necessary tools to manipulate and visualize 3D data sets, yet its low-levelness can be complex for beginners, while potential bugs caused in the C++ back-end may cause the entire application to crash instead of generating elegant bug reports. The main benefits of this library are listed below:

  • Intermediate Java API, much simpler to use than the VTK back-end
  • Native integration with Icy’s Sequence / Viewer / ROI system
  • Eliminates most of the boiler-plate to simplify user code as much as possible

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Changelog

  • Version 1.4.7.0 • Released on: 2019-06-05 10:00:00
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    Description:

    Fixed a bug on vertex removal

  • Version 1.4.6.0 • Released on: 2019-05-22 18:00:00
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    Description:

    - fixed a bug on normal calculation (normalization could produce Nan).
    - fixed a bug on ROI3DTriangularMesh initialization with negative coordinates.
    - tweaked vertex optimization method

  • Version 1.4.5.0 • Released on: 2019-04-23 16:00:00
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    Description:

    Fixed a small bug during ROI display (2D form).

  • Version 1.4.4.0 • Released on: 2019-01-30 13:54:40
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    Description:

    fixed a typo breaking XML loading.

  • Version 1.4.3.0 • Released on: 2018-10-02 16:53:19
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    Description:

    Minor fix to 3D contour splitting

  • Version 1.4.2.0 • Released on: 2018-09-28 16:01:48
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    Description:

    fixed concurrent modification exception (3D Mesh)

  • Version 1.4.1.0 • Released on: 2018-09-26 10:17:34
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    Description:

    Replaced internals methods by Icy kernel methods

  • Version 1.4.0.0 • Released on: 2018-09-25 18:10:48
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    Description:

    - removed pixel size from the ROI (should not be here)
    - better VTK 3D visualization
    - many fixes, changes and optimizations

  • Version 1.3.1.0 • Released on: 2018-09-12 15:21:11
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    Description:

    fixed issue due to Kernel changes

  • Version 1.3.0.0 • Released on: 2018-06-07 17:41:52
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    Description:

    Major cleanup and various fixes.

    WARNING : contains() methods has been changed to work as they should (pixel size not considered), see if that bring any regression.

  • Version 1.2.6.0 • Released on: 2017-09-20 09:36:48
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    Description:

    Fixed an issue when displaying 3D meshes on a 2D canvas

  • Version 1.2.5.0 • Released on: 2017-02-10 10:55:22
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    Description:

    Fixed an issue with mesh files not properly reloaded from the XML metadata

  • Version 1.2.4.0 • Released on: 2017-01-27 16:46:53
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    Description:

    * VTK files can be loaded via drag n drop
    * Fixed useless code

  • Version 1.2.3.0 • Released on: 2016-12-13 20:34:43
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    Description:

    Fixed contains and intersects methods

  • Version 1.2.2.0 • Released on: 2016-08-26 17:10:05
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    Description:

    * Upgraded to Icy 1.8
    * Several code optimisations

  • Version 1.2.1.0 • Released on: 2015-08-04 17:29:19
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    Description:

    Added possibility to optimise the vertex buffer from code (i.e. removing empty entries while preserving face consistency)

  • Version 1.2.0.0 • Released on: 2015-07-31 15:01:19
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    Description:

    Added method to export a polygonal mesh as an OFF file

  • Version 1.1.3.0 • Released on: 2015-07-29 15:55:56
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    Description:

    ROI3DPolygonalMesh can now be constructed from a vtkPolyData object

  • Version 1.1.2.0 • Released on: 2015-06-28 11:32:26
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    Description:

    Mesh ROI can now calculate surface area and volume both in real and pixel units

  • Version 1.1.1.0 • Released on: 2015-05-29 18:26:21
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    Description:

    Fixed an issue int he raster-scanning process

  • Version 1.1.0.0 • Released on: 2015-05-20 23:52:37
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    Description:

    * New: creating a triangular mesh from a ROI will now generate its convex hull instead of a bounding-box-aligned icosahedron
    * Fixed a thread synchronisation issue in the 3D VTK viewer
    * Improved the mesh resampling algorithm

  • Version 1.0.7.0 • Released on: 2015-02-17 19:07:29
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    Description:

    New: create a polygonal mesh from a 3D convex hull obtained with the QuickHull library using:
    new ROI3DPolygonalMesh(QuickHull3D)

  • Version 1.0.6.1 • Released on: 2014-12-02 15:49:59
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    Description:

    Re-uploaded .jar file

  • Version 1.0.6.0 • Released on: 2014-12-02 15:41:26
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    Description:

    Fixed several (more) synchronisation issues

  • Version 1.0.5.0 • Released on: 2014-12-01 19:33:52
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    Description:

    Fixed various multi-threading issues

  • Version 1.0.4.0 • Released on: 2014-11-28 16:29:07
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    Description:

    Fixed mesh topology issues

  • Version 1.0.3.0 • Released on: 2014-11-28 10:29:50
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    Description:

    Fixed VTK management issue

  • Version 1.0.2.0 • Released on: 2014-11-27 11:02:52
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    Description:

    Fixed issue in VTK export

  • Version 1.0.1.0 • Released on: 2014-11-24 17:58:51
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    Description:

    Fixed a potential display issue

  • Version 1.0.0.1 • Released on: 2014-11-24 13:51:59
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    Description:

    Updated the main class

  • Version 1.0.0.0 • Released on: 2014-11-24 13:48:57
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    Description:

    Bumped version (added icons)

  • Version 0.0.1.0 • Released on: 2014-11-24 13:46:31
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