.. DO NOT EDIT.
.. THIS FILE WAS AUTOMATICALLY GENERATED BY SPHINX-GALLERY.
.. TO MAKE CHANGES, EDIT THE SOURCE PYTHON FILE:
.. "auto_examples/fusion3D.py"
.. LINE NUMBERS ARE GIVEN BELOW.

.. only:: html

    .. note::
        :class: sphx-glr-download-link-note

        :ref:`Go to the end <sphx_glr_download_auto_examples_fusion3D.py>`
        to download the full example code

.. rst-class:: sphx-glr-example-title

.. _sphx_glr_auto_examples_fusion3D.py:


Fusion3D example
================

Fusion3D (mesh + texture from a volume) in Anatomist

.. GENERATED FROM PYTHON SOURCE LINES 39-88



.. image-sg:: /auto_examples/images/sphx_glr_fusion3D_001.png
   :alt: fusion3D
   :srcset: /auto_examples/images/sphx_glr_fusion3D_001.png
   :class: sphx-glr-single-img





.. code-block:: default


    import anatomist.api as anatomist
    # to expand the mesh bigger
    from soma import aims
    from soma.qt_gui.qt_backend import Qt
    import numpy as np
    import sys

    runloop = False
    if Qt.QApplication.instance() is None:
        runloop = True

    # initialize Anatomist
    a = anatomist.Anatomist()

    # load a volume in anatomist
    avol = a.loadObject('irm.ima')
    amesh = a.loadObject('test.mesh')

    # this is to make the mesh bigger compared to the volume size
    tr = aims.AffineTransformation3d()
    tr.fromMatrix(np.matrix([[8., 0, 0, 204.4],
                             [0, 8., 0, 132.5],
                             [0, 0, 8., 68.4]]))
    aims.SurfaceManip.meshTransform(amesh.toAimsObject(), tr)
    amesh.UpdateMinAndMax()

    # fusion the objects
    fusion = a.fusionObjects(objects=[avol, amesh], method="Fusion3DMethod")
    # params of the fusion
    a.execute("Fusion3DParams", object=fusion,
              method="line", submethod="mean", depth=4, step=1)

    # open a window
    win = a.createWindow('Axial')
    # put volume in window
    a.addObjects([fusion], [win])

    # export the fusion texture in a file.
    fusion.exportTexture("fusion.tex")


    # display in matplotlib for sphinx_gallery
    win.sphinx_gallery_snapshot()

    if runloop and 'sphinx_gallery' not in sys.modules:
        Qt.QApplication.instance().exec_()
    if runloop or 'sphinx_gallery' in sys.modules:
        del fusion, win, amesh, avol, tr


.. rst-class:: sphx-glr-timing

   **Total running time of the script:** (0 minutes 1.781 seconds)


.. _sphx_glr_download_auto_examples_fusion3D.py:

.. only:: html

  .. container:: sphx-glr-footer sphx-glr-footer-example




    .. container:: sphx-glr-download sphx-glr-download-python

      :download:`Download Python source code: fusion3D.py <fusion3D.py>`

    .. container:: sphx-glr-download sphx-glr-download-jupyter

      :download:`Download Jupyter notebook: fusion3D.ipynb <fusion3D.ipynb>`


.. only:: html

 .. rst-class:: sphx-glr-signature

    `Gallery generated by Sphinx-Gallery <https://sphinx-gallery.github.io>`_