# Model alignment 

**URL:** <https://discourse.slicer.org/t/model-alignment/14527>\
**Category:** SlicerCMF\
**Created:** [November 10, 2020, 7:45pm UTC](https://discourse.slicer.org/t/model-alignment/14527 "2020-11-10T19:45:29Z")\
**Posts on this page:** 6\
**Page:** 1

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**Author:** ![had\_al-a](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/had_al-a/32/8792_2.png) [@had\_al-a](https://discourse.slicer.org/u/had_al-a)\
**Post date:** [November 10, 2020, 7:45pm UTC](https://discourse.slicer.org/t/model-alignment/14527/1 "2020-11-10T19:45:29Z")

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I’m an orthodontic postgraduate student. I’m trying to superimpose “align” 2 models and do some 3d measurements. Every time I use the CMF, I chose the points for alignment and then change their radius for ROI and choose other points for the 3d measurement using Q3DC, the 2 models don’t get aligned at all or not well. I don’t know why? Can someone help, my defense is in less than a month and I need the results as soon as possible.

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**Author:** ![manjula](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/manjula/32/80981_2.png) [@manjula](https://discourse.slicer.org/u/manjula)\
**Post date:** [November 10, 2020, 8:02pm UTC](https://discourse.slicer.org/t/model-alignment/14527/2 "2020-11-10T20:02:44Z")

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I think you can do that with good accuracy with the 3D Slicer.

Have a look at SlicerCMF tutorial here.

[![](https://img.youtube.com/vi/hsZrjNsXZbs/maxresdefault.jpg "3K Surface Registration") ](https://www.youtube.com/watch?v=hsZrjNsXZbs)

If it does not work you can do get it to work with the SlicerIGT fiducial registration

> [@STL models - Alignment and Volume measurement](https://discourse.slicer.org/t/stl-models-alignment-and-volume-measurement/8364/5):
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> If you can accurately identify landmark points then you may use Fiducial registration wizard module (in SlicerIGT extension) to register based manually placed landmarks. See U-12 [SlicerIGT tutorial](http://www.slicerigt.org/wp/user-tutorial/) for step-by-step instructions.

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**Author:** ![had\_al-a](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/had_al-a/32/8792_2.png) [@had\_al-a](https://discourse.slicer.org/u/had_al-a)\
**Post date:** [November 11, 2020, 8:26am UTC](https://discourse.slicer.org/t/model-alignment/14527/3 "2020-11-11T08:26:30Z")

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It actually worked. Thank you so much. Now, I need a “color map” and a “cross section” to check for the accuracy of the superimposition.

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**Author:** ![manjula](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/manjula/32/80981_2.png) [@manjula](https://discourse.slicer.org/u/manjula)\
**Post date:** [November 11, 2020, 8:37am UTC](https://discourse.slicer.org/t/model-alignment/14527/4 "2020-11-11T08:37:20Z")

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You need to calculate model to model distance and then visualize it in shape population view.

[![](https://img.youtube.com/vi/FCCa2A77fV8/maxresdefault.jpg "5 Quantification of Changes: Compute the Surface Distances") ](https://www.youtube.com/watch?v=FCCa2A77fV8)

You can clip the model view with many tools easy clip dynamic modeler etc…

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**Author:** ![had\_al-a](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/had_al-a/32/8792_2.png) [@had\_al-a](https://discourse.slicer.org/u/had_al-a)\
**Post date:** [November 11, 2020, 8:39am UTC](https://discourse.slicer.org/t/model-alignment/14527/5 "2020-11-11T08:39:19Z")

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I already tried that. When I pressed apply in the model to model distance, it kept uploading and never stopped even after passing 100%!!!

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**Author:** ![manjula](https://sea2.discourse-cdn.com/flex002/user_avatar/discourse.slicer.org/manjula/32/80981_2.png) [@manjula](https://discourse.slicer.org/u/manjula)\
**Post date:** [November 11, 2020, 11:22am UTC](https://discourse.slicer.org/t/model-alignment/14527/6 "2020-11-11T11:22:14Z")

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well something must be wrong as you dont see a percentage in progress bar when it is calculating. You only see a time status as running with timer. percent completion comes only after it is finished. i think there is a problem with your workflow most probably rather than a bug.