ImageMorphology in 3D

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Thu, 10/11/2012 - 06:46 am

Hey,

I want to use the ImageMorphology function to determine the volume that is located within a certain range of a given volume. For this I tried the following code, which already worked in 2D when omitting /Z=(C1):



Both waves (wave1 and wave2) have 3 dimensions and are of type unsigned 8bit with values of either 0 or 255. Wave2 contains an amorph distribution of 255 voxels, while wave1 contains a sphere. Normally this should provide an output wave M_ImageMorph that contains the structure in wave2 dilated by the radius of the sphere provided with wave1. However the following error is returned:



Am I doing something wrong or is the ImageMorphology function not yet able to work in 3D?

Thanks for your help,

Cheers Finn
I have put code and error message in brackets which somehow hides the text. So once again:

code:
ImageMorphology/S=wave1/X=(C1)/Y=(C1)/Z=(C1) binarydilation wave2

error message:
ImageMorphology, the follwoing error occurred: This feature is not yet implemented.

October 11, 2012 at 08:41 am - Permalink

ImageMorphology/S=wave1/X=(C1)/Y=(C1)/Z=(C1) binarydilation wave2

ImageMorphology, the follwoing error occurred: This feature is not yet implemented.


You seem to have omitted the /E=id flag appropriate for the non-default dimensionality of the ImageMatrix.

October 11, 2012 at 09:16 am - Permalink

finn wrote:
I have put code and error message in brackets which somehow hides the text.

Text within angle brackets, which you used in your original post, is likely to be removed by the system unless that text is a valid HTML tag.

You can either use the HTML escape characters for the angle brackets (&amp;lt; and &amp;gt;) or you can surround your Igor code in <igor></igor> brackets.

October 11, 2012 at 10:51 am - Permalink

Hi,

thanks for your replies. I rather prefer to provide a user-defined structure using the S-flag instead of the E-flag. However, even when using the E-flag it produces the same error.

e.g. this code doesnt work neither.
ImageMorphology/E=200 binarydilation W1

Using a 2D-wave both versions work properly. It seems that 3D doesnt work.

Best regards,

Finn

October 12, 2012 at 08:11 am - Permalink

Quote:


thanks for your replies. I rather prefer to provide a user-defined structure using the S-flag instead of the E-flag. However, even when using the E-flag it produces the same error.

e.g. this code doesnt work neither.
ImageMorphology/E=200 binarydilation W1

Using a 2D-wave both versions work properly. It seems that 3D doesnt work.


If you intend to work with a 3D wave it might be a good start to use a 3D structure element. All 3D structure elements start at id=300.

A.G.
WaveMetrics, Inc.

October 12, 2012 at 03:26 pm - Permalink

Hey,

according to the manual Id=200 is a 3d 2x2x2 cube. However as you proposed I just tried it with id=300 (code as in "function test3D()"). But it does not work. On the other hand the 2D-version ("function test2D()") works fine.

In case there is no solution, I have now written a work-around. It is quite slow but works ok. Thanks anyways for your suggestions.

Cheers,
Finn

Function test3D()
Make/B/U/O/N=(11,11,11) wave1
wave1[5][5][5]=255
ImageMorphology/E=300 binarydilation wave1
End

Function test2D()
Make/B/U/O/N=(11,11) wave1
wave1[5][5]=255
ImageMorphology/E=4 binarydilation wave1
End

October 15, 2012 at 01:32 am - Permalink

finn wrote:
Hey,

according to the manual Id=200 is a 3d 2x2x2 cube. However as you proposed I just tried it with id=300 (code as in "function test3D()"). But it does not work. On the other hand the 2D-version ("function test2D()") works fine.


According to the manual: "Erosion, Dilation, Opening and Closing are the only methods supported for 3D " so naturally binarydilation would return an error.

A.G.
WaveMetrics, Inc.

October 16, 2012 at 11:29 am - Permalink

Ok now it works. Thank you very much! I overlooked that I have to take dilation instead of binarydilation for that.

Best regards,

Finn

October 18, 2012 at 01:36 am - Permalink