How to bring the (non-struct array object) pixel data into the right format?
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I am trying to bring an image volume (181x299x305 double (=FilteredVolume)) from Matlab to the 3D Slicer (with the MatlabBridge Extension). The size of the voxels are [0.0500 0.0500 0.0500]. The number of slides from which the volume was created are 181.
I have used the code:
load('matrixfilteredvolume.mat');
img.ijkToLpsTransform = [ 0.05 0 0 0; 0 0.05 0 0; 0 0 0.05 0; 0 0 0 1];
img.pixelData=FilteredVolume
cli_imagewrite(img.ijkToLpsTransform.FilteredVolume, img);
--------------------
But now I get the Error:
img =
struct with fields:
ijkToLpsTransform: [4×4 double]
pixelData: [181×299×305 double]
Struct contents reference from a non-struct array object.
Error in (line 19)
cli_imagewrite(img.ijkToLpsTransform.FilteredVolume, img);
Can anybody help me how I should change the structure contents of my matrix to make this code work?
I am working on it quit a long time, so I would be very pleased about any suggestions!
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Answers (2)
Walter Roberson
on 16 Jun 2018
You construct
img.ijkToLpsTransform = [ 0.05 0 0 0; 0 0.05 0 0; 0 0 0.05 0; 0 0 0 1]
so img.ijkToLpsTransform is a numeric vector.
But then you try
cli_imagewrite(img.ijkToLpsTransform.FilteredVolume, img);
implying that you think img.ijkToLpsTransform is a struct.
Perhaps you wanted
cli_imagewrite(img.FilteredVolume, img);
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Guillaume
on 16 Jun 2018
At this point, it's probably easier if you attach to your question the unmodified m file that you're supposed to edit.
Image Analyst
on 16 Jun 2018
Try this:
load('matrixfilteredvolume.mat');
% "img" has now been poofed into memory.
img.ijkToLpsTransform = [ 0.05 0 0 0; 0 0.05 0 0; 0 0 0.05 0; 0 0 0 1];
% Assign the pixelFata field to FilteredVolume.
% We KNOW that FilteredVolume already exists because you got past this line.
img.pixelData=FilteredVolume
% Now write out FilteredVolume:
cli_imagewrite(FilteredVolume, img);
I'm not really sure what your function cli_imagewrite() does since you didn't include it but presumably it wants something like FilteredVolume as the first argument and a structure as the second argument.
9 Comments
Walter Roberson
on 16 Jun 2018
It appears to me that you need to download https://github.com/PerkLab/SlicerMatlabBridge and make sure that the directories are on your MATLAB path.
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