Semantic segmentation when the labels are in a matrix

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I'm trying to perform semantic segmentation with segnet using
lgraph = segnetLayers(imageSize,numClasses,encoderDepth);
And my dataset is in the form of matrixes and not of images.
I keep getting an error message from trainNetwork:
"Invalid training data. Y must be a vector of categorical responses."
I don't understand how to format the labels as vectors when the segmentation is pixel-wise! The output has as many pixels as the input and not a single catagory. All the examples are for reading from files..
Thanks in advance to anyone who can help..

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