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Creating mask Datastore for Mask R-CNN

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Bryce
Bryce 2024 年 2 月 5 日
編集済み: Bryce 2024 年 2 月 14 日
I am working with 126 (size 512x512) grayscale images. Each image has atleast 10-100 object instances. I labeled polygon masks and bounding boxes with the use of the image labeler app. I exported the ground truth and separated the images and bbox in their own datastore. Now I am looking to create the imagedatastore for the masks by following the instructions on:
Create Datastore that Reads Data: Create an imageDatastore and specify a custom read function that returns mask data as a binary matrix
I went on to follow the steps of converting the polygons labels to maskstacks. The mask stacks I got were as expexted the mask (h,w,numobjects). For example one of my maststacks was a 512x512x39 logical .
How do I format these mask stacks into an image datastore to train the mask RCNN.

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T.Nikhil kumar
T.Nikhil kumar 2024 年 2 月 12 日
Hi Bryce,
According to the documentation you’re following, the next step for you is to create an ‘imageDatastore’ that reads the mask data as a binary matrix.
I would suggest you to try this possible solution for the same.
1. After converting polygon labels into binary masks, you can save each mask stack in a .mat file with a suitable name (For eg: maskStack1.mat for the first image). You can put all these individual mask stack files in a ‘MaskStackFolder’ folder.
2. Now, define a custom read function that should take a file path as input and return the binary mask stack in the expected format. Refer to the following code snippet:
function mask = customReadFcn(filename)
% Load the data from the .mat file
loadedData = load(filename);
% Assuming the variable containing the mask stack is named 'maskStack'
mask = loadedData.maskStack;
% Ensure you are using correct variable name as per your naming
end
3. You can now create an ‘imageDatastore’ with this folder and custom read function.
maskFolder = "C:\MATLAB\MaskStackFolder"; % Replace with the actual path to your mask stack folder
% Create an imageDatastore for the mask stacks
masksDatastore = imageDatastore(maskFolder, 'ReadFcn', @customReadFcn);
Ensure that the order of the mask stacks in the ‘imageDatastore’ corresponds to the actual order of the images in the previously create image datastore for images.
I hope this answer is able to help you!
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Bryce
Bryce 2024 年 2 月 14 日
編集済み: Bryce 2024 年 2 月 14 日
Hey T.Nikhil kumar,
Thanks for your answer. This problem has been a road block in my work so I am thankful for your answer. Unfortunately I tried the option and got this error.
Error using imageDatastore
Input folders or files contain non-standard file extensions.
Use FileExtensions Name-Value pair to include the non-standard file extensions.
I tried using the input argumet for imagedatastore ("FileExtenstions",".mat") to attempt to resolve the error and it worked so far. Hopefully I don't run into any other problems :). I am still curious why they did not put this in the instuctions/website

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