MATLAB: What is Error occupy for pixellabeldatastore code is following.

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for 3 D volumetric mri brain tumor image and file extension is nii. with my matlab code as following

classNames = ["background","tumor"];

pixelLabelID = [0 1];

pxds = pixelLabelDatastore(im ,classNames,pixelLabelID, …

'FileExtensions','.nii','ReadFcn',volReader);

Error using pixelLabelDatastore>parseInputs (line 202)

'FileExtensions' is not a recognized parameter. For a list of valid name-value pair arguments,

see the documentation for this function.

Error in pixelLabelDatastore (line 151)

[location, classes, values,params] = parseInputs(varargin{:});

Error in SEp1 (line 27)

pxds = pixelLabelDatastore(im,classNames,pixelLabelID, …

Best Answer

You did not indicate your MATLAB release.

The FileExtensions option was not available in some earlier releases. My memory is saying that it was added in one of the 2019 releases.

Related Solutions

MATLAB: Input folders or files do not contain specified file extensions:

Here if you do not define the ReadFcn explicitly, the default function used is imread() which is not supported for .nii extension.

Hence add ReadFcn as suggested by Walter Roberson.

pxds = pixelLabelDatastore(labelDir,classNames,labelIds,'FileExtensions','.nii','ReadFcn',sampleReadFcn); 
imds = imageDatastore(imageDir,'FileExtensions','.nii','ReadFcn',sampleReadFcn);

The custom ReadFcn looks something like the following

function data = sampleReadFcn(filename)
    data = niftiread(filename);
end

Refer here for more information on custom ReadFcn.

Refer niftiread for more info.

MATLAB: Error Combining two pixelLabelImageDatastores or randomPatchExtractionDatastores

The error "Duplicate table variable name:" w.r.t combining certain datastores is a known issue and it might be addressed in the future releases.

In order to get the similar behaviour of combine (like that of imageDatastore or pixelLabelDatastore) the workaround would be that you'll need to put the output in a cell by using transform on your pixelLabelImageDatastore.

dataSetDir = fullfile(toolboxdir('vision'),'visiondata','triangleImages');
imageDir = fullfile(dataSetDir,'trainingImages');
labelDir = fullfile(dataSetDir,'trainingLabels');
imds1 = imageDatastore(imageDir);
imds2 = imageDatastore(imageDir);
classNames = ["triangle","background"];
labelIDs   = [255 0];
pxds1 = pixelLabelDatastore(labelDir,classNames,labelIDs);
pxds2 = pixelLabelDatastore(labelDir,classNames,labelIDs);
pids1 = pixelLabelImageDatastore(imds1,pxds1);
pids2 = pixelLabelImageDatastore(imds2,pxds2);
imdsc = combine(imds1,imds2);
pxdsc = combine(pxds1,pxds2);
tpids1 = transform(pids1, @(x){x});
tpids2 = transform(pids2, @(x){x});
pidsc = combine(pids1,pids2);
tpidsc = combine(tpids1,tpids2);
%% Check the behaviour of combine for each type of datastore
read(imds1)
read(imdsc)
read(pxds1)
read(pxdsc)
read(pids1)
read(tpids1)
read(tpidsc)

Best Answer

Related Solutions

MATLAB: Input folders or files do not contain specified file extensions:

MATLAB: Error Combining two pixelLabel​ImageDatas​tores or randomPatc​hExtractio​nDatastore​s

Related Question

MATLAB: Error Combining two pixelLabelImageDatastores or randomPatchExtractionDatastores