Error showing. "Cannot CD to /Users/bas​u/Desktop/​Confocal_I​mages/TNF_​TREATMENT (Name is nonexistent or not a directory).Error in IMAGE_ANALYSIS (line 37) cd (pathInputQuantt)"

pathInputQuantt='/Users/basu/Desktop/Confocal_Images/TNF_TREATMENT'% GFP image directory

pathInputTrack='Users/basu/Desktop/Confocal_Images/TNF_TREATMENT'% HOE image directory

pathOutput=pwd; %purpose?

t = clock; %purpose?

% Find the GFP and HOE images from the directory

cd (pathInputQuantt);

fnamesQUANT = dir('RelA.tiff'); % Get the GFP image: Cell

cd (pathInputTrack);

fnamesTRACK = dir('DAPI.tiff'); % Get the HOE image: Nucleus

restoredefaultpath

rehash toolboxcache

savepath

% Get the file names

fileNameQuant = dir('DAPI.tiff');

fileNameTrack = dir('RelA.tiff');

% Get the GFP image (Quant)

fileAddress='C:/Users/basu/Desktop/Confocal_Images/TNF_TREATMENT/UN_TNF_WT/', dir('RelA.tiff'); % Get the full file name

StackQuant.data = rgb2gray(imread(fileAddress)); % Get the image

%StackQuant.data = StackQuant.data(:,:,2);

[StackQuant.height, StackQuant.width] = size(StackQuant.data); % Get the size of the image

% Get the HOE image (Track)

fileAddress=[pathInputTrack, fileNameTrack]; % Get the full file name

StackTrack.data = rgb2gray(imread(fileAddress)); % Get the image

%StackTrack.data = StackTrack.data(:,:,3);

[StackTrack.height, StackTrack.width] = size(StackTrack.data); % Get the size of the image

Answer 1

[Raghav]

Hi,

Based on your question, I understand that you are facing path changing related difficulty while executing your program.

Based on the code provided and the error, there can be following possible reasons for this error:

1. It is possible that the path you are trying to access i.e. the folder is not present at the location provided by you in ‘pathInputQuantt’.
2. Another reason may be that the path is not added to the MATLAB path. You can do so by going to MATLAB > Home Tab > Set Path. And then you may add it to the path and save it.

Also, I will recommend you to check the path again as there is no drive mentioned before ‘/Users’.

Hope it helps!

Thanks,

Raghav Bansal