load multipages TIF image
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Hello
I'm trying to open a multislices TIF image.
It works in GUI but when used in app designer it read only 1 slice.
What's wrong?
Many thanks for helps
I used this code:
function LoadImageButtonValueChanged(app, event)
value = app.LoadImageButton.Value;
% Selecting image file to process
[filename, pathname] = uigetfile('*.*', 'pick an image'); % pop up file open dialog to select image
filename = strcat(pathname,filename);
info = imfinfo(filename);
numberOfPages = length(info);
for k = 1 : numberOfPages
thisPage = imread(filename, k);
imshow(imadjust(thisPage),'Parent',app.UIAxes); %-show the kth image in this multipage tiff file
end
end
2 个评论
Walter Roberson
2023-2-12
filename = strcat(pathname,filename);
should be
filename = fullfile(pathname, filename);
uigetfile does not promise that the directory name will have a directory separator at the end of it.
alfonso Davide pinelli
2023-2-12
采纳的回答
Sulaymon Eshkabilov
2023-2-12
Here length() does not do the job. therefore, it is better to use tiffreadVolume()
Here is the corrected code:
function LoadImageButtonValueChanged(app, event)
value = app.LoadImageButton.Value;
% Selecting image file to process
[filename, pathname] = uigetfile('*.*', 'pick an image'); % pop up file open dialog to select image
filename = strcat(pathname,filename);
info = tiffreadVolume(filename);
Size_Tiff = size(info);
numberOfPages = Size_Tiff(4);
for k = 1 : numberOfPages
thisPage = imread(filename, k);
imshow(imadjust(thisPage),'Parent',app.UIAxes); %-show the kth image in this multipage tiff file
end
end
11 个评论
alfonso Davide pinelli
2023-2-12
alfonso Davide pinelli
2023-2-12
Sulaymon Eshkabilov
2023-2-12
Pl., share one of your tif images to give you a proper guidance.
Walter Roberson
2023-2-12
V = tiffreadVolume(filename) loads all of the volumetric or time series image data in the multipage TIFF file named filename into V. The spatial and time dimensions in V are first, and color (if present) is in the final dimension.
This implies that if a 3D array is returned that it would be height by width by pages (time), and that if it is 4D then it would be height by width by pages (time) by colorpanes .
This is not the same order as is more commonly used in MATLAB; for example writing video frames is height by width by colorpanes by time. It would be easy to mistakenly think that the pages (time) would be the 4th dimension of the output instead of the third that is documented.
But if Size_Tiff is showing up as 2, then tiffreadVolume was only able to find a single image.
Warning: The next image file directory at byte position 117206199 is at or beyond the end of the file.
The TIFF file is not formatted properly. It might be corrupt.
alfonso Davide pinelli
2023-2-13
编辑：alfonso Davide pinelli
2023-2-13
Walter Roberson
2023-2-13
There are multiple ways of storing volumes in a single TIFF file. The documentation says
This function supports reading volumetric and time series data from the following kinds of TIFF stacks:
- Image data stored in the file as individual Image File Directories (IFDs) of the same size and kind.
- Image data stored in the file as one image using the TIFF ImageDepth tag .
- Image data stored as large, non-BigTIFF files, greater than 4GB, created by ImageJ.
(I note that the last of those is not really conformant TIFF files)
alfonso Davide pinelli
2023-2-14
alfonso Davide pinelli
2023-2-14
alfonso Davide pinelli
2023-2-14
移动：Walter Roberson
2023-2-14
Steve Eddins
2023-2-14
Without a sample file to examine, I can only guess. Based on the imfinfo output you posted, as well as Walter Roberson's comments, I guess that the slice data is hidden inside private TIFF tags created by ImageJ. See the ImageDescription and UnknownTags fields of the output of imfinfo. If that is really the case, then it will require custom code to convert the private tag ImageJ data. I'm not familiar with the method of storing extra slice data in a TIFF file, so I'm not sure how difficult it might be.
Walter Roberson
2023-2-14
You need to be careful using length(). length(A) is defined as
if isempty(A)
length is 0
else
length is max(size(A))
end
We see from your previous comments that size() of the tiffreadVolume is [512 512] . length() of that is not the number of pages: length() is going to be max([512 512]) which would be 512
Number of pages would, in the specific case of tiffreadVolume, be size(info,3) -- which would be 1 for that file.
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