TIFF save file not working

Hello, I have a 32bit grayscale tiff image composed by 41 slices.

I'm saving file always as a stack but it dont works:

Error using Tiff/writeAllStrips
Unable to retrieve ImageLength.

Error in Tiff/write (line 1486)
                obj.writeAllStrips(varargin{:});

This is the portion of code

                   
                % salva il nuovo file con lo stesso nome ma aggiungendo "modified"
                newFilename = fullfile(folder, [fileList(i).name(1:end-4) '_modified.tif']);
                t = Tiff(newFilename, 'w');
        
                % ottieni le informazioni dalla prima immagine dello stack originale
                info = imfinfo(filename);
                disp(info(1))
                
%                 tagstruct.ImageLength     = size(newStack(:,:,1),1);
%                 tagstruct.ImageWidth      = size(newStack(:,:,1),2);
%                 tagstruct.Photometric     = Tiff.Photometric.MinIsBlack;
%                 tagstruct.BitsPerSample   = 32;
%                 tagstruct.SamplesPerPixel = 1;
%                 tagstruct.RowsPerStrip    = 16;
%                 tagstruct.PlanarConfiguration = Tiff.PlanarConfiguration.Chunky;
%                 tagstruct.Software        = 'MATLAB';

                % imposta le informazioni nella nuova immagine Tiff
                t.setTag('Photometric', 1);
                t.setTag('Compression', 1); % 1 = nessuna compressione, 8 = compressione Deflate
                t.setTag('BitsPerSample', info(1).BitsPerSample);
                t.setTag('SamplesPerPixel', info(1).SamplesPerPixel);
                t.setTag('SampleFormat', Tiff.SampleFormat.UInt);
                t.setTag('ImageLength', info(1).Height);
                t.setTag('ImageWidth', info(1).Width);

                t.setTag('PlanarConfiguration', Tiff.PlanarConfiguration.Chunky);
        
                for j = 1:numImages
                    %t.setTag(info(j)); % commenta questa riga per testare se il problema è qui
                    t.write(newStack(:,:,j));
                    t.writeDirectory();         
                end

                t.close();

This is iminfo of source file

                          FileModDate: '30-dic-2022 09:47:14'
                     FileSize: 492005745
                       Format: 'tif'
                FormatVersion: []
                        Width: 2000
                       Height: 1500
                     BitDepth: 32
                    ColorType: 'grayscale'
              FormatSignature: [77 77 0 42]
                    ByteOrder: 'big-endian'
               NewSubFileType: 0
                BitsPerSample: 32
                  Compression: 'Uncompressed'
    PhotometricInterpretation: 'BlackIsZero'
                 StripOffsets: 225
              SamplesPerPixel: 1
                 RowsPerStrip: 1500
              StripByteCounts: 12000000
                  XResolution: []
                  YResolution: []
               ResolutionUnit: 'Inch'
                     Colormap: []
          PlanarConfiguration: 'Chunky'
                    TileWidth: []
                   TileLength: []
                  TileOffsets: []
               TileByteCounts: []
                  Orientation: 1
                    FillOrder: 1
             GrayResponseUnit: 0.0100
               MaxSampleValue: 4.2950e+09
               MinSampleValue: 0
                 Thresholding: 1
                       Offset: 8
             ImageDescription: 'ImageJ=1.53n↵images=41↵slices=41↵loop=false↵min=0.0↵max=1.401298464324817E-45↵'
                 SampleFormat: 'IEEE floating point'       

Many thanks

Answer 1

[Mann Baidi]

Hi @alfonso Davide pinelli,

You are facing this issue because you are not setting the values of the parameteres for the new IFD created using writeDirectory function. You will have to set tag for each directories.

If you want to keep the same parameter for every directory, you can update your code as below:

                % imposta le informazioni nella nuova immagine Tiff
                tagstruct.Photometric= 1;
                tagstruct.Compression= 1; % 1 = nessuna compressione, 8 = compressione Deflate
                tagstruct.BitsPerSample= info(1).BitsPerSample;
                tagstruct.SamplesPerPixel= info(1).SamplesPerPixel;
                tagstruct.SampleFormat= Tiff.SampleFormat.UInt;
                tagstruct.ImageLength= info(1).Height;
                tagstruct.ImageWidth= info(1).Width;

                tagstruct.PlanarConfiguration= Tiff.PlanarConfiguration.Chunky;
                for j = 1:numel(info)
                    %tagstruct(info(j)); % commenta questa riga per testare se il problema è qui

                    t.writeDirectory();
                    t.setTag(tagstruct)
                    t.write(newStack(:,:,j));
                end

                t.close();