How to resolve TiffFileError: Not a Tiff File and Byte Problem with KeyError: b'\x89P'

问题

I am setting up a computer vision project to detect and process GFP proteins. I keep getting errors about my file not being a Tiff Image and a Byte Error. I don't quite understand what they mean and haven't found anything about it online.

I have already made sure that the file path is correct and have tried changing the file into Tiff Format. Now on Finder, it says that it is a TIFF Image but still gives an error.

import tifffile
from colicoords import Data, Cell, CellPlot
import matplotlib.pyplot as plt


binary_img = tifffile.imread('organoid_images/gfp/cells1.tif')
data = Data()
data.add_data(binary_img, 'binary')
cell = Cell(data)
cell.optimize()
cp = CellPlot(cell)

plt.figure()
cp.imshow('flu_514', cmap='viridis', interpolation='nearest')
cp.plot_outline()
cp.plot_midline()
plt.show()

Error Message:

Traceback (most recent call last):
  File "/Users/CosmoCrash/opencvblobs/lib/python3.7/site-packages/tifffile/tifffile.py", line 2236, in __init__
    byteorder = {b'II': '<', b'MM': '>'}[header[:2]]
KeyError: b'\x89P'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "gfp.py", line 6, in <module>
    binary_img = tifffile.imread('organoid_images/gfp/cells1.tif')
  File "/Users/CosmoCrash/opencvblobs/lib/python3.7/site-packages/tifffile/tifffile.py", line 715, in imread
    with TiffFile(files, **kwargs_file) as tif:
  File "/Users/CosmoCrash/opencvblobs/lib/python3.7/site-packages/tifffile/tifffile.py", line 2238, in __init__
    raise TiffFileError('not a TIFF file')
tifffile.tifffile.TiffFileError: not a TIFF file

回答1:

Your file starting \x89P is a PNG file, not TIFF, as that is a PNG signature, whereas TIFF files start II if in Intel order, or MM if in Motorola order.

If on Linux/macOS, try running: