fundus jpg looks wrong; the .avi is just "static noise" and the dicom function doesn't work from the example

[skirsch]

I did everything by the book for the demo. I downloaded the exact sample image file and ran the sample code.

There were 3 big problems:

1. the .avi movie was just "static noise"
2. the fundus image was largely black, not like the sample image at all

And the dcm version was unreadable:

3. Output from last part of the example script:

   >>> metadata = fds.read_all_metadata(verbose=True)
   b'@IMG_SCAN_03' there is no method for getting info from this chunk.
   b'@PARAM_TRC_02' there is no method for getting info from this chunk.
   >>> with open("fds_metadata.json", "w") as outfile:
   ...     outfile.write(json.dumps(metadata, indent=4))
   ...
   Traceback (most recent call last):
   File "<stdin>", line 2, in <module>
   NameError: name 'json' is not defined
   >>> dcm = create_dicom_from_oct(filepath)
   Traceback (most recent call last):
   File "<stdin>", line 1, in <module>
   NameError: name 'create_dicom_from_oct' is not defined

   everything else worked.

It appears there was a missing:

from oct_converter.dicom import create_dicom_from_oct

from the example script?

[marksgraham]

I think the fundus might just be that bad quality

Can you try export as a series of .png rather than .avi by changing the extension type and see if it still just looks like noise?

The import was missing from the README script, thanks for spotting, you can find the fuller example here: https://github.com/marksgraham/OCT-Converter/blob/main/examples/demo_fds_extraction.py