Reading E2E, memory error

[marksgraham]

The files look to contain angiography to me. They get picked up as fundus images, but the image_header produced here doesn't seem right - the values of height and width are huge, causing a memory error when the reader tries to read a chunk of size width*height: https://github.com/marksgraham/OCT-Converter/blob/155df23327065214013036055a4d91d791998f8b/oct_converter/readers/e2e.py#L335-L345

Discussed in https://github.com/marksgraham/OCT-Converter/discussions/90

^{Originally posted by **micceo** February 19, 2023} Hi again! You're never to old to learn something new, first time out with python here. So some cut and paste in my try to read an e2e, used the example. I got an error. X:\m1>my-e2e.py ``` Traceback (most recent call last): File "X:\m1\my-e2e.py", line 13, in file.read_fundus_image() File "C:\prg\dev\Python\Python311\Lib\site-packages\oct_converter\readers\e2e.py", line 342, in read_fundus_image raw_volume = np.frombuffer(f.read(count), dtype=np.uint8) ^^^^^^^^^^^^^ ``` The my-eye.py from the example. ``` from oct_converter.readers import E2E filepath = "x:\m1\EMRorder20230217.e2e" file = E2E(filepath) oct_volumes = ( file.read_oct_volume() ) # returns a list of all OCT volumes with additional metadata if available for volume in oct_volumes: volume.peek(show_contours=True) # plots a montage of the volume volume.save("{}_{}.avi".format(volume.volume_id, volume.laterality)) fundus_images = ( file.read_fundus_image() ) # returns a list of all fundus images with additional metadata if available for image in fundus_images: image.save("{}+{}.png".format(image.image_id, image.laterality)) ``` The file I'm trying to read comes from a HEYEX2 (Heidelberg), 351368 bytes, EMRorder20230217.e2e Here is the first rows from that file. ``` 43 4D 44 62 00 00 00 00 00 00 00 00 64 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 4D 44 62 4D 44 69 72 00 00 00 00 00 64 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 02 00 00 58 00 00 00 C8 00 00 00 DC 9D 78 56 4D 44 62 44 69 72 00 00 00 00 00 00 64 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 00 02 00 00 58 00 00 00 00 00 00 00 F2 7A 56 34 8C 00 00 00 8C 58 00 00 83 00 00 00 00 00 00 00 11 00 00 00 FF FF FF FF FF FF FF FF FF FF FF FF FF FF 00 00 09 00 00 00 D2 9C 65 87 B8 00 00 00 4B 59 00 00 ``` Anyone available to get me on the right track here? Thanks in advance!