ayl / heyexreader

Python package to read Heidelberg Spectralis files

heyexReader

This is a native python implementation for reading Heidelberg Heyex Spectralis files. The current version only supports the Heyex VOL files.

The full documentation of this project is located at: http://heyexreader.readthedocs.io/

Installation

$ pip install heyexReader

Requirements

• Numpy
• Pillow

Getting Started

import heyexReader

vol = heyexReader.volFile("test.vol")

vol.renderIRslo("slo.png", renderGrid = True)
vol.renderOCTscans("oct", renderSeg = True)

print(vol.oct.shape)
print(vol.irslo.shape)

Thanks To

The basis for this code was ported from Markus Mayer's excellent work https://www5.cs.fau.de/research/software/octseg/.

Funded by

heyexreader's Issues

Writing .vol files

Hi,

I was wondering if you have any code that allows for writing data to .vol files? I work on a tool that reads various OCT formats, with the aim of writing them to more general formats for analysis, but someone has requested writing to .vol for interoperability with some analysis packages in ImageJ. I'm not familiar with the format but found this codebase and wondered if you had anything of the sort?

Thanks,
Mark

read e2e

Thanks for sharing your code, I just wondering is there any chance to read the e2e similar to your code?

Error in running code

Hi,
I have run the sample code and using Heidelberg Heyex Spectralis file (.vol) as input. However, get the following error
error: unpack requires a buffer of 4 bytes

I have also attached the following screenshot to easily locate error. Could you please guide me how to solve this.

(https://user-images.githubusercontent.com/11353538/143866691-11fdece5-285d-45aa-8a00-d90916ad488f.jpg))

Thanks
Naveed