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zhanglab-aim / cancer-net

Diagnosing cancers using deep learning.
GNU General Public License v2.0
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Is the development done? #35

Open Chan-Hee opened 10 months ago

Chan-Hee commented 10 months ago

Hello, I was also trying to duplicate the result of pNet and it was quite difficult. PyTorch implementation of this code with GNN is very helpful for me, many thanks. I wanted to ask if the development process was finished, because I encountered some errors when I ran the demo ipynb files.

-setup.py files had to be updated to include sub directories of cancernet -torch-sparse packages had to be installed, which was not in the yml files.

Is this my own problem or is it because the development is still going on?

Chris-Pedersen commented 9 months ago

Hi @Chan-Hee sorry for the late response, I was offline over the break. The development is not done! Thanks for the heads up with the missing torch-sparse requirement, will add this to the yml file. I'm not able to find any issues with the setup.py however, are you running it from the repo itself? Could you provide an error message?

Thanks!

Chan-Hee commented 9 months ago

Thanks for the reply :) I had an error message of being unable to import modules inside cancernet when running pip . install I was able to run it after this modification. Not sure if this issue is specific to my environment

from setuptools import setup

setup(
    name="cancernet",
    version="0.1.0",
    url="https://github.com/ttesileanu/cancer-net",
    packages=["cancernet","cancernet.arch","cancernet.dataset","cancernet.util"],
)