Comments (5)
Thanks for your reply.
I solved this by uncommenting the "#from protein_embeddings import *" from the preprecessing.py
A few more things could be helpful.
- protein_embedding.py has some unwanted indent that caused error.
- Some packages are missing in the readme. e.g esm. Could you release a requirements.txt or a poetry.lock file for user to install all the required packages?
Thank you,
Yang
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Also having big reproducibility issues right now. This might help you for the first steps:
You need to make the package installable that local imports are recognized. You can do this by writing a setup.py
file with this minimal content:
from setuptools import setup, find_packages
setup(
name="prosmith",
description="Prosmith",
package_dir={'': 'code'},
packages=find_packages(where='code'),
classifiers=[
"Programming Language :: Python :: 3",
"License :: OSI Approved :: MIT License",
"Operating System :: OS Independent",
],
)
then you can install the project with pip install .
make sure you create the setup.py
where readme.md is and call pip install .
from there...
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I had all the mentioned issues as well but was too hesitated to open a PR, too:/
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Sorry for my late response, I was very busy during the last weeks.
@fmoorhof thanks for fixing the issues! I merged your pull request.
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Thank you Both!
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Related Issues (3)
- Missing Data Folder HOT 1
- Missing transformer model weights HOT 1
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