IndexError in Notebook 06.07 - Denovo Protein Design

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Assessment

Difficulty
3/5
Estimated time
1-2 days
Newbie friendliness
25/100
Issue type
Bug
Clarity
Needs clarification
Activity status
Stale
Tech stack
jupyter-notebook, python
Domain
bioinformatics

Research direction

Start with Notebook 06.07 - Denovo Protein Design and the attached Denovo Protein Design Notebook Output.pdf, reproducing the Chain A redesign in one of the listed PyRosetta environments. Done means the notebook completes that redesign without the reported IndexError, with the cause and resolution confirmed.

Written by the indexing model from the issue text.

Description

Hi team,

Thanks for a great resource. I've been struggling for a few days to troubleshoot this issue. I'm getting a very cryptic index error when trying to run the redesign Chain A in this notebook.

I have tried running with 2022 (python 3.9) and 2019 (python 3.6) releases of PyRosetta installed via conda, but the error persists.

I'd be grateful for any suggestions.

All the best,

Konrad.

Denovo Protein Design Notebook Output.pdf
image

Dominant language
Jupyter Notebook
Stars
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Forks
173
Avg merge
5m
Merged PRs (30d)
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