sokrypton / sokrypton/ColabFold
Alphafold2 multimer prediction GPU memory related error on google colab pro
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- Jupyter Notebook
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Description
I am trying to run the alphafold2 notebook on colab pro for multimer prediction of amino acid sequences of total length 1760.
While running the prediction cell , I am getting the error as belos,
ColabFold Output
2022-04-15 18:59:12,166 Could not predict test_sap_80651. Not Enough GPU memory? INTERNAL: CUBLAS_STATUS_EXECUTION_FAILED
How to resolve the issue?Please let me know.
Thanks in advance.
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
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Research direction
Start with the AlphaFold2 notebook's prediction cell and the reported ColabFold output for the 1,760-residue multimer. Reproduce the GPU-memory error on Colab Pro and document a confirmed resolution or workaround, with the issue considered done when the prediction completes or the limitation is clearly explained.
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Assessment
- Tech stack
- jupyter-notebook
- Domain
- bioinformatics, machine-learning
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 15/100