sokrypton / sokrypton/ColabFold
ModuleNotFoundError at "Run Prediction Step"
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Description
Keep getting this error when attempting to run prediction.
ModuleNotFoundError Traceback (most recent call last)
in ()
5 from colabfold.download import download_alphafold_params, default_data_dir
6 from colabfold.utils import setup_logging
----> 7 from colabfold.batch import get_queries, run, set_model_type
8 K80_chk = get_ipython().getoutput('nvidia-smi | grep "Tesla K80" | wc -l')
9 if "1" in K80_chk:
9 frames
/usr/local/lib/python3.7/dist-packages/jax/_src/lib/mlir/dialects/init.py in ()
17 import jaxlib.mlir.dialects.chlo as chlo
18 import jaxlib.mlir.dialects.mhlo as mhlo
---> 19 import jaxlib.mlir.dialects.std as std
ModuleNotFoundError: No module named 'jaxlib.mlir.dialects.std'
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Research direction
Start with the notebook's "Run Prediction Step" and the imports from colabfold.batch, then reproduce the jaxlib.mlir.dialects.std import failure in the shown Python 3.7 environment. Check the installed JAX and jaxlib versions; done means the prediction step imports successfully and can run.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- jupyter-notebook, python
- Domain
- bioinformatics, machine-learning
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100