sokrypton / sokrypton/ColabFold
JAX 0.3.25 - 'jax_experimental_name_stack' Attribute
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Description
Problem Behavior
Hi,
ColabFold doesn't work with new JAX release.
Steps to Reproduce (for bugs)
Install the last JAX release using
pip install --upgrade "jax[cuda]" -f https://storage.googleapis.com/jax-releases/jax_cuda_releases.html
The version is
jax 0.3.25
jaxlib 0.3.25+cuda11.cudnn82
ColabFold Output (for bugs)
AttributeError: 'Config' object has no attribute 'jax_experimental_name_stack'
Temporary Solution
The error goes away with
jax 0.3.24
jaxlib 0.3.24+cuda11.cudnn82
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Reproduce the failure with JAX 0.3.25 and the ColabFold setup described in the issue, then compare it with JAX 0.3.24. Search the project for uses of jax_experimental_name_stack and determine the compatible fix or dependency constraint. Done means ColabFold runs with the newer JAX release and the regression is covered by an appropriate check.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics, machine-learning
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100