RosettaCommons / RosettaCommons/RFdiffusion

No module named 'yaml'

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Dominant language
Python
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Description

We have been running a lot of issues trying to develop binders using RFdiffusion

we are currently running this on a cloud machine using Nvidia Brev and a Crusoe machine:

OS: Ubuntu 22.04.4 LTS x86_64
Host: cloud-hypervisor
Kernel: 5.15.0-116-generic
CPU: AMD EPYC 9254 (8) @ 2.900GHz
GPU: NVIDIA 0002:00:01.0 NVIDIA Corporation Device 26b9 is currently an L40s
Memory: 927MiB / 147864MiB

Traceback (most recent call last):
  File "/home/ubuntu/RFdiffusion/scripts/run_inference.py", line 21, in <module>
    from omegaconf import OmegaConf
  File "/home/ubuntu/conda/envs/SE3nv/lib/python3.9/site-packages/omegaconf/__init__.py", line 1, in <module>
    from .base import Container, DictKeyType, Node, SCMode, UnionNode
  File "/home/ubuntu/conda/envs/SE3nv/lib/python3.9/site-packages/omegaconf/base.py", line 11, in <module>
    from ._utils import (
  File "/home/ubuntu/conda/envs/SE3nv/lib/python3.9/site-packages/omegaconf/_utils.py", line 24, in <module>
    import yaml
ModuleNotFoundError: No module named 'yaml'

It began with hydra issues that dolved after updating cuda, then moved to this error after performing a conda update -all

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First steps

  1. Read the whole issue, then the project's contributing guide.
  2. Comment on the issue to say you are picking it up — it saves two people doing the same work.
  3. Fork the repository and make your change on a branch.
  4. Open a pull request that references the issue number.

Research direction

Start at scripts/run_inference.py and reproduce the import failure in the reported Python 3.9 conda environment. Then inspect the repository's environment or dependency setup for how OmegaConf and its yaml import are provided; the work is done when the entry point starts without this missing-module error.

Written by the indexing model from the issue text.

Assessment

Tech stack
python
Domain
machine-learning
Issue type
Bug
Difficulty
3/5
Estimated time
1-2 days
Activity status
Stale
Clarity
Needs clarification
Newbie friendliness
30/100

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