ImportError: cannot import name 'model' from 'alphafold3.model' (unknown location)

[ACIITB23]

Commnad I am using: singularity exec --nv alphafold3new.sif python3 run_alphafold.py --input_dir='/home/achaudh6/Desktop/alphafold3/Faild_json' --model_dir='/home/achaudh6/Desktop/alphafold3' --output_dir='/home/achaudh6/Desktop/alphafold3/Failed_out' --db_dir='/home/achaudh6/Desktop/alphafold3/public_databases'

Getting errors

Traceback (most recent call last):
  File "/data/user/home/achaudh6/Desktop/alphafold3/run_alphafold.py", line 47, in <module>
    from alphafold3.model import model
ImportError: cannot import name 'model' from 'alphafold3.model' (unknown location)

I have reinstalled Alphafold3 and tried again but it couldn't work. I also followed this #314

Could you please help me to fix this issue?

[Augustin-Zidek]

Is it possible you missed the Docker build step?

docker build -t alphafold3 -f docker/Dockerfile .

See https://github.com/google-deepmind/alphafold3/blob/main/docs/installation.md#running-using-singularity-instead-of-docker

[AnshBajwa13]

Hi, this

ImportError: cannot import name 'model' from 'alphafold3.model'

often occurs in containerized environments (like Singularity or Docker) when the code inside the container image is out of sync with the version being run, or if the installation within the image is incomplete.

As noted in a similar discussion in issue #314, a frequent cause is updating the Alphafold3 source code after the Singularity image (.sif file) was originally built. Even if you have the latest run_alphafold.py outside, the container still uses the older internal code structure, causing the import to fail.

The most probable solution is to rebuild your Singularity image (alphafold3new.sif) using the current/updated Alphafold3 source code. This ensures the environment inside the container matches the expected structure.
If rebuilding doesn't resolve it, secondary checks could include verifying that src/alphafold3/model/model.py exists inside the container and ensuring the correct working directory is specified via --pwd in the singularity exec command. However, rebuilding the image is the primary fix suggested for this specific import error in this context.

[ACIITB23]

@AnshBajwa13 @Augustin-Zidek
It is working now.
Thanks for the above suggestion.

[Augustin-Zidek]

Great to hear!