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dptech-corp / Uni-Fold

An open-source platform for developing protein models beyond AlphaFold.
https://doi.org/10.1101/2022.08.04.502811
Apache License 2.0
368 stars 69 forks source link

questions on installing on Ubuntu Linux 22.04 #134

Closed avilella closed 11 months ago

avilella commented 11 months ago

Hi,

I followed the installation instructions but I don't think the Uni-fold code is able to find the unicore libraries in the docker container that I downloaded. Can you clarify how to...

Then, you can create and attach into the docker container, and clone & install unifold.

Currently, not having "attached" into the docker container, I get this error:

LS13:~/Uni-Fold$ bash run_unifold.sh     $i     out     /data2/unifold/database     2023-10-01     model_02_ft     /home/petmedix/Uni-Fold/multimer.unifold.pt
Starting homogeneous searching...
Traceback (most recent call last):
  File "/home/petmedix/Uni-Fold/unifold/homo_search.py", line 29, in <module>
    from unifold.data.utils import compress_features
  File "/home/petmedix/Uni-Fold/unifold/__init__.py", line 5, in <module>
    from . import task, model, loss
  File "/home/petmedix/Uni-Fold/unifold/task.py", line 9, in <module>
    from unifold.dataset import UnifoldDataset, UnifoldMultimerDataset
  File "/home/petmedix/Uni-Fold/unifold/dataset.py", line 8, in <module>
    from unifold.data import utils
  File "/home/petmedix/Uni-Fold/unifold/data/utils.py", line 10, in <module>
    from . import residue_constants as rc
  File "/home/petmedix/Uni-Fold/unifold/data/residue_constants.py", line 23, in <module>
    from unicore.utils import tree_map
ModuleNotFoundError: No module named 'unicore'
Starting prediction...
Traceback (most recent call last):
  File "/home/petmedix/Uni-Fold/unifold/inference.py", line 12, in <module>
    from unifold.config import model_config
  File "/home/petmedix/Uni-Fold/unifold/__init__.py", line 5, in <module>
    from . import task, model, loss
  File "/home/petmedix/Uni-Fold/unifold/task.py", line 9, in <module>
    from unifold.dataset import UnifoldDataset, UnifoldMultimerDataset
  File "/home/petmedix/Uni-Fold/unifold/dataset.py", line 8, in <module>
    from unifold.data import utils
  File "/home/petmedix/Uni-Fold/unifold/data/utils.py", line 10, in <module>
    from . import residue_constants as rc
  File "/home/petmedix/Uni-Fold/unifold/data/residue_constants.py", line 23, in <module>
    from unicore.utils import tree_map
ModuleNotFoundError: No module named 'unicore'
avilella commented 11 months ago

I already asked this in a previous issue. Apologies.