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Hi,
Thanks for providing this wonderful tool! I folllowed the instructions and everything run smoothly until the predicting step:
```
(speed_ppi) [kfang@compgeno SpeedPPI]$ bash predict_single.sh…
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I clone the repo, cd into it, run the provided command `mamba env create -n openfold_env -f environment.yml` and run into the following error:
```
Channels:
- conda-forge
- bioconda
- pytorc…
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Similar to #465 I am getting an error with hmmsearch when running with multimer
Full output from this command:
```
run_alphafold.sh -d $DATA_DIR -o $OUTPUT_DIR -m multimer -f ./com_triplechain.…
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Hi Luwei, I have been using your web server for docking to my Alphafold predicted structure but I have have too many of them so I just installed your code to run it local but the result was not as acc…
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## Expected Behavior
Local colabfold_batch should show:
```
2023-12-13 17:45:01,367 Query 1/1: sequence (length 23)
COMPLETE: 100%|██████████| 150/150 [elapsed: 00:11 remaining: 00:00]
```
…
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Dear AlphaLink developers,
I am trying to run "predict_with_crosslinks.py" as follows:
```
# Running
predict_with_crosslinks.py $FASTA_FILE restraints.csv --distograms $UNIREF90_PATH $MGNIFY_PAT…
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Example: https://prankweb.cz/viewer?id=Q5VSL9&database=v3-alphafold
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Hi I have a class that I am trying to fold a bunch of protein fragments for, as part of a larger research project. I would be really nice if there was some way to batch process a list of sequences. An…
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Hi,
I am working with your great pipeline and it works for me.
I am just wondering if there is a possibility to get the latent representation of the multimeres next to the pdbs.
I change the para…
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Hi all,
I believe this is a simple fix but I am stuck on step "Run run_docker.py". I just put the input and output.
I'm running linux mint and I've had this working until the recent nvidia drive…