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**I'm trying to run "python -m rf2aa.run_inference --config-name protein" to test. But error comes.**
Using the cif atom ordering for TRP.
./make_msa.sh examples/protein/7qxr.fasta 7qxr_job/A 4 64…
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I have generated more than 20,000 structures with alphafold, now running alphafold 2.2.1, but have three particular protein sequences, Ashbya gossypii proteins AFL131W, ADL346W, and AGR113W, where al…
derf0 updated
7 months ago
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Everything was followed by the guideline except for the jax installation, becaue it would throw out the error of `ValueError: jaxlib is version 0.1.69, but this version of jax requires version 0.1.7…
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I uploaded the .a3m file from HHBlits as outlined in the first cell, but run into this error?
```
---------------------------------------------------------------------------
ValueError …
FJ0M updated
9 months ago
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I'm running HHblits in docker and I wish to run it on a whole dataset of sequences to find an MSA for each sequence.
However the only way I have found to do this yet, is to put each sequence in a dif…
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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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Hi, we are trying to use your package and are encountering an error when trying out an example. On running the command:
```
create_individual_features.py \
--fasta_paths=baits.fasta,example_1_seq…
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Hi all,
My download directory matches that currently specified on the AlphaFold read me but during runtime I get the following error:
```
stderr:
I1115 22:08:36.661796 23135168587584 utils…
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I follow the tutorial of README file like this.
```bash
$./run_pipeline.sh example/T1078.fa example/T1078
Running HHblits
Running PSIPRED
Running hhsearch
cat: /home/test/Downloads/trRosetta2…
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Hello,
I am able to "run" AlphaLink successfully (i.e., generate pkl and pdb outputs from a fasta and crosslinks file), but when I check the generated 'alignments' folder, I get a subfolder with th…