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Hello,
The script that prepares the data for prediction, setup_for_alphafold.py, is long when you have a lot of data. I've noticed that it's not parallelized, is it possible to speed it up ?
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Got the following error while running the same settings I've been running for multimers.
```
Randomizing MSAs
2024-06-10 05:24:29.724823: E external/org_tensorflow/tensorflow/compiler/xla/pjrt/pjr…
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Hi,
while executing the colab notebook following error is coming
ImportError: cannot import name 'SCOPData' from 'Bio.Data' (/usr/local/lib/python3.10/dist-packages/Bio/Data/__init__.py)
could …
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Dear AlphaFold users and/or developers,
I'm struggling to find the root cause of two error messages
"File "/home/rloureiro/alphafold/alphafold-env/lib/python3.10/site-packages/urllib3/connectionp…
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toolshed.g2.bx.psu.edu/repos/galaxy-australia/alphafold2/alphafold/2.1.2+galaxy0
Most current version installed at **UseGalaxy.org and UseGalaxy.eu**.
No version is installed at **UseGalaxy.org.au…
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(base) root@f79aaa9343bd:/open-omics-alphafold# bash online_inference_baremetal.sh /opt/conda ${PWD} /afdb/AlphaFold2_DB_2023-11-23 /data/input /data/output model_3 30
bf16 variable: True
/opt/cond…
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The Environment:
================
Running on Docker 20.10.12-3 on RHEL 7.9 with 4x NVIDIA Corporation GV100GL [Tesla V100 PCIe 32GB] cards.
CUDA version on this host is 11.4.
I also get this v…
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AttributeError Traceback (most recent call last)
[](https://localhost:8080/#) in ()
25 import py3Dmol
26
---> 27 from alphafold.model import model
28 fr…
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## Expected Behavior
easy-search using Alphafold/Uniprot database. Command run: `foldseek easy-search [PDBfile] afuniprot [PDBfilename].m8 tmpFolder`
## Current Behavior
```
Query database size: 1…
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I'm running alphafold colab in Firefox browser and when running the section '4. Search against genetic databases' I get the following error:
AttributeError Traceback (mos…