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ModuleNotFoundError BiopythonDeprecationWarning #623
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Just one addition: |
Please use the Google Colab notebook at https://colabfold.com that does not require any installation. Windows is not supported in any case for local installation. |
Thank you for your comment. I think, I found my mistake that happened by my trial to start the AlphaFold. Thank you and bye bye bai717273 |
Expected Behavior
Current Behavior
I'm trying to run one protein sequence with 489 amino acids and repeatedly get the same error message (see the ColabFold output).
I know that the same type of error was reported end of jan 2024, but suggestions to overcome the problem that I found there
were not helpful in my case.
Steps to Reproduce (for bugs)
Please make sure to reproduce the issue after a "Factory Reset" in Colab.
If running locally ypdate you local installation
colabfold_batch
to the newest version.Please provide your input if you can share it.
ColabFold Output (for bugs)
With ColabFold v1.5.5: AlphaFold2 using MMseqs2:
Cannot get through the following error message:
ModuleNotFoundError Traceback (most recent call last)
in <cell line: 7>()
5 import warnings
6 warnings.simplefilter(action='ignore', category=FutureWarning)
----> 7 from Bio import BiopythonDeprecationWarning
8 warnings.simplefilter(action='ignore', category=BiopythonDeprecationWarning)
9 from pathlib import Path
ModuleNotFoundError: No module named 'Bio'
NOTE: If your import is failing due to a missing package, you can
manually install dependencies using either !pip or !apt.
To view examples of installing some common dependencies, click the
"Open Examples" button below.
Context
One colleague told me that I need to check if Anaconda and Biopython are installen on my computer. Is this correct?
Your Environment
Include as many relevant details about the environment you experienced the bug in.
People from the neighbour lab could run AlphaFold successfully, so I assume the server is not the problem.
Prozessor Intel(R) Core(TM) i5-9500 CPU @ 3.00GHz 3.00 GHz
Installed RAM 8.00 GB
System type 64-Bit-operation system, x64-based Prozessor
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