there is an error whenever I put a pdb file in the custom template.

[eirene000]

I put my sequence in query_sequence section and set num_relax as 1. I've customize the template mode as 'custom' and I put the custom sequence which is similar with my query sequence.

Everything was going well but I faced the below error.

Downloading alphafold2 weights to .: 100%|██████████| 3.47G/3.47G [00:25<00:00, 145MB/s] 2023-11-15 14:15:56,647 Unable to initialize backend 'rocm': NOT_FOUND: Could not find registered platform with name: "rocm". Available platform names are: CUDA 2023-11-15 14:15:56,649 Unable to initialize backend 'tpu': INTERNAL: Failed to open libtpu.so: libtpu.so: cannot open shared object file: No such file or directory 2023-11-15 14:16:02,334 Running on GPU 2023-11-15 14:16:02,629 Found 8 citations for tools or databases

UnicodeDecodeError Traceback (most recent call last) in <cell line: 65>() 63 64 download_alphafold_params(model_type, Path(".")) ---> 65 results = run( 66 queries=queries, 67 result_dir=result_dir,

4 frames /usr/lib/python3.10/codecs.py in decode(self, input, final) 320 # decode input (taking the buffer into account) 321 data = self.buffer + input --> 322 (result, consumed) = self._buffer_decode(data, self.errors, final) 323 # keep undecoded input until the next call 324 self.buffer = data[consumed:]

UnicodeDecodeError: 'utf-8' codec can't decode byte 0x94 in position 49: invalid start byte

How can I fix it?

Your Environment

Include as many relevant details about the environment you experienced the bug in. I've just launched Alphfold2.ipynb in my MacBook Pro.

[riquri]

I encountered a similar error when handling MMCIF files as templates. In my case, the downloaded files from PDB RCSB caused a UnicodeDecodeError, while creating a new text file by copying and pasting in a text editor (VS Code) worked well.

[milot-mirdita]

Could you please upload a file that fails? Then we can investigate.