RosettaCommons / RosettaCommons/RFdiffusion
Final Sequence is UNKNOWN aminoacids
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Description
Hi Teams,
I have run your inference scripts:
./scripts/run_inference.py 'contigmap.contigs=[150-150]' inference.output_prefix=test_outputs/test inference.num_designs=10
However, when I check the seq_t after each timestep and final_seq, both of them are 21, which means the unknown aminoacids.
Then you mapped 21 to 7 (G) (~GLY). Therefore, the generated PDB file contains a sequence of GLYs.
Did I run correctly? Could you explains the reason why the output after denoising is still Unknown?
Thank you so much!
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Research direction
Reproduce the reported command from scripts/run_inference.py and inspect how seq_t and final_seq are produced and mapped to amino acids. Compare those values with the generated PDB sequence and determine whether the UNKNOWN output is expected or indicates an inference problem. Done means documenting the cause and the correct interpretation or usage.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics, machine-learning
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100