No such file or directory: './round_output/Test_mcts/0/attention/HLA-A*26:01_VMMGLLMFS_attention.csv'

[ddiem-ri-4D]

Hi @YichengLin-lab,

While I am studying your research team's paper and trying to run code with the following command: *python main.py --peptide VMMGLLMFS --HLA HLA-A26:01 --num_simulations 10* I encountered an error: No such file or directory: '/mypath/./round_output/Test_mcts/0/attention/HLA-A26:01_VMMGLLMFS_attention.csv' Could you please explain why this error is occurring and help me resolve it? Thank you very much.

Best regards, Mỹ Diễm

[YichengLin-lab]

Hello Mỹ Diễm, So glad to hear that you are accessing my research! The problem you’ve encountered, from my experience, can be possibly due to the issues of TransPHLA not running properly. UltraMutate relies on TransPHLA to generate the attention matrix and the binding scores predicted. TransPHLA will be called and run every round UltraMutate take actions. My suggestion is to checkout whether the dependencies of TransPHLA is installed correctly or you can checkout this page https://github.com/a96123155/TransPHLA-AOMP and test if TransPHLA can be run independently. Hope this is helpful!

Best regards, Yicheng Lin

2024年11月1日 16:24，Phạm Nguyễn Mỹ Diễm @.***> 写道：

Hi @YichengLin-lab https://github.com/YichengLin-lab,

While I am studying your research team's paper and trying to run code with the following command:

python main.py --peptide VMMGLLMFS --HLA HLA-A26:01 --num_simulations 10 I encountered an error: No such file or directory: '/mypath/./round_output/Test_mcts/0/attention/HLA-A26:01_VMMGLLMFS_attention.csv' Could you please explain why this error is occurring and help me resolve it? Thank you very much.

Best regards, Mỹ Diễm

Screenshot.2024-11-01.at.3.05.51.PM.png (view on web) https://github.com/user-attachments/assets/d3617bd2-506c-467d-8bda-c34550a705c0 — Reply to this email directly, view it on GitHub https://github.com/YichengLin-lab/ultramutate/issues/2, or unsubscribe https://github.com/notifications/unsubscribe-auth/AQWV6FYZLN5HB5TFVOHLBH3Z6M3ELAVCNFSM6AAAAABQ73RBFWVHI2DSMVQWIX3LMV43ASLTON2WKOZSGYZDQNJYHAYDAMI. You are receiving this because you were mentioned.

[ddiem-ri-4D]

Hi @YichengLin-lab

In file utils.py, I see the line of code "hla_now, pep_ori = get_random_training_data()", but I can't find the function get_random_training_data or understand what it does. Could you help explain this function to me?

Best regards, Mỹ Diễm

[ddiem-ri-4D]

Hi @YichengLin-lab , I successfully ran your tool. Thank you so much for all your support! Your guidance helped me resolve the errors quickly. I really appreciate your outstanding research.

Best regards,
 Mỹ Diễm