Trimming not possible

[polinanvkv]

I am using the AlphaFold2 advanced notebook.

When trying to trim the sequence I get this error:

---------------------------------------------------------------------------
KeyError                                  Traceback (most recent call last)
[<ipython-input-11-336d8cd9d929>](https://ox5jwwb24vk-496ff2e9c6d22116-0-colab.googleusercontent.com/outputframe.html?vrz=colab-20220504-060046-RC00_446421109#) in <module>()
     11 #@markdown - `qid` minimum sequence identity with query (%)
     12 
---> 13 mod_I = cf_af.prep_filter(I, trim, trim_inverse, cov, qid)
     14 
     15 if I["msas"] != mod_I["msas"]:

1 frames
[/content/colabfold_alphafold.py](https://ox5jwwb24vk-496ff2e9c6d22116-0-colab.googleusercontent.com/outputframe.html?vrz=colab-20220504-060046-RC00_446421109#) in trim_inputs(trim, msas, deletion_matrices, ori_seq, inverse)
    407     trim_idx_i = trim_idx_j = global_idx
    408     if i != "" and i[0] in ascii_uppercase:
--> 409       trim_idx_i,i = chain_idx[i[0]], i[1:]
    410     if j != "" and j[0] in ascii_uppercase:
    411       trim_idx_j,j = chain_idx[j[0]], j[1:]

KeyError: 'T'

Could you please suggest what's wrong and whether it's my fault or the code doesn't's deprecated?

And thank you!

[Meghpal]

Hey @polinanvkv, I believe the advanced notebook is not part of this repo.

You might want to raise this issue on ColabFold instead. Your issue does seem very similar to this issue already on ColabFold.

[abridgland]

Hi @polinanvkv, as @meghpal helpfully commented, the notebook you're referring to is not part of this repository so please raise the issue in the external repository if you still need help with this!