Hi Arup! I added a new file example/mmseqs2_a3m_ftsZexample/ftsZ.a3m to the repo for debugging purposes. By default, the program checks if the a3m file already exists and only runs mmseqs2 if it does not. I put this in a new folder to avoid disrupting that.
From your earlier post, I can see that you're calling Fragfold/mmseqs.py directly, instead of running the main script or submit_mmseqs2.sh. Make sure that you're using an environment with the latest version of colabfold installed. colabfold.batch.get_msa_and_templates should be able to take arguments like a3m_lines.
Hi Arup! I added a new file
example/mmseqs2_a3m_ftsZexample/ftsZ.a3mto the repo for debugging purposes. By default, the program checks if the a3m file already exists and only runs mmseqs2 if it does not. I put this in a new folder to avoid disrupting that.From your earlier post, I can see that you're calling Fragfold/mmseqs.py directly, instead of running the main script or
submit_mmseqs2.sh. Make sure that you're using an environment with the latest version of colabfold installed.colabfold.batch.get_msa_and_templatesshould be able to take arguments like a3m_lines.