feat: add mmseqs server usage

[r-krishna]

📋 PR Checklist

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ℹ️ PR Description

What changes were made and why?

How were the changes tested?

Additional Notes

[nscorley]

Can we condense this file to the 2-3 most essential end-to-end tests?

[r-krishna]

I deleted them.

[nscorley]

Minor comments