= Attendees =

Piet, Tom Goddard, Scooter, Greg, Eric, Elaine, Tom Ferrin

August 8, 2024

= Agenda =

* Showing Martin Steinegger ISMB keynote talk

= Discussion Notes =

* SSD drives on plato
  - Each of 4 plato nodes now has a 4 TB SSD drive mounted at /scratch.
  - Scooter is using this to build BLAST databases with makeblastdb which fails to run on beegfs file system.

* Martin Steinegger talk
  - Martin created BFD (big fantastic database) metagenomics database that DeepMind then used for AlphaFold 2.
  - Trained network to run Foldseek directly on a sequence with the network directly translating sequence to 3Di spatial alphabet.  This takes seconds instead of minutes to make a ColabFold prediction.
  - Martin has clustered AlphaFold database of 214 million structures down to 2-3 million clusters using foldseek-clust.
  - About 35% of clusters have no annotations.
  - Looked at how many clusters are specialized to bacteria or eukaryotes or archaea, cluster.foldseek.com.
  - Martin made pitch strongly advocating open source software.  Said they made foldseek open source in 2021 3 years before publication.

= Action Items =