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Pangenome Node missing parameters

One of our external users encountered an issue where parameters from the Pangenome node were missing. The missing parameters are:

  • k_mer_size
  • num_k_mers
  • num_nodes
  • num_degenerate_nodes
  • num_edges
  • num_genomes
  • num_bases
  • k_mer_highest_frequency

This incident only happened for larger databases, and was not reproducible on our side. All these parameters are added in a single transaction.

My suspicion is this incident is either related to the IndexScanner or SequenceDatabase instances, but better error catching will provide more useful feedback in the future and make it apparent that the build_pangenome process was unsuccessful to prevent errors popping up in later functions as a result.