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Improvement and debugging of pangenome_structure speed

Workum, Dirk-Jan van requested to merge improve_speed_pangenome_structure into develop

We noticed (thanks Lakhan!) that pangenome_structure slowed down a lot since 4.2. A simple profiling uncovered that the source of this was a list that could be convert to a set. This merge request does this.

Edit: marked as draft because there are more issues with the current code:

  • not showing the random iterations
  • to much debug logging

Edit: marked as ready (also made randomization consistent when multi-threading)

Edited by Workum, Dirk-Jan van

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