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Expands which genbank files can be properly parsed, including most NTMs.

  • Allows for genes to cross the genome boundary
  • Allows for genes to have gaps between coding regions
  • Ensures nested complement and join definitions in genbank files are correctly parsed
  • Marks gene names with INCOMPLETE_<original gene name> in cases where coding genes are defined without the correct number of nucleotides for codons.

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Looks good. Code is quite complex not gonna lie, but tests continue to pass on the previous examples and I've tried running it locally on the provided tricky reference

@JeremyWesthead JeremyWesthead merged commit be773ee into main Nov 24, 2025
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@JeremyWesthead JeremyWesthead deleted the fix/properly-parse-genbank-location branch November 24, 2025 12:21
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3 participants