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Fix specifier authorities and other bugs in Regnum to Phyx generation #80

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@gaurav gaurav commented Aug 26, 2020

This PR fixes a few bugs in Regnum to Phyx generation:

  • Fixed a bug that caused specifier taxon name to miss authority names (e.g. "Mus musculus 1758" instead of "Mus musculus Linnaeus, 1758"). I wrote a script to fix malformed specifiers in existing Phyx files.
  • Added a script to generate OWL files from Phyx files hadn't been previously checked in. I've checked it in here under a scripts/ directory that is specifically excluded from encryption.
  • Changed the default number of digits in Regnum ID filenames from 6 to 7, which is the number of digits used by CDAO and UBERON ontologies. This is also configurable by command line argument now.

@gaurav gaurav force-pushed the fix-specifier-authorities branch from 99b5364 to 8e18aff Compare July 2, 2021 04:56
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