# -*- coding: utf-8 -*-
"""Align Prefix Commons with the Bioregistry."""
from typing import Sequence
from bioregistry.align.utils import Aligner
from bioregistry.external.prefixcommons import get_prefixcommons
__all__ = [
"PrefixCommonsAligner",
]
[docs]class PrefixCommonsAligner(Aligner):
"""Aligner for Prefix Commons."""
key = "prefixcommons"
getter = get_prefixcommons
curation_header = (
"name",
"miriam",
"bioportal",
"description",
"example",
"pattern",
"uri_format",
)
# TODO consider updating
include_new = False
[docs] def get_curation_row(self, external_id, external_entry) -> Sequence[str]:
"""Prepare curation rows for unaligned Prefix Commons registry entries."""
return [
external_entry["name"],
external_entry.get("miriam", ""),
external_entry.get("bioportal", ""),
external_entry.get("description", ""),
external_entry.get("example", ""),
external_entry.get("pattern", ""),
external_entry.get("uri_format", ""),
]
if __name__ == "__main__":
PrefixCommonsAligner.align()