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Converter example - add prefixmaps (and curies), remove ontobio. #317

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Converter example - add prefixmaps (and curies), remove ontobio. #317

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99c2974
converter example using prefixmaps (which uses curies package), remov…
sierra-moxon May 21, 2024
1855275
removing ontobio
sierra-moxon May 21, 2024
b178d65
remove unncessary change to yaml name
sierra-moxon May 21, 2024
82fc982
remove unncessary change to yaml name
sierra-moxon May 21, 2024
0a761a6
remove unintended change to shcema
sierra-moxon May 21, 2024
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10 changes: 6 additions & 4 deletions python/json_export.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2,8 +2,7 @@
import json
from pathlib import Path
import os
from ontobio.rdfgen.assoc_rdfgen import prefix_context
#from prefixcommons.curie_util import contract_uri
from prefixmaps import load_converter

from curies import Converter, Record
from pyshexc.parser_impl import generate_shexj
Expand All @@ -18,12 +17,15 @@


OUT_JSON = os.path.join('../shapes/json/shex_dump.json')
converter = Converter.from_prefix_map(prefix_context)

converter = load_converter("merged")
# if you need to add a prefix specific to this codebase, not in merged.csv above, then you
# can do things like this:
# converter.add_prefix("Orphanet", "https://www.orpha.net/en/disease/detail/", merge=True)


def get_suffix(uri):
suffix = converter.compress(uri)

return suffix if suffix else uri


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