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Ad hoc loading of codelists as old style codelists #2714

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Ad hoc loading of codelists as old style codelists #2714

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12 changes: 12 additions & 0 deletions codelists/scripts/ad_hoc_old_style_snomed.json
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Original file line number Diff line number Diff line change
@@ -0,0 +1,12 @@
{
"comment": "Ad-hoc load of codelist as old-style",
"force_old_style": true,
"organisation": "user/pchavez",
"coding_systems": {
"snomedct": {
"id": "snomedct",
"release": "snomedct_4000_20250416"
}
},
"delimiter":"\t"
}
9 changes: 7 additions & 2 deletions codelists/scripts/bulk_import_codelists.py
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Expand Up @@ -216,7 +216,10 @@ def update_name(name):

# Remove extraneous whitespace from all columns of interest
for column in relevant_df_columns:
codelist_df[column] = codelist_df[column].str.strip()
try:
codelist_df[column] = codelist_df[column].str.strip()
except AttributeError:
pass

return codelist_df

Expand All @@ -237,7 +240,9 @@ def get_post_data(config, codelist_df, create_new_codelist, force_new_version):
description = config["description_template"] % description

post_data = {"coding_system_database_alias": release_db_alias, "tag": tag}
if coding_system_id in CODING_SYSTEMS_WITH_OLD_STYLE_CODELISTS:
if coding_system_id in CODING_SYSTEMS_WITH_OLD_STYLE_CODELISTS or config.get(
"force_old_style"
):
# create an old-style codelist/version with csv_data
post_data["csv_data"] = codelist_df[["code", "term"]].to_csv()
else:
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