Use centralized apply-geolocation-rules

Remove the copies in this repo and update references. The centralized script is functionally identical.
nextstrain · Aug 8, 2023 · 03e1820 · 03e1820
1 parent 95309bd
commit 03e1820
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diff --git a/ingest/ingest.smk b/ingest/ingest.smk
@@ -91,7 +91,7 @@ rule transform_metadata:
         """
         ingest/scripts/tsv-to-ndjson.py < {input.metadata} |
             ingest/scripts/fix_country_field.py |
-            ingest/scripts/apply-geolocation-rules.py --geolocation-rules ingest/config/geoLocationRules.tsv |
+            ingest/vendored/apply-geolocation-rules --geolocation-rules ingest/config/geoLocationRules.tsv |
             ingest/scripts/add-year.py |
             ingest/scripts/ndjson-to-tsv.py --metadata-columns {params.metadata_columns} --metadata {output.metadata}
         """

diff --git a/ingest/scripts/apply-geolocation-rules.py b/ingest/scripts/apply-geolocation-rules.py