WIP #10

tests/fixtures/taxa_names_com.csv

@@ -0,0 +1,4 @@
+taxon,taxon_name,lang
+1,Taxon Un, fr
+1,Taxon One, en
+2,Taxon Deux, fr

tests/test_datamodel.py

@@ -10,6 +10,8 @@ class TestDataModel:
     def test_make_coverage_happy(self, tmp_path):
         setup_from_fixture(tmp_path)
 
+     # Eventually TODO add taxa_names_com
+
     def test_get_taxon_name_from_tid(self, data_model):
         assert data_model.get_taxon_name_from_tid(1) == "Taxon 1"
         assert data_model.get_taxon_name_from_tid(666) is None

update/config.py

@@ -12,21 +12,21 @@
 
 TASKS = [
     Task(
-        name="references",
+        name="ranks_names",
         f=download_query_as_csv.run,
         group=DownloadGroup,
         params={
-            "query_file": "update/queries/references.rq",
-            "output_file": "references.csv",
+            "query_file": "update/queries/ranks_names.rq",
+            "output_file": "ranks_names.csv",
         },
     ),
     Task(
-        name="ranks_names",
+        name="references",
         f=download_query_as_csv.run,
         group=DownloadGroup,
         params={
-            "query_file": "update/queries/ranks_names.rq",
-            "output_file": "ranks_names.csv",
+            "query_file": "update/queries/references.rq",
+            "output_file": "references.csv",
         },
     ),
     Task(
@@ -47,6 +47,15 @@
             "output_file": "taxa_names.csv",
         },
     ),
+    Task(
+        name="taxa_names_com",
+        f=download_query_as_csv.run,
+        group=DownloadGroup,
+        params={
+            "query_file": "update/queries/taxa_names_com.rq",
+            "output_file": "taxa_names_com.csv",
+        },
+    ),
     Task(
         name="taxa_parents",
         f=download_query_as_csv.run,

update/generate_database_index.py

@@ -66,6 +66,9 @@ def run(path: Path) -> None:
         taxo_names_dict = {int(row[taxon_index]): row[name_index] for row in reader}
 
     logging.info(" Processed taxa names")
+
+    # Eventually TODO add taxa_names_com
+
     taxon_ranks_dict = {}
 
     with open(path / "ranks_names.csv", "r") as f:

update/queries/taxa_names_com.rq

@@ -0,0 +1,5 @@
+PREFIX wdt: <http://www.wikidata.org/prop/direct/>
+
+SELECT ?taxon ?taxon_name_com (LANG(?taxon_name_com) AS ?lang) WHERE { 
+    ?taxon wdt:P1843 ?taxon_name_com. 
+}