✨ Adding DRC annotation (#3159)

* adding DRC annotation * add annotation * update * set index * add annotation * attempting garden * update origins
owid · Aug 20, 2024 · 8a4c953 · 8a4c953
1 parent d8690b6
commit 8a4c953
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Showing 3 changed files with 23 additions and 2 deletions.
diff --git a/etl/steps/data/garden/who/latest/monkeypox/__init__.py b/etl/steps/data/garden/who/latest/monkeypox/__init__.py
@@ -32,7 +32,7 @@ def run(dest_dir: str) -> None:
     # Read table from meadow dataset.
     tb = ds_meadow["monkeypox"].reset_index()
     tb_suspected = ds_suspected["africa_cdc"].reset_index()
-
+    origins = tb["total_conf_cases"].metadata.origins
     #
     # Process data.
     #
@@ -54,6 +54,18 @@ def run(dest_dir: str) -> None:
     )
 
     tb_both = pr.merge(tb, tb_suspected, on=["country", "date"], how="outer")
+
+    # For variables on deaths we should show that data reported by the WHO show _only_ confirmed cases, in an annotation
+    country_mask = tb_both["country"] == "Democratic Republic of Congo"
+    tb_both["annotation"] = ""
+    for col in tb_both.columns:
+        if "deaths" in col:
+            # Update the annotation column for matching rows
+            tb_both.loc[country_mask, "annotation"] = (
+                tb_both.loc[country_mask, "annotation"]
+                + "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
+            )
+    tb_both["annotation"].metadata.origins = origins
     tb_both = tb_both.format(["country", "date"])
 
     #

diff --git a/etl/steps/data/garden/who/latest/monkeypox/monkeypox.meta.yml b/etl/steps/data/garden/who/latest/monkeypox/monkeypox.meta.yml
@@ -5,6 +5,7 @@ definitions:
       topic_tags:
         - Mpox (monkeypox)
 
+
 dataset:
   update_period_days: 365
 
@@ -21,6 +22,7 @@ tables:
         unit: deaths
         display:
           numDecimalPlaces: 0
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       new_cases:
         title: New confirmed cases
         unit: cases
@@ -31,6 +33,7 @@ tables:
         unit: deaths
         display:
           numDecimalPlaces: 0
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       new_cases_smoothed:
         title: New confirmed cases (7-day smoothed)
         unit: cases
@@ -41,6 +44,7 @@ tables:
         unit: deaths
         display:
           numDecimalPlaces: 2
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       new_cases_per_million:
         title: New confirmed cases per million
         unit: cases per million
@@ -61,16 +65,22 @@ tables:
         unit: deaths per million
         display:
           numDecimalPlaces: 3
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       total_deaths_per_million:
         title: Total confirmed deaths per million
         unit: deaths per million
         display:
           numDecimalPlaces: 3
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       new_deaths_smoothed_per_million:
         title: New confirmed deaths per million (7-day smoothed)
         unit: deaths per million
         display:
           numDecimalPlaces: 3
+          entityAnnotationsMap: "Democratic Republic of Congo: Includes only confirmed deaths as reported by WHO"
       iso_code:
         title: ISO code
         unit: ''
+      annotation:
+        title: Annotation
+        unit: ''
diff --git a/etl/steps/data/grapher/who/latest/monkeypox.py b/etl/steps/data/grapher/who/latest/monkeypox.py
@@ -16,7 +16,6 @@ def run(dest_dir: str) -> None:
     # Read table from garden dataset.
     tb = ds_garden["monkeypox"]
 
-    #
     # Save outputs.
     #
     # Create a new grapher dataset with the same metadata as the garden dataset.