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[Stats results mapper] - Include viability category field on final stats_results_parquet #538

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[Stats results mapper] - Include viability category field on final stats_results_parquet #538

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f9825f7
feat: include category field in viability_stats dataframe
francisco-ebi Jan 27, 2026
8231ce5
feat: include category field on stats_results_column_list when genera…
francisco-ebi Jan 27, 2026
405a219
Merge branch 'dev' into feature/viability-category-field
francisco-ebi Feb 2, 2026
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8 changes: 5 additions & 3 deletions impc_etl/jobs/load/solr/stats_results_mapper.py
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Original file line number Diff line number Diff line change
Expand Up @@ -173,7 +173,8 @@ def process_manual_phenotype_calls():
for col_name in reference_columns:
if col_name not in viability_stats.columns:
viability_stats = viability_stats.withColumn(col_name, f.lit(None))
viability_stats = viability_stats.select(reference_columns)
viability_columns = reference_columns + ["category"]
viability_stats = viability_stats.select(viability_columns)

# Process gross pathology stats
gross_pathology_stats = gross_pathology_stats_results(
Expand Down Expand Up @@ -1205,11 +1206,12 @@ def generate_final_stats_results():
col_name
for col_name in WINDOW_COLUMNS
if col_name != "observations_window_weight"
]
] + ["category"]
stats_results_df = open_stats_df.select(*stats_results_column_list)
stats_results_df = stats_results_df.repartition(10000)
else:
stats_results_df = open_stats_df.select(*STATS_RESULTS_COLUMNS)
stats_results_column_list = STATS_RESULTS_COLUMNS + ["category"]
stats_results_df = open_stats_df.select(*stats_results_column_list)


# Write main results
Expand Down