diff --git a/src/gentropy/gwas_catalog_ingestion.py b/src/gentropy/gwas_catalog_ingestion.py index 5a5461523..3f6877b6a 100644 --- a/src/gentropy/gwas_catalog_ingestion.py +++ b/src/gentropy/gwas_catalog_ingestion.py @@ -58,9 +58,6 @@ def __init__( ancestry_lut = session.spark.read.csv( list(catalog_ancestry_files), sep="\t", header=True ) - sumstats_lut = session.spark.read.csv( - catalog_sumstats_lut, sep="\t", header=False - ) catalog_associations = session.spark.read.csv( catalog_associations_file, sep="\t", header=True ).persist() @@ -71,7 +68,7 @@ def __init__( # Transform study_index, study_locus = GWASCatalogStudySplitter.split( StudyIndexGWASCatalogParser.from_source( - catalog_studies, ancestry_lut, sumstats_lut + catalog_studies, ancestry_lut ).annotate_from_study_curation(gwas_catalog_study_curation), GWASCatalogCuratedAssociationsParser.from_source( catalog_associations, gnomad_variants