fix: clean unused study_locus step parameter (#786)

opentargets · Sep 25, 2024 · b525117 · b525117
1 parent 6c4bdf5
commit b525117
Show file tree

Hide file tree

Showing 2 changed files with 0 additions and 3 deletions.
diff --git a/src/gentropy/config.py b/src/gentropy/config.py
@@ -503,7 +503,6 @@ class StudyLocusValidationStepConfig(StepConfig):
     valid_study_locus_path: str = MISSING
     invalid_study_locus_path: str = MISSING
     invalid_qc_reasons: list[str] = MISSING
-    gwas_significance: float = WindowBasedClumpingStepConfig.gwas_significance
     _target_: str = "gentropy.study_locus_validation.StudyLocusValidationStep"
 
 

diff --git a/src/gentropy/study_locus_validation.py b/src/gentropy/study_locus_validation.py
@@ -19,7 +19,6 @@ def __init__(
         session: Session,
         study_index_path: str,
         study_locus_path: list[str],
-        gwas_significance: float,
         valid_study_locus_path: str,
         invalid_study_locus_path: str,
         invalid_qc_reasons: list[str] = [],
@@ -30,7 +29,6 @@ def __init__(
             session (Session): Session object.
             study_index_path (str): Path to study index file.
             study_locus_path (list[str]): Path to study locus dataset.
-            gwas_significance (float): GWAS significance threshold.
             valid_study_locus_path (str): Path to write the valid records.
             invalid_study_locus_path (str): Path to write the output file.
             invalid_qc_reasons (list[str]): List of invalid quality check reason names from `StudyLocusQualityCheck` (e.g. ['SUBSIGNIFICANT_FLAG']).