Merge branch 'dev' into ds_3556_stars

opentargets · Oct 1, 2024 · e7c9aef · e7c9aef
2 parents 10db67c + a5588ae
commit e7c9aef
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Showing 2 changed files with 1 addition and 4 deletions.
diff --git a/src/gentropy/config.py b/src/gentropy/config.py
@@ -439,7 +439,6 @@ class GWASQCStep(StepConfig):
 
     gwas_path: str = MISSING
     output_path: str = MISSING
-    studyid: str = MISSING
     pval_threshold: float = MISSING
     _target_: str = "gentropy.sumstat_qc_step.SummaryStatisticsQCStep"
 

diff --git a/src/gentropy/sumstat_qc_step.py b/src/gentropy/sumstat_qc_step.py
@@ -15,7 +15,6 @@ def __init__(
         session: Session,
         gwas_path: str,
         output_path: str,
-        studyid: str,
         pval_threshold: float = 1e-8,
     ) -> None:
         """Calculating quality control metrics on the provided GWAS study.
@@ -24,7 +23,6 @@ def __init__(
             session (Session): Spark session
             gwas_path (str): Path to the GWAS summary statistics.
             output_path (str): Output path for the QC results.
-            studyid (str): Study ID for the QC.
             pval_threshold (float): P-value threshold for the QC. Default is 1e-8.
 
         """
@@ -35,5 +33,5 @@ def __init__(
                 gwas=gwas, limit=100_000_000, pval_threshold=pval_threshold
             )
             .write.mode(session.write_mode)
-            .parquet(output_path + "/qc_results_" + studyid)
+            .parquet(output_path)
         )