diff --git a/conf/base.config b/conf/base.config
index 0c50eb7..c439223 100644
--- a/conf/base.config
+++ b/conf/base.config
@@ -1,7 +1,7 @@
 process {
-    conda = "/ssu/gassu/conda_envs/tdbsumstat"
-    container = "ghcr.io/bruno-ariano/tdbsumstat:1.0"
-    //conda = "/software/cardinal_analysis/ht/conda_envs/tdbsumstat"
+    //conda = "/ssu/gassu/conda_envs/tdbsumstat"
+    //container = "ghcr.io/bruno-ariano/tdbsumstat:1.0"
+    conda = "/software/cardinal_analysis/ht/conda_envs/tdbsumstat"
     // conda = "${projectDir}/pipeline_environment.yml"
 	
     // memory errors which should be retried. otherwise error out
diff --git a/modules/ingestion/main.nf b/modules/ingestion/main.nf
index dd6fbbb..9381311 100644
--- a/modules/ingestion/main.nf
+++ b/modules/ingestion/main.nf
@@ -22,14 +22,14 @@ process INGEST_DATA {
   script:
     def qc = params.qc ? "--qc" : ""
     def pvar_file = params.pvar_file ? "--pvar-file ${params.pvar_file}" : ""
-    def pvar_file = params.permuted ? "--permuted" : ""
+    def permuted = params.permuted ? "--permuted" : ""
     """
     tdbsumstat ingest \
     --uri-path TileDB_${params.tiledb_name}\
     --file-path ${list_files} \
     --mapping-file ${mapping_file} \
     --type-sumstat ${params.type_sumstat} \
-    --mac ${params.mac} ${qc} ${pvar_file} ${params.permuted}
+    --mac ${params.mac} ${qc} ${pvar_file} ${permuted}
     # Rename the metadata parts directory to include the list_files name for uniqueness
     if [ -d "TileDB_${params.tiledb_name}_metadata_parts" ]; then
         mv "TileDB_${params.tiledb_name}_metadata_parts" "TileDB_${params.tiledb_name}_metadata_parts_${list_files.name}"
diff --git a/tdbsumstat/cli/ingestion.py b/tdbsumstat/cli/ingestion.py
index d6a75d3..14400e5 100755
--- a/tdbsumstat/cli/ingestion.py
+++ b/tdbsumstat/cli/ingestion.py
@@ -76,7 +76,7 @@ def ingest(uri_path:str,
         chunk_pl = pl.read_csv(file,separator=sep,low_memory=True ,null_values="NA")
         harmonized_object.harmonize(sumstat = chunk_pl, trait = trait, cell = cell, 
                                     gene = gene, pheno_var = pheno_var, n = n, n_cases = n_cases, 
-                                    n_controls = n_controls, mac = mac, permuted = permuted)
+                                    n_controls = n_controls, mac = mac)
         #Performing QC using GWASLAB
         if qc:
             harmonized_object.qc_sumstat(file_path = file)
diff --git a/tdbsumstat/utils/harmonize_ingest.py b/tdbsumstat/utils/harmonize_ingest.py
index 35468a9..ccb8943 100755
--- a/tdbsumstat/utils/harmonize_ingest.py
+++ b/tdbsumstat/utils/harmonize_ingest.py
@@ -22,7 +22,7 @@ class HarmonizationError(Exception):
 
 
 class Harmonize:
-    def __init__(self, mapping_file: str, uri: str, type_sumstat: str, pvar_file: str, type_trait: str, mac: int, permuted: False):
+    def __init__(self, mapping_file: str, uri: str, type_sumstat: str, pvar_file: str, type_trait: str, mac: int, permuted: bool):
         self.mapping_file = mapping_file
         self.uri = uri
         self.pvar_file = pvar_file
@@ -33,6 +33,7 @@ def __init__(self, mapping_file: str, uri: str, type_sumstat: str, pvar_file: st
         self.dimension_tiledb = []
         self.mac = mac
         self.permuted = permuted
+        print(self.permuted)
     
     def create_mapping(self):
         df = pd.read_csv(self.mapping_file, header=None, names=["key", "value"])
@@ -271,24 +272,25 @@ def harmonize(self,
                     (10 ** (-pl.col("LOG10P"))).alias("P")
                 )
         
-        #Calculate p-value from z-score
-        self.chunk_pl = self.chunk_pl.drop('P')
-        if self.permuted==False:
-            self.chunk_pl = self.chunk_pl.with_columns(
-                (pl.col("BETA") / pl.col("SE")).pow(2).map_batches(
-                lambda x: pl.Series(stats.chi2.sf(x.to_numpy(), df=1)),
-                return_dtype=pl.Float64
-                ).alias('P')
-                )
-        else:
+        
+        if self.permuted:
             self.chunk_pl = self.chunk_pl.with_columns(
             (
                 pl.col("BETA").pow(2) / 
                 pl.col("P").map_batches(
                 lambda x: pl.Series(stats.chi2.isf(x.to_numpy(), df=1))
                 )
-            ).sqrt().alias("SE")
-)
+            ).sqrt().alias("SE"))
+            
+        else:
+            #Calculate p-value from z-score
+            self.chunk_pl = self.chunk_pl.drop('P')
+            self.chunk_pl = self.chunk_pl.with_columns(
+                (pl.col("BETA") / pl.col("SE")).pow(2).map_batches(
+                lambda x: pl.Series(stats.chi2.sf(x.to_numpy(), df=1)),
+                return_dtype=pl.Float64
+                ).alias('P')
+                )            
     
     def qc_sumstat(self, file_path:str):
         directory = self.uri + "_logs"