fix: upgrade code to new pandas version

kircherlab · Oct 25, 2023 · aaea236 · aaea236
1 parent b8c5666
commit aaea236
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/config/sbatch.yml b/config/sbatch.yml
@@ -96,7 +96,7 @@ assigned_counts_createAssignmentPickleFile:
 assigned_counts_filterAssignment:
   time: "0-01:00"
   queue: "medium"
-  mem: 10G
+  mem: 15G
 
 #################
 ### Statistic ###

diff --git a/workflow/scripts/count/nucleotideCountPerPosition.py b/workflow/scripts/count/nucleotideCountPerPosition.py
@@ -58,7 +58,7 @@ def cli(input_file, column, use_header, output_file, chunksize):
 
             nucleotides = df["DNA"].apply(lambda x: pd.Series(list(x)))
 
-            for i, columns in nucleotides.iteritems():
+            for i, columns in nucleotides.items():
                 counts_column = "Position_%d_counts" % (i+1)
                 ratio_column = "Position_%d_ratio" % (i+1)
                 if counts_column not in output.columns: