Debugging

pachterlab · May 20, 2024 · 282b120 · 282b120
1 parent 4d16538
commit 282b120
Showing 1 changed file with 4 additions and 3 deletions.
diff --git a/gget/gget_mutate.py b/gget/gget_mutate.py
@@ -2,8 +2,9 @@
 import pandas as pd
 import re
 import logging
+from tqdm import tqdm
 
-from .utils import read_fasta
+tqdm.pandas()
 
 # Add and format time stamp in logging messages
 logging.basicConfig(
@@ -14,6 +15,8 @@
 # Mute numexpr threads info
 logging.getLogger("numexpr").setLevel(logging.WARNING)
 
+from .utils import read_fasta
+
 # Define global variables to count occurences of weird mutations
 intronic_mutations = 0
 posttranslational_region_mutations = 0
@@ -321,8 +324,6 @@ def mutate(
     if isinstance(mutation_df, str):
         mutation_df = pd.read_csv(mutation_df)
 
-    print(mutation_df)
-
     logging.info("Extracting mutation types...")
     # Get all mutation types
     mutation_df["mutation_type"] = mutation_df[mut_column].progress_apply(