Update app.py

app.py

@@ -23,36 +23,40 @@ def extract_sequences(genome_data):
     return start_sequence, end_sequence
 
 def main():
-    # Read accession numbers from a text file
-    input_file = "accession_numbers.txt"  # Input file containing accession numbers
+    # Prompt user for the input file name
+    input_file = input("Enter the name of the input text file (with extension): ")
     output_start_file = "starting_sequences.txt"  # Output file for starting 55 base pairs
     output_end_file = "ending_sequences.txt"  # Output file for ending 114 base pairs
 
-    with open(input_file, 'r') as file:
-        accession_numbers = file.read().splitlines()  # Read lines into a list
+    try:
+        with open(input_file, 'r') as file:
+            accession_numbers = file.read().splitlines()  # Read lines into a list
 
-    # Prepare lists to store sequences
-    starting_sequences = []
-    ending_sequences = []
+        # Prepare lists to store sequences
+        starting_sequences = []
+        ending_sequences = []
 
-    for accession_number in accession_numbers:
-        genome_data = get_genome_from_ncbi(accession_number)
-        if genome_data:
-            start_sequence, end_sequence = extract_sequences(genome_data)
-            starting_sequences.append(f"{accession_number}: {start_sequence}")
-            ending_sequences.append(f"{accession_number}: {end_sequence}")
+        for accession_number in accession_numbers:
+            genome_data = get_genome_from_ncbi(accession_number)
+            if genome_data:
+                start_sequence, end_sequence = extract_sequences(genome_data)
+                starting_sequences.append(f"{accession_number}: {start_sequence}")
+                ending_sequences.append(f"{accession_number}: {end_sequence}")
 
-    # Write starting sequences to file
-    with open(output_start_file, 'w') as file:
-        for seq in starting_sequences:
-            file.write(seq + '\n')
+        # Write starting sequences to file
+        with open(output_start_file, 'w') as file:
+            for seq in starting_sequences:
+                file.write(seq + '\n')
 
-    # Write ending sequences to file
-    with open(output_end_file, 'w') as file:
-        for seq in ending_sequences:
-            file.write(seq + '\n')
+        # Write ending sequences to file
+        with open(output_end_file, 'w') as file:
+            for seq in ending_sequences:
+                file.write(seq + '\n')
 
-    print(f"Sequences extracted and saved to {output_start_file} and {output_end_file}.")
+        print(f"Sequences extracted and saved to {output_start_file} and {output_end_file}.")
+
+    except FileNotFoundError:
+        print("Error: The specified file was not found. Please check the file name and try again.")
 
 if __name__ == "__main__":
     main()