Enable compressed sequence index output

nextstrain · Mar 10, 2021 · 57ad120 · 57ad120
1 parent fc46b4f
commit 57ad120
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/augur/index.py b/augur/index.py
@@ -8,7 +8,7 @@
 import sys
 import csv
 
-from .io import read_sequences
+from .io import open_file, read_sequences
 
 
 def register_arguments(parser):
@@ -140,7 +140,7 @@ def index_sequences(sequences_path, sequence_index_path):
     tot_length = 0
     num_of_seqs = 0
 
-    with open(sequence_index_path, 'wt') as out_file:
+    with open_file(sequence_index_path, 'wt') as out_file:
         tsv_writer = csv.writer(out_file, delimiter = '\t')
 
         #write header i output file