From 2dd5829fbb4759cc5dceb51d4c590793042907d1 Mon Sep 17 00:00:00 2001
From: Sam <137890552+SamGallop-NBI@users.noreply.github.com>
Date: Tue, 12 Sep 2023 13:21:34 +0100
Subject: [PATCH] Update select_db.py

Add threads argument to the call of StreamingQueryDNADatabase.py.
---
 scripts/select_db.py | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/scripts/select_db.py b/scripts/select_db.py
index 53aa990..aba950d 100644
--- a/scripts/select_db.py
+++ b/scripts/select_db.py
@@ -72,7 +72,8 @@ def run_cmash_and_cutoff(args, taxid2info):
 		cmash_out = args.temp_dir + 'cmash_query_results.csv'
 		cmash_proc = subprocess.Popen(['StreamingQueryDNADatabase.py',
 			args.temp_dir + '60mers_intersection_dump.fa', cmash_db_loc,
-			cmash_out, '30-60-10', '-c', '0', '-r', '1000000', '-v',
+			cmash_out, '30-60-10', '-c', '0', '-r', '1000000', 
+			'-t', str(args.threads), '-v',
 			'-f', cmash_filter_loc, '--sensitive']).wait()
 	else:
 		cmash_out = args.cmash_results