From 51225d1b7d8e80eb682cd375d57f1c03816fa13f Mon Sep 17 00:00:00 2001
From: Andrew Waterhouse <andrew.waterhouse@unibas.ch>
Date: Fri, 17 Jan 2020 11:44:33 +0100
Subject: [PATCH] Subprocess wait in deadlock averted
---
modules/bindings/pymod/clustalw.py | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/modules/bindings/pymod/clustalw.py b/modules/bindings/pymod/clustalw.py
index 074199283..aab374f07 100644
--- a/modules/bindings/pymod/clustalw.py
+++ b/modules/bindings/pymod/clustalw.py
@@ -129,8 +129,8 @@ def ClustalW(seq1, seq2=None, clustalw=None, keep_files=False, nopgap=False,
if clustalw_option_string!=False:
command=command+" "+clustalw_option_string #see useful flags: http://toolkit.tuebingen.mpg.de/clustalw/help_params
- with subprocess.Popen(command, shell=True, stdout=subprocess.PIPE) as ps:
- ps.wait()
+ subprocess.run(command, shell=True, stdout=subprocess.DEVNULL)
+
aln=io.LoadAlignment(out)
--
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