--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/extract_mmvc_consensus	Fri Mar 15 13:29:34 2019 -0400
@@ -0,0 +1,16 @@
+#!/usr/bin/env python3
+
+import json
+import sys
+
+# first argument is script name; second should be mmvcOutput path; third should be name for fasta header; the fourth argument should be the path to save the fasta at
+mmvcOutput = sys.argv[1]
+fastaHeaderName = sys.argv[2]
+fastaFilePath = sys.argv[3]
+
+with open(mmvcOutput) as f:
+    data = json.load(f)
+consensus = data["consensus"]
+consensusFasta = ">" + fastaHeaderName + "\n" + consensus
+f = open(fastaFilePath, "w")
+f.write(consensusFasta)