From 14fef9d6aa42758d9bc53cc378e8b1ab5a0ed14f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Ren=C3=A9=20Wiegandt?= <rene.wiegandt@mpi-bn.mpg.de>
Date: Mon, 5 Nov 2018 09:57:51 -0500
Subject: [PATCH] get best motif from meme

---
 bin/get_best_motif.py | 23 +++++++++++++++++++++++
 1 file changed, 23 insertions(+)
 create mode 100644 bin/get_best_motif.py

diff --git a/bin/get_best_motif.py b/bin/get_best_motif.py
new file mode 100644
index 0000000..770c8a8
--- /dev/null
+++ b/bin/get_best_motif.py
@@ -0,0 +1,23 @@
+# parses arguments using argparse
+# @return args list of all parameters
+def parse_arguments():
+    parser = argparse.ArgumentParser()
+    parser.add_argument("meme", help="Path to meme file")
+    parser.add_argument("output", help="")
+    args = parser.parse_args()
+    return args
+
+
+def main():
+    args = parse_arguments()
+    out = open(args.output, "w+")
+    with open(args.meme) as f:
+        for line in f:
+            if 'MOTIF  2' in line:
+                break
+            out.write(line)
+
+
+if __name__ == "__main__":
+    import argparse
+    main()
\ No newline at end of file