From bcb29efc0e2b9803f5393ba0fffe8608c05e88bd Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?M=C3=A9lanie=20=20HENNART?= <melanie.hennart@pasteur.fr>
Date: Wed, 30 May 2018 11:19:01 +0200
Subject: [PATCH] Update LINcoding.py

---
 LINcoding.py | 20 ++++++++++----------
 1 file changed, 10 insertions(+), 10 deletions(-)

diff --git a/LINcoding.py b/LINcoding.py
index 8fedfa9..0bd226c 100644
--- a/LINcoding.py
+++ b/LINcoding.py
@@ -432,19 +432,19 @@ parser = argparse.ArgumentParser()
 
 parser.add_argument("-i", dest="fichier_tsv",    type=str, required=True, help="file name : file of profiles isolates")
 
-parser.add_argument("-r", dest="fichier_lin",    type=str,                help="file name .lin")
-parser.add_argument("-s", dest="fichier_txt",    type=str,                help="file name to sort strains")
-parser.add_argument("-ns", dest="sort",          type=str,                help="Y for no sort strains")
-parser.add_argument("-a", dest="alea",           type=str,                help="Y for ordre aleatoire")
+parser.add_argument("-r",    dest="fichier_lin",    type=str,                help="file name .lin")
+parser.add_argument("-s",    dest="fichier_txt",    type=str,                help="file name to sort strains")
+parser.add_argument("-ns",   dest="sort",          type=str,                help="Y for no sort strains")
+parser.add_argument("-a",    dest="alea",           type=str,                help="Y for ordre aleatoire")
 
-parser.add_argument("-t", dest="id",             type=str,                help="numero(s) column(s) name isolats, ex : 0-2,6")
-parser.add_argument("-l", dest="loci",           type=str,                help="numero(s) column(s) name isolats, ex : 2-265,300")
+parser.add_argument("-t",    dest="id",             type=str,                help="numero(s) column(s) name isolats, ex : 0-2,6")
+parser.add_argument("-l",    dest="loci",           type=str,                help="numero(s) column(s) name isolats, ex : 2-265,300")
 
-parser.add_argument("-b", dest="bins",           type=str,                help="bins, ex : 5,20,80,95,100")
-parser.add_argument("-o", dest="fichier_sorti",  type=str, help="file out")
+parser.add_argument("-b",    dest="bins",           type=str,                help="bins, ex : 5,20,80,95,100")
+parser.add_argument("-o",    dest="fichier_sorti",  type=str,                help="file out")
 
-parser.add_argument("-tree", dest="t", type=str, required=True, help="create tree : Y ")
-parser.add_argument("-lg", dest="len_branche", type=str, help="Y => longueur des branches")
+parser.add_argument("-tree", dest="t",           type=str,                help="create tree : Y ")
+parser.add_argument("-lg"  , dest="len_branche", type=str,                help="Y => longueur des branches")
 
 args = parser.parse_args()
 
-- 
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