From a8a895770507757472dcc5c58e4082d15de1f1ed Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Bertrand=20N=C3=A9ron?= <bneron@pasteur.fr>
Date: Thu, 16 Feb 2012 13:19:23 +0000
Subject: [PATCH] bug fix T3SS_family typos somewhere it was spelled with 2 l
---
src/couchapp/secreton/templates/secretion_system.html | 2 +-
src/parser/parser.py | 6 +++---
2 files changed, 4 insertions(+), 4 deletions(-)
diff --git a/src/couchapp/secreton/templates/secretion_system.html b/src/couchapp/secreton/templates/secretion_system.html
index ee27a7a..0bbd0c5 100644
--- a/src/couchapp/secreton/templates/secretion_system.html
+++ b/src/couchapp/secreton/templates/secretion_system.html
@@ -231,7 +231,7 @@
<h1>Secretion system {{code}}</h1>
<ul>
<li>code: {{code}}</li>
- <li>T3SS family:{{T3SS_familly}}</li>
+ <li>T3SS family:{{T3SS_family}}</li>
</ul>
<h2>Replicon</h2>
<ul>
diff --git a/src/parser/parser.py b/src/parser/parser.py
index eadd4a1..b4530fd 100755
--- a/src/parser/parser.py
+++ b/src/parser/parser.py
@@ -41,7 +41,7 @@ def system_parser( system_data ):
@rtype: dict
"""
system_db = {}
- System_info = namedtuple('System_info', 'code, T3SS_familly, replicon, genes' )
+ System_info = namedtuple('System_info', 'code, T3SS_family, replicon, genes' )
Gene = namedtuple( 'Gene', 'code, id, protein_length, strand, begin, end, match, full_score, e_value, best_domain_score, best_domain_evalue, c_value, coverage_profile, match_begin, match_end')
with open( system_data , 'r' ) as system_file :
@@ -89,7 +89,7 @@ class SecretionSystem( Document ):
a representation of a secretion System to be use with couchdb
"""
code = StringProperty( required=True )
- T3SS_familly = StringProperty()
+ T3SS_family = StringProperty()
replicon = DictProperty()
genes = ListProperty()
@@ -131,7 +131,7 @@ def fill_db( server_uri, db_name, user, passwd, replicon_db , system_db , force_
secretion_system = SecretionSystem()
secretion_system._id = system.code
secretion_system.code = system.code
- secretion_system.T3SS_familly = system.T3SS_familly
+ secretion_system.T3SS_family = system.T3SS_family
secretion_system.replicon = { 'name' : replicon.name ,
'taxid' : replicon.taxid,
'strain' : replicon.strain,
--
GitLab