From f7c8fd21053d255f47a6cce3414b5ddec5dcc75f Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Herv=C3=A9=20=20MENAGER?= <herve.menager@pasteur.fr>
Date: Thu, 23 Mar 2017 21:35:55 +0100
Subject: [PATCH] retrieve gene name from Uniprot entry
---
ippisite/ippidb/ws.py | 4 +++-
1 file changed, 3 insertions(+), 1 deletion(-)
diff --git a/ippisite/ippidb/ws.py b/ippisite/ippidb/ws.py
index de60b857..8b9b3f3a 100644
--- a/ippisite/ippidb/ws.py
+++ b/ippisite/ippidb/ws.py
@@ -41,9 +41,11 @@ def get_uniprot_info(uniprot_id):
recommended_name = resp.root.findall('{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}protein/{http://uniprot.org/uniprot}recommendedName/{http://uniprot.org/uniprot}fullName')[0].text
organism = resp.root.findall('{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}organism/{http://uniprot.org/uniprot}dbReference[@type="NCBI Taxonomy"]')[0].attrib['id']
gene = resp.root.findall('{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}gene/{http://uniprot.org/uniprot}name[@type="primary"]')[0].text
+ entry_name = resp.root.findall('{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}name')[0].text
return {'recommended_name': recommended_name,
'organism': int(organism),
- 'gene': gene
+ 'gene': gene,
+ 'entry_name': entry_name
}
def get_taxonomy_info(taxonomy_id):
--
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