From 2ded076807c4c1232d23bf43caebc82424dbc56d Mon Sep 17 00:00:00 2001
From: =?UTF-8?q?Herv=C3=A9=20=20MENAGER?= <herve.menager@pasteur.fr>
Date: Thu, 16 Mar 2017 22:31:31 +0100
Subject: [PATCH] add first draft to retrieve uniprot info
---
ippisite/ippidb/ws.py | 11 +++++++++++
1 file changed, 11 insertions(+)
diff --git a/ippisite/ippidb/ws.py b/ippisite/ippidb/ws.py
index 2cf9ecb8..422a5219 100644
--- a/ippisite/ippidb/ws.py
+++ b/ippisite/ippidb/ws.py
@@ -1,4 +1,6 @@
from bioservices.eutils import EUtils
+from bioservices.uniprot import UniProt
+from xml.etree.ElementTree import register_namespace
import requests
def get_pubmed_info(pmid):
@@ -32,3 +34,12 @@ def get_epo_info(patent_number):
'journal_name': None,
'biblio_year': biblio_year,
'authors_list': authors}
+
+def get_uniprot_info(uniprot_id):
+ uniprot_client = Uniprot()
+ resp = uniprot_client.retrieve(uniprot_id)
+ recommended_name = res.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 = res.root.findall('{http://uniprot.org/uniprot}entry/{http://uniprot.org/uniprot}organism/{http://uniprot.org/uniprot}dbReference[@type="NCBI Taxonomy"]/@id')
+ return {'recommended_name': recommended_name,
+ 'organism': organism
+ }
--
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