From 08c162fc22acda2553795d5e38e0cb086e6a0a71 Mon Sep 17 00:00:00 2001
From: Martijn Vermaat <martijn@vermaat.name>
Date: Thu, 26 Jan 2012 10:46:48 +0000
Subject: [PATCH] Also check for httplib.HTTPException in Entrez API call
git-svn-id: https://humgenprojects.lumc.nl/svn/mutalyzer/trunk@461 eb6bd6ab-9ccd-42b9-aceb-e2899b4a52f1
---
mutalyzer/Retriever.py | 5 +++--
1 file changed, 3 insertions(+), 2 deletions(-)
diff --git a/mutalyzer/Retriever.py b/mutalyzer/Retriever.py
index 7a6f1a1a..b1c82b25 100644
--- a/mutalyzer/Retriever.py
+++ b/mutalyzer/Retriever.py
@@ -23,6 +23,7 @@ from Bio.Seq import UnknownSeq
from Bio.Alphabet import ProteinAlphabet
from xml.dom import DOMException, minidom
from xml.parsers import expat
+from httplib import HTTPException
from mutalyzer import util
from mutalyzer import config
@@ -261,13 +262,13 @@ class Retriever(object) :
response = Entrez.efetch(db='SNP', id=id, rettype='flt',
retmode='xml')
break
- except IOError:
+ except (IOError, HTTPException):
time.sleep(ENTREZ_SLEEP)
else:
try:
response = Entrez.efetch(db='SNP', id=id, rettype='flt',
retmode='xml')
- except IOError as e:
+ except (IOError, HTTPException) as e:
# Could not parse XML.
self._output.addMessage(__file__, 4, 'EENTREZ',
'Error connecting to dbSNP.')
--
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