fix problems with pubmed servers disconnecting

bibliovid_add_abstract.py

@@ -5,6 +5,8 @@ import sys, json, re, collections
 
 from pymed import PubMed
 from datetime import datetime, date
+import requests
+import time
 
 pubmed = PubMed(tool="https://covid19.lis-lab.fr", email="benoit.favre@univ-amu.fr")
 
@@ -32,6 +34,8 @@ for article in articles['results']:
 
   found = False
   for query in ['(%s[Title] AND (%s[Author])' % (preprocess(title), preprocess(authors)), '%s[Title]' % preprocess(title), preprocess(title)]:
+    for retries in range(10):
+      try:
         results = pubmed.query(query, max_results=30)
         for result in results:
           entry = result.toDict()
@@ -42,6 +46,10 @@ for article in articles['results']:
                 article[field] = entry[field]
                 stats[field] += 1
             break
+        break
+      except requests.exceptions.HTTPError as e:
+        print(e, file=sys.stderr)
+        time.sleep(5)
     if found:
       break
   if not found: