I use cmdbtools to annotate vcf file, but cmdbtools has a error.
Traceback (most recent call last):
File "/data/jg418001/miniconda3/bin/cmdbtools", line 11, in
sys.exit(main())
File "/data/jg418001/miniconda3/lib/python2.7/site-packages/cmdbtools/cmdbtools.py", line 449, in main
annotate(args.in_vcffile, filter=None)
File "/data/jg418001/miniconda3/lib/python2.7/site-packages/cmdbtools/cmdbtools.py", line 316, in annotate
cmdb_variant = query_variant(chromosome, position)
File "/data/jg418001/miniconda3/lib/python2.7/site-packages/cmdbtools/cmdbtools.py", line 273, in query_variant
return _query_nonpaged(tokenstore["access_token"], query_url)
File "/data/jg418001/miniconda3/lib/python2.7/site-packages/cmdbtools/cmdbtools.py", line 250, in _query_nonpaged
cmdb_response = requests.get("{}&token={}".format(url, token))
File "/data/jg418001/miniconda3/lib/python2.7/site-packages/cmdbtools/cmdbtools.py", line 107, in get
response = urlopen(r)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 154, in urlopen
return opener.open(url, data, timeout)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 429, in open
response = self._open(req, data)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 447, in _open
'_open', req)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 1241, in https_open
context=self._context)
File "/data/jg418001/miniconda3/lib/python2.7/urllib2.py", line 1198, in do_open
raise URLError(err)
urllib2.URLError: <urlopen error [Errno 110] Connection timed out>
Can you tell me what is the problem!
Thanks!