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cmdbtools error

Open zoubinbin100 opened this issue 5 years ago • 0 comments

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!

zoubinbin100 avatar Jan 06 '19 06:01 zoubinbin100