Hi,
It looks like biodb is down again. could you please fix it? Thanks.
dir(worldbase)
^CTraceback (most recent call last):
File "<stdin>", line 1, in <module>
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 1463, in __dir__
return ResourcePath.__dir__(self, '', 0)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 1435, in __dir__
l = self._mdb.dir(prefix)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 1135, in dir
self.update(keepCurrentPath=True) # make sure metabases loaded
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 1085, in update
self, **mdbArgs)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 915, in __init__
storage = XMLRPCMetabase(dbpath, self, **kwargs)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 335, in __init__
self.server = get_connection(url, 'index')
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/coordinator.py",
line 94, in __call__
return s[name] # GET THE REQUESTED OBJECT PROXY FROM THE SERVER
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/coordinator.py",
line 75, in __getitem__
methodDict = self.server.objectInfo(name)
File "/usr/lib/python2.7/xmlrpclib.py", line 1224, in __call__
return self.__send(self.__name, args)
File "/usr/lib/python2.7/xmlrpclib.py", line 1578, in __request
verbose=self.__verbose
File "/usr/lib/python2.7/xmlrpclib.py", line 1264, in request
return self.single_request(host, handler, request_body, verbose)
File "/usr/lib/python2.7/xmlrpclib.py", line 1294, in single_request
response = h.getresponse(buffering=True)
File "/usr/lib/python2.7/httplib.py", line 1030, in getresponse
response.begin()
File "/usr/lib/python2.7/httplib.py", line 407, in begin
version, status, reason = self._read_status()
File "/usr/lib/python2.7/httplib.py", line 365, in _read_status
line = self.fp.readline()
File "/usr/lib/python2.7/socket.py", line 447, in readline
data = self._sock.recv(self._rbufsize)
KeyboardInterrupt
>>> dir(worldbase)
Traceback (most recent call last):
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 1085, in update
self, **mdbArgs)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 915, in __init__
storage = XMLRPCMetabase(dbpath, self, **kwargs)
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/metabase.py",
line 335, in __init__
self.server = get_connection(url, 'index')
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/coordinator.py",
line 94, in __call__
return s[name] # GET THE REQUESTED OBJECT PROXY FROM THE SERVER
File
"/home/tommy/.local/lib/python2.7/site-packages/pygr-0.8.2-py2.7-linux-x86_64.egg/pygr/coordinator.py",
line 75, in __getitem__
methodDict = self.server.objectInfo(name)
File "/usr/lib/python2.7/xmlrpclib.py", line 1224, in __call__
return self.__send(self.__name, args)
File "/usr/lib/python2.7/xmlrpclib.py", line 1578, in __request
verbose=self.__verbose
File "/usr/lib/python2.7/xmlrpclib.py", line 1264, in request
return self.single_request(host, handler, request_body, verbose)
File "/usr/lib/python2.7/xmlrpclib.py", line 1289, in single_request
self.send_request(h, handler, request_body)
File "/usr/lib/python2.7/xmlrpclib.py", line 1391, in send_request
connection.putrequest("POST", handler, skip_accept_encoding=True)
CannotSendRequest
WARNING: error accessing metabase
http://biodb2.bioinformatics.ucla.edu:5000. Continuing...
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