Hi Zhenquan, Did you start PyMol with the "-R" flag so that it is running the xmlrpc server? You can verify this by looking in the PyMol console for text like this: "xml-rpc server running on host localhost, port 9123"
-greg On Wed, Jan 6, 2016 at 2:16 AM, Zhenquan Hu <zhqhu.s...@gmail.com> wrote: > Dear all, > > Recently I tried to install RDKit on ubuntu-14.04/CentOS7.1. First I tried > with the pre-build version, then compiled with the git source code. Neither > could call the module Chem.PyMol.MolViewer(). > It looks like something wrong with xmlrpc, but I have no idea about the > detail. > > Anyone knows why? > > best, > Zhenquan > > test.py > #========================== > from rdkit.Chem import PyMol > v = PyMol.MolViewer() > #========================== > > python test.py > #=================================================== > Traceback (most recent call last): > File "test.py", line 3, in <module> > v=PyMol.MolViewer() > File "/opt/rdkit/rdkit/Chem/PyMol.py", line 35, in __init__ > serv.ping() > File "/usr/lib64/python2.7/xmlrpclib.py", line 1233, in __call__ > return self.__send(self.__name, args) > File "/usr/lib64/python2.7/xmlrpclib.py", line 1587, in __request > verbose=self.__verbose > File "/usr/lib64/python2.7/xmlrpclib.py", line 1273, in request > return self.single_request(host, handler, request_body, verbose) > File "/usr/lib64/python2.7/xmlrpclib.py", line 1301, in single_request > self.send_content(h, request_body) > File "/usr/lib64/python2.7/xmlrpclib.py", line 1448, in send_content > connection.endheaders(request_body) > File "/usr/lib64/python2.7/httplib.py", line 975, in endheaders > self._send_output(message_body) > File "/usr/lib64/python2.7/httplib.py", line 835, in _send_output > self.send(msg) > File "/usr/lib64/python2.7/httplib.py", line 797, in send > self.connect() > File "/usr/lib64/python2.7/httplib.py", line 778, in connect > self.timeout, self.source_address) > File "/usr/lib64/python2.7/socket.py", line 571, in create_connection > raise err > socket.error: [Errno 111] Connection refused > #===================================================== > > > > ------------------------------------------------------------------------------ > > _______________________________________________ > Rdkit-devel mailing list > Rdkit-devel@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/rdkit-devel > >
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