[Chimera-users] MultiFit is not working

Greg Couch gregc at cgl.ucsf.edu
Thu Nov 3 12:29:54 PDT 2016 

This error is a networking error.  For some reason, Chimera on your 
computer can't reach www.cgl.ucsf.edu.  Googling 'gaierror: Name or 
service not known', I see that there are many possible causes of this 
problem.   In one case, it happens if the first nameserver that is 
checked for www.cgl.ucsf.edu doesn't support recursion and reordering 
the nameservers in /etc/resolv.conf fixed the problem.  Not being able 
to access www.cgl.ucsf.edu would explain your problem with MultiFit 
too.  Please forward this information to your IT support guy.


     -- Greg


On 11/03/2016 06:40 AM, Smirnova, Julia wrote:
> Hi Eric,
>
> thank you for reply and advises!
>
> Today it gives me the same error. And when I try to submit it to the 
> 'Report a Bug' it gives me another error:
>
> gaierror Exception in Tk callback
>   Function: <bound method BugReportGUI.Submit of 
> <BugReport.BugReportGUI.BugReportGUI object at 0x7f8b9709d250>> (type: 
> <type 'instancemethod'>)
>   Module: <module 'BugReport.BugReportGUI' from 
> '/opt/UCSF/Chimera64-1.11.2rc/share/BugReport/BugReportGUI.pyc'> 
> (line: 348)
>   Args: ()
> Traceback (innermost last):
>   File 
> "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/site-packages/Pmw/Pmw_1_3_3/lib/PmwBase.py", 
> line 1747, in __call__
>     return apply(self.func, args)
>   File "/opt/UCSF/Chimera64-1.11.2rc/share/BugReport/BugReportGUI.py", 
> line 426, in Submit
>     BUG_SELECTOR, fields)
>   File "/opt/UCSF/Chimera64-1.11.2rc/share/CGLutil/multipart.py", line 
> 29, in post_multipart_formdata
>     h.endheaders()
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/httplib.py", line 
> 1049, in endheaders
>     self._send_output(message_body)
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/httplib.py", line 
> 893, in _send_output
>     self.send(msg)
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/httplib.py", line 
> 855, in send
>     self.connect()
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/httplib.py", line 
> 832, in connect
>     self.timeout, self.source_address)
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/socket.py", line 
> 557, in create_connection
>     for res in getaddrinfo(host, port, 0, SOCK_STREAM):
> gaierror: [Errno -2] Name or service not known
>
> gaierror: [Errno -2] Name or service not known
>
>   File "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/socket.py", line 
> 557, in create_connection
>     for res in getaddrinfo(host, port, 0, SOCK_STREAM):
>
> See reply log for Python traceback.
>
>
> Our IT support guy is not aware of what could be wrong..
>
>
> Thank you,
> Julia
>
>
> ------------------------------------------------------------------------
> *Von:* Eric Pettersen [pett at cgl.ucsf.edu]
> *Gesendet:* Mittwoch, 2. November 2016 19:41
> *An:* Smirnova, Julia
> *Cc:* chimera-users at cgl.ucsf.edu
> *Betreff:* Re: [Chimera-users] MultiFit is not working
>
> Can you try again?  I see MultiFit jobs running on our server as I 
> type this, so perhaps this was some kind of temporary problem, or a 
> connectivity problem between your site and ours.  If the problem 
> continues, please use Help->Report A Bug to make a report, which will 
> automatically include a lot of details about the machine you are using 
> and the version of Chimera.  Thanks.
>
> —Eric
>
> Eric Pettersen
> UCSF Computer Graphics Lab
>
>> On Nov 2, 2016, at 5:23 AM, Smirnova, Julia 
>> <julia.smirnova at charite.de <mailto:julia.smirnova at charite.de>> wrote:
>>
>> Dear  Chimera-team,
>>
>>
>> I was trying to use a MultiFit service of Chimera (to fit two models 
>> into my cryo density map), and it gives me the following error:
>>
>>
>> Wrote /tmp/tmp_rSyaW/INSRT_model2.pdb
>> Wrote /tmp/tmp_rSyaW/1x1n.pdb
>> Traceback from web service request (connection setup):
>> Traceback (most recent call last):
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/share/WebServices/opal_client.py", line 
>> 11, in __init__
>>     self._setup(serviceName, opalURL, sessionData)
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/share/WebServices/opal_client.py", line 
>> 52, in _setup
>>     md = self.sudsClient.service.getAppMetadata()
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/site-packages/suds_jurko-0.6-py2.7.egg/suds/client.py", 
>> line 280, in __getattr__
>>     port = self.__find(0)
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/lib/python2.7/site-packages/suds_jurko-0.6-py2.7.egg/suds/client.py", 
>> line 315, in __find
>>     raise Exception, 'No services defined'
>> Exception: No services defined
>>
>> Typically, if you get a TypeError, it's a problem on the remote server
>> and it should be fixed shortly.  If you get a different error or
>> get TypeError consistently for more than a day, please report the
>> problem using the Report a Bug... entry in the Help menu.  Please
>> include the traceback printed above as part of the problem description.
>> Traceback from web application request:
>> Traceback (most recent call last):
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/share/WebServices/appWebService.py", 
>> line 48, in _initApp
>>     self.backend = Backend(service, url)
>>   File 
>> "/opt/UCSF/Chimera64-1.11.2rc/share/WebServices/opal_client.py", line 
>> 21, in __init__
>>     raise NonChimeraError("Web service appears "
>> NonChimeraError: Web service appears to be down. See Reply Log for 
>> more details.
>> Service 'opal:MultiFitWebService' is unavailable. See Reply Log for 
>> more details.
>>
>>
>> Could you please give me a clue what might be a problem.
>>
>> I do have an internet connection (checked by 'Fletch by ID... ' function)
>>
>> Thank you for your support,
>> Julia
>>
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>
>
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