Web services down

[grandal@…]

The following bug report has been submitted:
Platform:        Windows-10-10.0.19041
ChimeraX Version: 1.0 (2020-06-04 23:15:07 UTC)
Description
(Describe the actions that caused this problem to occur here)Comparative Model

Log:
UCSF ChimeraX version: 1.0 (2020-06-04)  
© 2016-2020 Regents of the University of California. All rights reserved.  
How to cite UCSF ChimeraX  

> ui tool show "Modeller Comparative"

> ui tool show "Blast Protein"

> open C:\Users\megha\Desktop\PIA_1zlc.pdb format pdb

PIA_1zlc.pdb title:  
Solution conformation of α-conotoxin pia [more info...]  
  
Chain information for PIA_1zlc.pdb  
---  
Chain | Description  
1.1/A 1.2/A 1.3/A 1.4/A 1.5/A 1.6/A 1.7/A 1.8/A 1.9/A 1.10/A 1.11/A 1.12/A
1.13/A 1.14/A 1.15/A 1.16/A 1.17/A 1.18/A 1.19/A 1.20/A | fragment  
  

> ui tool show "Show Sequence Viewer"

> close session

> open C:/Users/megha/Desktop/PID-PIA.fasta

Summary of feedback from opening C:/Users/megha/Desktop/PID-PIA.fasta  
---  
note | Alignment identifier is PID-PIA.fasta  
  
Opened 2 sequences from PID-PIA.fasta  

> select

Nothing selected  

> ui tool show "Modeller Comparative"

> modeller comparative PID-PIA.fasta:1 multichain false numModels 5 fast false
> hetPreserve false hydrogens false waterPreserve false

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1319, in
do_open  
encode_chunked=req.has_header('Transfer-encoding'))  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1252, in
request  
self._send_request(method, url, body, headers, encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1298, in
_send_request  
self.endheaders(body, encode_chunked=encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1247, in
endheaders  
self._send_output(message_body, encode_chunked=encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1026, in
_send_output  
self.send(msg)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 966, in send  
self.connect()  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 938, in
connect  
(self.host,self.port), self.timeout, self.source_address)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\socket.py", line 728, in
create_connection  
raise err  
File "C:\Program Files\ChimeraX 1.0\bin\lib\socket.py", line 716, in
create_connection  
sock.connect(sa)  
TimeoutError: [WinError 10060] A connection attempt failed because the
connected party did not properly respond after a period of time, or
established connection failed because connected host has failed to respond  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\core\tasks.py", line 196, in _run_thread  
self.run(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\core\tasks.py", line 283, in run  
self.launch(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 121, in launch  
self._suds = Client(self.service_url + "?wsdl")  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\client.py",
line 115, in __init__  
self.wsdl = reader.open(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 150, in open  
d = self.fn(url, self.options)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\wsdl.py", line
136, in __init__  
d = reader.open(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 74, in open  
d = self.download(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 92, in download  
fp = self.options.transport.open(Request(url))  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\https.py", line 62, in open  
return HttpTransport.open(self, request)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\http.py", line 67, in open  
return self.u2open(u2request)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\http.py", line 132, in u2open  
return url.open(u2request, timeout=tm)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 525, in
open  
response = self._open(req, data)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 543, in
_open  
'_open', req)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 503, in
_call_chain  
result = func(*args)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1347, in
http_open  
return self.do_open(http.client.HTTPConnection, req)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1321, in
do_open  
raise URLError(err)  
urllib.error.URLError: <urlopen error [WinError 10060] A connection attempt
failed because the connected party did not properly respond after a period of
time, or established connection failed because connected host has failed to
respond>  
  
Exception in thread 1:  
urllib.error.URLError:  
  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1321, in
do_open  
raise URLError(err)  
  
See log for complete Python traceback.  
  
Modeller job ID None finished  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\chimerax\ui\gui.py",
line 604, in customEvent  
func(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\modeller\comparative.py", line 409, in on_finish  
err = self.get_file("stderr.txt")  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
  
See log for complete Python traceback.  
  

> ui tool show "Modeller Comparative"

> modeller comparative PID-PIA.fasta:1 multichain false numModels 5 fast false
> hetPreserve false hydrogens false tempPath C:/ProgramData/ChimeraX
> waterPreserve false

Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1319, in
do_open  
encode_chunked=req.has_header('Transfer-encoding'))  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1252, in
request  
self._send_request(method, url, body, headers, encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1298, in
_send_request  
self.endheaders(body, encode_chunked=encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1247, in
endheaders  
self._send_output(message_body, encode_chunked=encode_chunked)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 1026, in
_send_output  
self.send(msg)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 966, in send  
self.connect()  
File "C:\Program Files\ChimeraX 1.0\bin\lib\http\client.py", line 938, in
connect  
(self.host,self.port), self.timeout, self.source_address)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\socket.py", line 728, in
create_connection  
raise err  
File "C:\Program Files\ChimeraX 1.0\bin\lib\socket.py", line 716, in
create_connection  
sock.connect(sa)  
TimeoutError: [WinError 10060] A connection attempt failed because the
connected party did not properly respond after a period of time, or
established connection failed because connected host has failed to respond  
  
During handling of the above exception, another exception occurred:  
  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\core\tasks.py", line 196, in _run_thread  
self.run(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\core\tasks.py", line 283, in run  
self.launch(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 121, in launch  
self._suds = Client(self.service_url + "?wsdl")  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\client.py",
line 115, in __init__  
self.wsdl = reader.open(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 150, in open  
d = self.fn(url, self.options)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\wsdl.py", line
136, in __init__  
d = reader.open(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 74, in open  
d = self.download(url)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\suds\reader.py",
line 92, in download  
fp = self.options.transport.open(Request(url))  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\https.py", line 62, in open  
return HttpTransport.open(self, request)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\http.py", line 67, in open  
return self.u2open(u2request)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\suds\transport\http.py", line 132, in u2open  
return url.open(u2request, timeout=tm)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 525, in
open  
response = self._open(req, data)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 543, in
_open  
'_open', req)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 503, in
_call_chain  
result = func(*args)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1347, in
http_open  
return self.do_open(http.client.HTTPConnection, req)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1321, in
do_open  
raise URLError(err)  
urllib.error.URLError: <urlopen error [WinError 10060] A connection attempt
failed because the connected party did not properly respond after a period of
time, or established connection failed because connected host has failed to
respond>  
  
Exception in thread 2:  
urllib.error.URLError:  
  
File "C:\Program Files\ChimeraX 1.0\bin\lib\urllib\request.py", line 1321, in
do_open  
raise URLError(err)  
  
See log for complete Python traceback.  
  
Modeller job ID None finished  
Traceback (most recent call last):  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-packages\chimerax\ui\gui.py",
line 604, in customEvent  
func(*args, **kw)  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\modeller\comparative.py", line 409, in on_finish  
err = self.get_file("stderr.txt")  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
TypeError: unsupported operand type(s) for +: 'NoneType' and 'str'  
  
File "C:\Program Files\ChimeraX 1.0\bin\lib\site-
packages\chimerax\webservices\opal_job.py", line 258, in get_file  
url = self._status_url + '/' + filename  
  
See log for complete Python traceback.  
  




OpenGL version: 3.3.0 NVIDIA 391.25
OpenGL renderer: GeForce 940MX/PCIe/SSE2
OpenGL vendor: NVIDIA Corporation
Manufacturer: LENOVO
Model: 80V5
OS: Microsoft Windows 10 Home (Build 19041)
Memory: 8,390,193,152
MaxProcessMemory: 137,438,953,344
CPU: 4 Intel(R) Core(TM) i5-7200U CPU @ 2.50GHz"
PyQt version: 5.12.3
Compiled Qt version: 5.12.4
Runtime Qt version: 5.12.8

[pett]

Hi Meghan,

Our web services are currently unavailable to non-UCSF sites. We are working on rectifying this problem. I will update this tickets when things are working again.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab

[pett]

Hi Meghan,

Web services should be working again.

--Eric

Eric Pettersen
UCSF Computer Graphics Lab