--- Begin Message ---
Source: cinfony
Version: 1.2-4
X-Debbugs-CC: [email protected]
User: [email protected]
Usertags: regression
Dear maintainers,
With a recent upload of cinfony the autopkgtest of cinfony fails in
testing when that autopkgtest is run with the binary packages of cinfony
from unstable. It passes when run with only packages from testing. In
tabular form:
pass fail
cinfony from testing 1.2-4
all others from testing from testing
I copied some of the output at the bottom of this report.
Currently this regression is blocking the migration to testing [1]. Can
you please investigate the situation and fix it? If needed, please
change the bug's severity.
More information about this bug and the reason for filing it can be found on
https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation
Paul
[1] https://qa.debian.org/excuses.php?package=cinfony
https://ci.debian.net/data/autopkgtest/testing/amd64/c/cinfony/2857991/log.gz
======================================================================
ERROR: testDraw (__main__.TestWebel)
Create a 2D depiction
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 520, in testDraw
filename="%s.png" % self.toolkit.__name__)
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 305, in
draw
imagedata = nci(_quo(self.smiles), "image")
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 74, in
server
resp = urllib2.urlopen(url)
File "/usr/lib/python2.7/urllib2.py", line 154, in urlopen
return opener.open(url, data, timeout)
File "/usr/lib/python2.7/urllib2.py", line 435, in open
response = meth(req, response)
File "/usr/lib/python2.7/urllib2.py", line 548, in http_response
'http', request, response, code, msg, hdrs)
File "/usr/lib/python2.7/urllib2.py", line 467, in error
result = self._call_chain(*args)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 654, in http_error_302
return self.parent.open(new, timeout=req.timeout)
File "/usr/lib/python2.7/urllib2.py", line 429, in open
response = self._open(req, data)
File "/usr/lib/python2.7/urllib2.py", line 447, in _open
'_open', req)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 1241, in https_open
context=self._context)
File "/usr/lib/python2.7/urllib2.py", line 1198, in do_open
raise URLError(err)
URLError: <urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate
verify failed (_ssl.c:727)>
======================================================================
ERROR: testRFoutputfile (__main__.TestWebel)
Test the Outputfile class
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 536, in testRFoutputfile
outputfile.write(mol)
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 158, in
write
output = molecule.write(self.format)
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 281, in
write
output = nci(_quo(self.smiles), "file?format=%s" % format).rstrip()
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 74, in
server
resp = urllib2.urlopen(url)
File "/usr/lib/python2.7/urllib2.py", line 154, in urlopen
return opener.open(url, data, timeout)
File "/usr/lib/python2.7/urllib2.py", line 435, in open
response = meth(req, response)
File "/usr/lib/python2.7/urllib2.py", line 548, in http_response
'http', request, response, code, msg, hdrs)
File "/usr/lib/python2.7/urllib2.py", line 467, in error
result = self._call_chain(*args)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 654, in http_error_302
return self.parent.open(new, timeout=req.timeout)
File "/usr/lib/python2.7/urllib2.py", line 429, in open
response = self._open(req, data)
File "/usr/lib/python2.7/urllib2.py", line 447, in _open
'_open', req)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 1241, in https_open
context=self._context)
File "/usr/lib/python2.7/urllib2.py", line 1198, in do_open
raise URLError(err)
URLError: <urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate
verify failed (_ssl.c:727)>
======================================================================
ERROR: testRFsingletofile (__main__.TestWebel)
Test the molecule.write() method
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 264, in testRFsingletofile
mol.write("smi", "testoutput.txt")
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 285, in
write
raise IOError("%s already exists. Use 'overwrite=True' to overwrite
it." % filename)
IOError: testoutput.txt already exists. Use 'overwrite=True' to
overwrite it.
======================================================================
ERROR: testRSconversiontoMOL (__main__.TestWebel)
Convert to mol
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 555, in testRSconversiontoMOL
as_mol = self.mols[0].write("mol")
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 281, in
write
output = nci(_quo(self.smiles), "file?format=%s" % format).rstrip()
File "/usr/lib/python2.7/dist-packages/cinfony/webel.py", line 74, in
server
resp = urllib2.urlopen(url)
File "/usr/lib/python2.7/urllib2.py", line 154, in urlopen
return opener.open(url, data, timeout)
File "/usr/lib/python2.7/urllib2.py", line 435, in open
response = meth(req, response)
File "/usr/lib/python2.7/urllib2.py", line 548, in http_response
'http', request, response, code, msg, hdrs)
File "/usr/lib/python2.7/urllib2.py", line 467, in error
result = self._call_chain(*args)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 654, in http_error_302
return self.parent.open(new, timeout=req.timeout)
File "/usr/lib/python2.7/urllib2.py", line 429, in open
response = self._open(req, data)
File "/usr/lib/python2.7/urllib2.py", line 447, in _open
'_open', req)
File "/usr/lib/python2.7/urllib2.py", line 407, in _call_chain
result = func(*args)
File "/usr/lib/python2.7/urllib2.py", line 1241, in https_open
context=self._context)
File "/usr/lib/python2.7/urllib2.py", line 1198, in do_open
raise URLError(err)
URLError: <urlopen error [SSL: CERTIFICATE_VERIFY_FAILED] certificate
verify failed (_ssl.c:727)>
----------------------------------------------------------------------
Ran 30 tests in 23.884s
FAILED (errors=4)
....................E.E.==============================
*** Open Babel Warning in WriteMolecule
No 2D or 3D coordinates exist. Stereochemical information will be
stored using an Open Babel extension. To generate 2D or 3D coordinates
instead use --gen2D or --gen3D.
.==============================
*** Open Babel Error in ReadMolecule
&*)(%)($) contained a character '&' which is invalid in SMILES
........
======================================================================
ERROR: testRFoutputfile (__main__.TestIronable)
Test the Outputfile class
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 276, in testRFoutputfile
self.assertRaises(ValueError, self.toolkit.Outputfile, "noel",
"testoutput.txt")
File "/usr/lib/python2.7/unittest/case.py", line 473, in assertRaises
callableObj(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/cinfony/pybel.py", line 222, in
__init__
raise IOError("%s already exists. Use 'overwrite=True' to overwrite
it." % self.filename)
IOError: testoutput.txt already exists. Use 'overwrite=True' to
overwrite it.
======================================================================
ERROR: testRFsingletofile (__main__.TestIronable)
Test the molecule.write() method
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 264, in testRFsingletofile
mol.write("smi", "testoutput.txt")
File "/usr/lib/python2.7/dist-packages/cinfony/pybel.py", line 417, in
write
raise IOError("%s already exists. Use 'overwrite=True' to overwrite
it." % filename)
IOError: testoutput.txt already exists. Use 'overwrite=True' to
overwrite it.
----------------------------------------------------------------------
Ran 33 tests in 0.464s
FAILED (errors=2)
..................E.E..........
======================================================================
ERROR: testRFoutputfile (__main__.TestIndigo)
Test the Outputfile class
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 276, in testRFoutputfile
self.assertRaises(ValueError, self.toolkit.Outputfile, "noel",
"testoutput.txt")
File "/usr/lib/python2.7/unittest/case.py", line 473, in assertRaises
callableObj(*args, **kwargs)
File "/usr/lib/python2.7/dist-packages/cinfony/indy.py", line 178, in
__init__
raise IOError, "%s already exists. Use 'overwrite=True' to overwrite
it." % self.filename
IOError: testoutput.txt already exists. Use 'overwrite=True' to
overwrite it.
======================================================================
ERROR: testRFsingletofile (__main__.TestIndigo)
Test the molecule.write() method
----------------------------------------------------------------------
Traceback (most recent call last):
File "testall.py", line 264, in testRFsingletofile
mol.write("smi", "testoutput.txt")
File "/usr/lib/python2.7/dist-packages/cinfony/indy.py", line 292, in
write
raise IOError, "%s already exists. Use 'overwrite=True' to overwrite
it." % filename
IOError: testoutput.txt already exists. Use 'overwrite=True' to
overwrite it.
----------------------------------------------------------------------
Ran 31 tests in 0.041s
FAILED (errors=2)
TESTING TestWebel
== == == == == == == == == ==
TESTING TestIronable
== == == == == == == == == ==
TESTING TestIndigo
== == == == == == == == == ==
Failed tests exist
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--- End Message ---
