Your message dated Sat, 30 Jan 2021 19:49:43 +0000
with message-id <[email protected]>
and subject line Bug#979983: fixed in qcelemental 0.17.0+dfsg-3
has caused the Debian Bug report #979983,
regarding qcelemental downloads from the internet during the build
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
979983: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=979983
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Source: qcelemental
Version: 0.17.0+dfsg-2
Severity: serious
Tags: ftbfs
https://buildd.debian.org/status/fetch.php?pkg=qcelemental&arch=all&ver=0.17.0%2Bdfsg-2&stamp=1610282048&raw=0
...
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_auto_test
I: pybuild base:232: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build; python3.9
-m pytest
============================= test session starts ==============================
platform linux -- Python 3.9.1, pytest-6.0.2, py-1.10.0, pluggy-0.13.0
rootdir: /<<PKGBUILDDIR>>
plugins: cov-2.10.1
collected 998 items
qcelemental/molutil/test_molutil.py s..sss..sss.ss...s.................. [ 3%]
. [ 3%]
qcelemental/tests/test_constants.py .................................... [ 7%]
....x.... [ 8%]
qcelemental/tests/test_covalentradii.py ......................... [ 10%]
qcelemental/tests/test_datum.py ............. [ 12%]
qcelemental/tests/test_importing.py .......................... [ 14%]
qcelemental/tests/test_info.py ........................................ [ 18%]
qcelemental/tests/test_model_general.py ........ [ 19%]
qcelemental/tests/test_model_results.py ................................ [ 22%]
..... [ 23%]
qcelemental/tests/test_molecule.py .............s....s........s......... [ 26%]
.......s........... [ 28%]
qcelemental/tests/test_molparse_align_chiral.py ssssssssss [ 29%]
qcelemental/tests/test_molparse_from_schema.py ............ [ 30%]
qcelemental/tests/test_molparse_from_string.py ......................... [ 33%]
........................................................................ [ 40%]
.... [ 41%]
qcelemental/tests/test_molparse_parse_nucleus_label.py ............. [ 42%]
qcelemental/tests/test_molparse_pubchem.py FFF...FFF [ 43%]
qcelemental/tests/test_molparse_reconcile_nucleus.py ................... [ 45%]
................................ [ 48%]
qcelemental/tests/test_molparse_to_schema.py .............. [ 49%]
qcelemental/tests/test_molparse_to_string.py ........................... [ 52%]
.... [ 52%]
qcelemental/tests/test_molparse_validate_and_fill_chgmult.py ........... [ 54%]
........................................................ [ 59%]
qcelemental/tests/test_periodictable.py ................................ [ 62%]
........................................................................ [ 70%]
............x [ 71%]
qcelemental/tests/test_testing.py ...................................... [ 75%]
...................... [ 77%]
qcelemental/tests/test_units.py ........................................ [ 81%]
........................................................................ [ 88%]
........... [ 89%]
qcelemental/tests/test_utils.py ........................................ [ 93%]
..................sssssssssssssss [ 96%]
qcelemental/tests/test_vanderwaalsradii.py ........................ [ 99%]
qcelemental/util/test_gph_uno_bipartite.py ssss [ 99%]
qcelemental/util/test_scipy_hungarian.py .. [100%]
=================================== FAILURES ===================================
...
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
matchobj = <re.Match object; span=(0, 11), match='PubChem:223'>
def process_pubchem(matchobj):
pubsearch = matchobj.group("pubsearch")
# search pubchem for the provided string
try:
results = pubchem.get_pubchem_results(pubsearch)
except Exception as e:
> raise ValidationError(e.message)
E qcelemental.exceptions.ValidationError: Input Error:
PubchemError
E <urlopen error [Errno 111] Connection refused>
E received when trying to open
E
https://pubchem.ncbi.nlm.nih.gov/rest/pug/compound/cid/223/property/IUPACName,MolecularFormula,Charge/JSON
E Check your internet connection, and the above URL, and try
again.
qcelemental/molparse/from_string.py:309: ValidationError
----------------------------- Captured stdout call -----------------------------
Searching PubChem database for CID 223
=============================== warnings summary ===============================
.pybuild/cpython3_3.9/build/qcelemental/tests/test_molparse_from_string.py: 10
warnings
/usr/lib/python3/dist-packages/numpy/core/_asarray.py:83:
VisibleDeprecationWarning: Creating an ndarray from ragged nested sequences
(which is a list-or-tuple of lists-or-tuples-or ndarrays with different lengths
or shapes) is deprecated. If you meant to do this, you must specify
'dtype=object' when creating the ndarray
return array(a, dtype, copy=False, order=order)
-- Docs: https://docs.pytest.org/en/stable/warnings.html
=========================== short test summary info ============================
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_4a -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_4b -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_4c -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_multiout_g -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_13h -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
FAILED qcelemental/tests/test_molparse_pubchem.py::test_pubchem_13i -
qcelemental.exceptions.ValidationError: Input Error: PubchemError
====== 6 failed, 947 passed, 43 skipped, 2 xfailed, 10 warnings in 9.49s =======
E: pybuild pybuild:353: test: plugin distutils failed with: exit code=1: cd
/<<PKGBUILDDIR>>/.pybuild/cpython3_3.9/build; python3.9 -m pytest
dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p 3.9
returned exit code 13
make[1]: *** [debian/rules:9: override_dh_auto_test] Error 25
--- End Message ---
--- Begin Message ---
Source: qcelemental
Source-Version: 0.17.0+dfsg-3
Done: Michael Banck <[email protected]>
We believe that the bug you reported is fixed in the latest version of
qcelemental, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Michael Banck <[email protected]> (supplier of updated qcelemental package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Sat, 30 Jan 2021 20:21:05 +0100
Source: qcelemental
Architecture: source
Version: 0.17.0+dfsg-3
Distribution: unstable
Urgency: medium
Maintainer: Debichem Team <[email protected]>
Changed-By: Michael Banck <[email protected]>
Closes: 979983 980703
Changes:
qcelemental (0.17.0+dfsg-3) unstable; urgency=medium
.
* debian/patches/skip_web_using_tests.patch: New patch, forces skiping
web-using tests (Closes: #980703, #979983).
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