[Debian-med-packaging] Bug#974733: q2-quality-filter: unsatisfiable build-dependencies

[Andreas Tille]

Control: tags -1 help

Hi,

I upgraded q2-quality-filter to the latest upstream version in Git.  The
build time tests were disabled as for other QIIME modules that need
registering in QIIME which is not possible at build time.  However, also
the autopkgtest fails with:

autopkgtest [13:08:01]: test run-unit-test: [-----------------------
/usr/lib/python3/dist-packages/skbio/util/_testing.py:15: FutureWarning: pandas.util.testing is deprecated. Use the functions in the public API at pandas.testing instead.
  import pandas.util.testing as pdt
EFEEE.....
======================================================================
ERROR: test_q_score (q2_quality_filter.test.test_filter.FilterTests)
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/tmp/autopkgtest.Oa4qOC/autopkgtest_tmp/q2_quality_filter/test/test_filter.py", line 108, in test_q_score
    with redirected_stdio(stdout=os.devnull):
  File "/usr/lib/python3.9/contextlib.py", line 117, in __enter__
    return next(self.gen)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 24, in redirected_stdio
    with _redirected_fd(to=stdout, stdio=sys.stdout):
  File "/usr/lib/python3.9/contextlib.py", line 117, in __enter__
    return next(self.gen)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 43, in _redirected_fd
    stdio_fd = _get_fileno(stdio)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 64, in _get_fileno
    fd = getattr(file_or_fd, 'fileno', lambda: file_or_fd)()
io.UnsupportedOperation: fileno
-------------------- >> begin captured logging << --------------------
bibtexparser.bparser: DEBUG: Found Entry: ['Article', 'Bolyen2019', {'url': 'https://doi.org/10.1038/s41587-019-0209-9', 'doi': '10.1038/s41587-019-0209-9', 'issn': '1546-1696', 'pages': '852
Traceback (most recent call last):
  File "/tmp/autopkgtest.Oa4qOC/autopkgtest_tmp/q2_quality_filter/test/test_filter.py", line 108, in test_q_score
    with redirected_stdio(stdout=os.devnull):
  File "/usr/lib/python3.9/contextlib.py", line 117, in __enter__
    return next(self.gen)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 24, in redirected_stdio
    with _redirected_fd(to=stdout, stdio=sys.stdout):
  File "/usr/lib/python3.9/contextlib.py", line 117, in __enter__
    return next(self.gen)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 43, in _redirected_fd
    stdio_fd = _get_fileno(stdio)
  File "/usr/lib/python3/dist-packages/qiime2/util.py", line 64, in _get_fileno
    fd = getattr(file_or_fd, 'fileno', lambda: file_or_fd)()
io.UnsupportedOperation: fileno
-------------------- >> begin captured logging << --------------------
bibtexparser.bparser: DEBUG: Found Entry: ['Article', 'Bolyen2019', {'url': 'https://doi.org/10.1038/s41587-019-0209-9', 'doi': '10.1038/s41587-019-0209-9', 'issn': '1546-1696', 'pages': '852
======================================================================
ERROR: test_q_score_numeric_ids (q2_quality_filter.test.test_filter.FilterTests)
----------------------------------------------------------------------
...


Kind regards

       Andreas.


-- 
http://fam-tille.de