[Debian-med-packaging] Bug#804441: python-biom-format: FTBFS: No such file or directory: '[..]/build/examples/min_sparse_otu_table_hdf5.biom'

[Chris Lamb]

Source: python-biom-format
Version: 2.1.4+dfsg-1
Severity: serious
Justification: fails to build from source
User: reproducible-builds at lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-Cc: reproducible-builds at lists.alioth.debian.org

Dear Maintainer,

python-biom-format fails to build from source in unstable/amd64:

  [..]
  
  ======================================================================
  ERROR: test_valid_hdf5_metadata_v210
  (tests.test_commands.test_table_validator.TableValidatorTests)
  ----------------------------------------------------------------------
  Traceback (most recent call last):
    File "/usr/lib/python2.7/dist-packages/numpy/testing/decorators.py",
    line 146, in skipper_func
      return f(*args, **kwargs)
    File
    "/build/python-biom-format-2.1.4+dfsg/.pybuild/pythonX.Y_2.7/build/tests/test_commands/test_table_validator.py",
    line 62, in test_valid_hdf5_metadata_v210
      format_version='2.1')
    File "/usr/lib/python2.7/dist-packages/pyqi/core/command.py", line
    137, in __call__
      result = self.run(**kwargs)
    File "biom/commands/table_validator.py", line 73, in run
      is_json = not is_hdf5_file(kwargs['table'])
    File "biom/util.py", line 507, in is_hdf5_file
      with open(fp) as f:
  IOError: [Errno 2] No such file or directory:
  '/build/python-biom-format-2.1.4+dfsg/.pybuild/pythonX.Y_2.7/build/examples/min_sparse_otu_table_hdf5.biom'
  
  ----------------------------------------------------------------------
  Ran 252 tests in 2.720s
  
  FAILED (SKIP=1, errors=3)
  E: pybuild pybuild:274: test: plugin distutils failed with: exit
  code=1: cd
  /build/python-biom-format-2.1.4+dfsg/.pybuild/pythonX.Y_2.7/build;
  python2.7 -m nose tests
  dh_auto_test: pybuild --test -i python{version} -p 2.7 --dir .
  returned exit code 13
  debian/rules:20: recipe for target 'build' failed
  make: *** [build] Error 25
  dpkg-buildpackage: error: debian/rules build gave error exit status 2

  [..]

The full build log is attached or can be viewed here:

    https://reproducible.debian.net/logs/unstable/amd64/python-biom-format_2.1.4+dfsg-1.build1.log.gz


Regards,

-- 
      ,''`.
     : :'  :     Chris Lamb
     `. `'`      lamby at debian.org / chris-lamb.co.uk
       `-
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