[Debian-med-packaging] Bug#799820: python-biopython: FTBFS: No such file or directory: 'Phylip/interlaced2.phy_phyml_tree.txt'

[Chris West (Faux)]

Source: python-biopython
Version: 1.65+dfsg-1
Severity: serious
Justification: fails to build from source
Tags: sid stretch
User: reproducible-builds at lists.alioth.debian.org
Usertags: ftbfs
X-Debbugs-CC: reproducible-builds at lists.alioth.debian.org

Dear Maintainer,

The package fails to build:

Bio.PDB.Selection docstring test ... ok
======================================================================
ERROR: test_phyml (test_phyml_tool.AppTests)
Run PhyML using the wrapper.
----------------------------------------------------------------------
Traceback (most recent call last):
  File "/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_2.7/build/Tests/test_phyml_tool.py", line 50, in test_phyml
    tree = Phylo.read(EX_PHYLIP + '_phyml_tree.txt', 'newick')
  File "/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_2.7/build/Bio/Phylo/_io.py", line 65, in read
    tree = next(tree_gen)
  File "/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_2.7/build/Bio/Phylo/_io.py", line 52, in parse
    with File.as_handle(file, 'r') as fp:
  File "/usr/lib/python2.7/contextlib.py", line 17, in __enter__
    return self.gen.next()
  File "/python-biopython-1.65+dfsg/.pybuild/pythonX.Y_2.7/build/Bio/File.py", line 90, in as_handle
    with open(handleish, mode, **kwargs) as fp:
IOError: [Errno 2] No such file or directory: 'Phylip/interlaced2.phy_phyml_tree.txt'

----------------------------------------------------------------------
Ran 219 tests in 81.776 seconds

FAILED (failures = 1)

Full build log:
https://reproducible.debian.net/rb-pkg/unstable/amd64/python-biopython.html

-- System Information:
Debian Release: stretch/sid
APT prefers unstable
APT policy: (500, 'unstable')
Architecture: amd64 (x86_64)