Hi,
it seems that BioPython 1.75 has solved all issues with Python 3.8.
However, when trying to build the Debian package I get the following
issues in the Build-Time test suite:
...
======================================================================
ERROR: Bio.KDTree._CKDTree
----------------------------------------------------------------------
Traceback (most recent call last):
File "run_tests.py", line 367, in runTest
optionflags=doctest.ELLIPSIS)
File "/usr/lib/python2.7/doctest.py", line 2412, in DocTestSuite
raise ValueError(module, "has no docstrings")
ValueError: (<module 'Bio.KDTree._CKDTree' from
'/build/python-biopython-1.75+dfsg/.pybuild/cpython2_2.7/build/Bio/KDTree/_CKDTree.so'>,
'has no docstrings')
======================================================================
ERROR: Bio.Nexus.cnexus
----------------------------------------------------------------------
Traceback (most recent call last):
File "run_tests.py", line 367, in runTest
optionflags=doctest.ELLIPSIS)
File "/usr/lib/python2.7/doctest.py", line 2412, in DocTestSuite
raise ValueError(module, "has no docstrings")
ValueError: (<module 'Bio.Nexus.cnexus' from
'/build/python-biopython-1.75+dfsg/.pybuild/cpython2_2.7/build/Bio/Nexus/cnexus.so'>,
'has no docstrings')
======================================================================
ERROR: Bio.PDB.QCPSuperimposer.qcprot
----------------------------------------------------------------------
Traceback (most recent call last):
File "run_tests.py", line 367, in runTest
optionflags=doctest.ELLIPSIS)
File "/usr/lib/python2.7/doctest.py", line 2412, in DocTestSuite
raise ValueError(module, "has no docstrings")
ValueError: (<module 'Bio.PDB.QCPSuperimposer.qcprotmodule' from
'/build/python-biopython-1.75+dfsg/.pybuild/cpython2_2.7/build/Bio/PDB/QCPSuperimposer/qcprotmodule.so'>,
'has no docstrings')
======================================================================
ERROR: Bio.PDB.kdtrees
----------------------------------------------------------------------
Traceback (most recent call last):
File "run_tests.py", line 367, in runTest
optionflags=doctest.ELLIPSIS)
File "/usr/lib/python2.7/doctest.py", line 2412, in DocTestSuite
raise ValueError(module, "has no docstrings")
ValueError: (<module 'Bio.PDB.kdtrees' from
'/build/python-biopython-1.75+dfsg/.pybuild/cpython2_2.7/build/Bio/PDB/kdtrees.so'>,
'has no docstrings')
----------------------------------------------------------------------
Ran 519 tests in 287.024 seconds
FAILED (failures = 4)
Skipping any tests requiring internet access
Python version: 2.7.17 (default, Oct 19 2019, 23:36:22)
[GCC 9.2.1 20191008]
...
Any hint how to solve this?
Greetings from Biohackathon
Andreas.
--
http://fam-tille.de
