[Debian-med-packaging] Bug#878498: snakemake FTBFS with Python 3.6 as default

[Adrian Bunk]

Source: snakemake
Version: 3.10.0-1
Severity: serious
Tags: buster sid

https://tests.reproducible-builds.org/debian/rb-pkg/unstable/amd64/snakemake.html

...
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ERROR: Failure: Exception (snakemake not in PATH. For testing, install snakemake with 'pip install -e .'. You should do this in a separate environment (via conda or virtualenv).)
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Traceback (most recent call last):
  File "/usr/lib/python3/dist-packages/nose/failure.py", line 39, in runTest
    raise self.exc_val.with_traceback(self.tb)
  File "/usr/lib/python3/dist-packages/nose/loader.py", line 418, in loadTestsFromName
    addr.filename, addr.module)
  File "/usr/lib/python3/dist-packages/nose/importer.py", line 47, in importFromPath
    return self.importFromDir(dir_path, fqname)
  File "/usr/lib/python3/dist-packages/nose/importer.py", line 94, in importFromDir
    mod = load_module(part_fqname, fh, filename, desc)
  File "/usr/lib/python3.6/imp.py", line 235, in load_module
    return load_source(name, filename, file)
  File "/usr/lib/python3.6/imp.py", line 172, in load_source
    module = _load(spec)
  File "<frozen importlib._bootstrap>", line 684, in _load
  File "<frozen importlib._bootstrap>", line 665, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 678, in exec_module
  File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
  File "/build/1st/snakemake-3.10.0/.pybuild/pythonX.Y_3.6/build/tests/tests.py", line 21, in <module>
    raise Exception("snakemake not in PATH. For testing, install snakemake with "
Exception: snakemake not in PATH. For testing, install snakemake with 'pip install -e .'. You should do this in a separate environment (via conda or virtualenv).

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Ran 4 tests in 0.535s

FAILED (errors=1)
E: pybuild pybuild:283: test: plugin distutils failed with: exit code=1: cd /build/1st/snakemake-3.10.0/.pybuild/pythonX.Y_3.6/build; python3.6 -m nose tests
dh_auto_test: pybuild --test --test-nose -i python{version} -p 3.6 returned exit code 13
debian/rules:18: recipe for target 'build' failed
make: *** [build] Error 25



The problem is the the following line in debian/rules:

  export PATH:=$(CURDIR)/.pybuild/pythonX.Y_3.5/build/bin:$(PATH)