Hi Adrian,
thanks for the patch. I applied it in Git and also updated to the latest
upstream version. However, when trying to build I'm running into
...
I: pybuild pybuild:219: cp
/build/python-pybedtools-0.7.10/debian/mpl-expected.png
/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build/pybedtools/test/
I: pybuild base:184: cd
/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build; python3.6 -m nose
--attr '!url'
E
======================================================================
ERROR: Failure: ModuleNotFoundError (No module named 'pysam.libchtslib')
----------------------------------------------------------------------
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 244, in load_module
return load_package(name, filename)
File "/usr/lib/python3.6/imp.py", line 216, in load_package
return _load(spec)
File "<frozen importlib._bootstrap>", line 675, in _load
File "<frozen importlib._bootstrap>", line 655, in _load_unlocked
File "<frozen importlib._bootstrap_external>", line 678, in exec_module
File "<frozen importlib._bootstrap>", line 205, in _call_with_frames_removed
File
"/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build/pybedtools/__init__.py",
line 12, in <module>
from . import contrib
File
"/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build/pybedtools/contrib/__init__.py",
line 3, in <module>
from . import venn_maker
File
"/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build/pybedtools/contrib/venn_maker.py",
line 12, in <module>
from pybedtools import helpers
File
"/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build/pybedtools/helpers.py",
line 13, in <module>
import pysam
File "/usr/lib/python3/dist-packages/pysam/__init__.py", line 5, in <module>
from pysam.libchtslib import *
ModuleNotFoundError: No module named 'pysam.libchtslib'
----------------------------------------------------------------------
Ran 1 test in 0.011s
FAILED (errors=1)
E: pybuild pybuild:283: test: plugin distutils failed with: exit code=1: cd
/build/python-pybedtools-0.7.10/.pybuild/pythonX.Y_3.6/build; python3.6 -m nose
--attr '!url'
dh_auto_test: pybuild --test --test-nose -i python{version} -p 3.6 3.5 returned
exit code 13
debian/rules:13: recipe for target 'build' failed
make: *** [build] Error 25
...
I guess python-pysam is not yet build for Python3 3.6.
Kind regards
Andreas.
--
http://fam-tille.de
