At worst, can't you just disable the test suite for the Python 3 builds ? Pybuild should allow to do that easily.
2014-11-24 16:36 GMT+00:00 Jorge Sebastião Soares <j.s.soares@gmail.com>:Hi guys,So essentially the package build halts when it tries to run the test suite:This is the error I'm getting when the pysam module is being imported:
root@debian:~/iva-0.10.0# python3.4 setup.py test
running test
running egg_info
writing top-level names to iva.egg-info/top_level.txt
writing iva.egg-info/PKG-INFO
writing dependency_links to iva.egg-info/dependency_links.txt
reading manifest file 'iva.egg-info/SOURCES.txt'
writing manifest file 'iva.egg-info/SOURCES.txt'
running build_ext
Failure: ImportError (No module named 'pysam') ... ERROR
======================================================================
ERROR: Failure: ImportError (No module named 'pysam')
----------------------------------------------------------------------
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 414, 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/python3.4/imp.py", line 245, in load_module
return load_package(name, filename)
File "/usr/lib/python3.4/imp.py", line 217, in load_package
return methods.load()
File "<frozen importlib._bootstrap>", line 1220, in load
File "<frozen importlib._bootstrap>", line 1200, in _load_unlocked
File "<frozen importlib._bootstrap>", line 1129, in _exec
File "<frozen importlib._bootstrap>", line 1471, in exec_module
File "<frozen importlib._bootstrap>", line 321, in _call_with_frames_removed
File "/tmp/buildd/iva-0.10.0/iva/__init__.py", line 20, in <module>
from iva import *
File "/tmp/buildd/iva-0.10.0/iva/assembly.py", line 2, in <module>
import pysam
ImportError: No module named 'pysam'
----------------------------------------------------------------------
Ran 1 test in 0.016s
FAILED (errors=1)If pysam is python 3 compliant, I'm tempted to create the needed symlinks in python3.4 pointing to pysam in python2.7, eg.
ln -s /usr/lib/python2.7/dist-packages/pysam /usr/lib/python3.4/dist-packages/pysamI'm sure that this is not the proper way of doing things, so is there any other way I can get pysam to be installed under python3.4 rather than python2.7?Regards,
Jorge