<div dir="ltr">Okay, thank you. BIOM 2.0 requires pyqi 0.3.2, could you try upgrading please?<div>-Daniel</div></div><div class="gmail_extra"><br><br><div class="gmail_quote">On Wed, May 21, 2014 at 11:15 AM, Andreas Tille <span dir="ltr"><<a href="mailto:andreas@an3as.eu" target="_blank">andreas@an3as.eu</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex">Hi Daniel,<br>
<div class=""><br>
On Wed, May 21, 2014 at 10:46:42AM -0600, Daniel McDonald wrote:<br>
> Hi Andreas,<br>
><br>
> Can you please confirm the version of pyqi being used?<br>
<br>
</div>0.3.1<br>
<br>
Thanks for your and Gregs fast response<br>
<br>
Andreas.<br>
<div class="HOEnZb"><div class="h5"><br>
> Thanks,<br>
> Daniel<br>
><br>
><br>
> On Wed, May 21, 2014 at 10:38 AM, Greg Caporaso <<a href="mailto:gregcaporaso@gmail.com">gregcaporaso@gmail.com</a>>wrote:<br>
><br>
> > Hi Andreas,<br>
> > There is a minor issue with this release which is going to require us to<br>
> > build a 2.0.1 release. I'm adding Daniel McDonald to this message as he's<br>
> > more closely involved with this release than I am. Daniel, is this the<br>
> > issue that you guys are working on addressing?<br>
> ><br>
> > Thanks!<br>
> > Greg<br>
> ><br>
> ><br>
> > On Wed, May 21, 2014 at 8:59 AM, Andreas Tille <<a href="mailto:andreas@an3as.eu">andreas@an3as.eu</a>> wrote:<br>
> ><br>
> >> Hi Greg,<br>
> >><br>
> >> I tried to build Debian packages from version 2.0 of biom-format but<br>
> >> got this test result when running the test suite:<br>
> >><br>
> >><br>
> >> EEE......................<br>
> >> ======================================================================<br>
> >> ERROR: Failure: NameError (global name '_type_handlers' is not defined)<br>
> >> ----------------------------------------------------------------------<br>
> >> Traceback (most recent call last):<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 414, in<br>
> >> loadTestsFromName<br>
> >> addr.filename, addr.module)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in<br>
> >> importFromPath<br>
> >> return self.importFromDir(dir_path, fqname)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in<br>
> >> importFromDir<br>
> >> mod = load_module(part_fqname, fh, filename, desc)<br>
> >> File<br>
> >> "/tmp/buildd/python-biom-format-2.0.0+dfsg/.pybuild/pythonX.Y_2.7/build/biom/interfaces/html/config/convert.py",<br>
> >> line 57, in <module><br>
> >> Help='Process metadata associated with observations when '<br>
> >> File<br>
> >> "/usr/lib/python2.7/dist-packages/pyqi/core/interfaces/html/__init__.py",<br>
> >> line 67, in __init__<br>
> >> super(HTMLInputOption, self).__init__(Type=Type, **kwargs)<br>
> >> File "/usr/lib/python2.7/dist-packages/pyqi/core/interface.py", line<br>
> >> 239, in __init__<br>
> >> self._validate_option()<br>
> >> File<br>
> >> "/usr/lib/python2.7/dist-packages/pyqi/core/interfaces/html/__init__.py",<br>
> >> line 123, in _validate_option<br>
> >> elif type(self.Choices) not in (_type_handlers.TupleType,<br>
> >> types.ListType):<br>
> >> NameError: global name '_type_handlers' is not defined<br>
> >><br>
> >> ======================================================================<br>
> >> ERROR: Failure: ImportError (cannot import name html_list_of_strings)<br>
> >> ----------------------------------------------------------------------<br>
> >> Traceback (most recent call last):<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 414, in<br>
> >> loadTestsFromName<br>
> >> addr.filename, addr.module)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in<br>
> >> importFromPath<br>
> >> return self.importFromDir(dir_path, fqname)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in<br>
> >> importFromDir<br>
> >> mod = load_module(part_fqname, fh, filename, desc)<br>
> >> File<br>
> >> "/tmp/buildd/python-biom-format-2.0.0+dfsg/.pybuild/pythonX.Y_2.7/build/biom/interfaces/html/config/show_install_info.py",<br>
> >> line 25, in <module><br>
> >> from pyqi.core.interfaces.html.output_handler import<br>
> >> html_list_of_strings<br>
> >> ImportError: cannot import name html_list_of_strings<br>
> >><br>
> >> ======================================================================<br>
> >> ERROR: Failure: ImportError (cannot import name<br>
> >> write_or_print_list_of_strings)<br>
> >> ----------------------------------------------------------------------<br>
> >> Traceback (most recent call last):<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/loader.py", line 414, in<br>
> >> loadTestsFromName<br>
> >> addr.filename, addr.module)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 47, in<br>
> >> importFromPath<br>
> >> return self.importFromDir(dir_path, fqname)<br>
> >> File "/usr/lib/python2.7/dist-packages/nose/importer.py", line 94, in<br>
> >> importFromDir<br>
> >> mod = load_module(part_fqname, fh, filename, desc)<br>
> >> File<br>
> >> "/tmp/buildd/python-biom-format-2.0.0+dfsg/.pybuild/pythonX.Y_2.7/build/biom/interfaces/optparse/config/summarize_table.py",<br>
> >> line 23, in <module><br>
> >> from pyqi.core.interfaces.optparse.output_handler import (<br>
> >> ImportError: cannot import name write_or_print_list_of_strings<br>
> >><br>
> >> ----------------------------------------------------------------------<br>
> >> Ran 25 tests in 0.245s<br>
> >><br>
> >> FAILED (errors=3)<br>
> >> E: pybuild pybuild:256: test: plugin distutils failed with: exit code=1:<br>
> >> cd /tmp/buildd/python-biom-format-2.0.0+dfsg/.pybuild/pythonX.Y_2.7/build;<br>
> >> python2.7 -m nose --with-doctest.<br>
> >><br>
> >><br>
> >> Any hint?<br>
> >><br>
> >> Kind regards<br>
> >><br>
> >> Andreas.<br>
> >><br>
> >><br>
> >> --<br>
> >> <a href="http://fam-tille.de" target="_blank">http://fam-tille.de</a><br>
> >><br>
> ><br>
> ><br>
<br>
</div></div><span class="HOEnZb"><font color="#888888">--<br>
<a href="http://fam-tille.de" target="_blank">http://fam-tille.de</a><br>
</font></span></blockquote></div><br></div>