[Biopython-dev] [Bug 2511] New: setup.py problem with del sys.modules["Martel"]
bugzilla-daemon at portal.open-bio.org
bugzilla-daemon at portal.open-bio.org
Mon Jun 9 08:45:24 EDT 2008
http://bugzilla.open-bio.org/show_bug.cgi?id=2511
Summary: setup.py problem with del sys.modules["Martel"]
Product: Biopython
Version: Not Applicable
Platform: PC
OS/Version: Mac OS
Status: NEW
Severity: normal
Priority: P2
Component: Main Distribution
AssignedTo: biopython-dev at biopython.org
ReportedBy: biopython-bugzilla at maubp.freeserve.co.uk
I'm currently trying to install Biopython from source (CVS) on a clean Mac OS X
machine, without reportlab, Numeric or mxTextTools. I've run into a small
issue with "python setup.py build" related to the testing for an existing
Martel distribution (since Martel has been distributed separately from
Biopython before) due to the lack of mxTextTools.
Traceback (most recent call last):
File "setup.py", line 508, in <module>
'Bio.PopGen': ['SimCoal/data/*.par'],
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/core.py",
line 151, in setup
dist.run_commands()
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/dist.py",
line 974, in run_commands
self.run_command(cmd)
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/dist.py",
line 994, in run_command
cmd_obj.run()
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/command/build.py",
line 112, in run
self.run_command(cmd_name)
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/cmd.py",
line 333, in run_command
self.distribution.run_command(command)
File
"/Library/Frameworks/Python.framework/Versions/2.5/lib/python2.5/distutils/dist.py",
line 994, in run_command
cmd_obj.run()
File "setup.py", line 157, in run
if not is_Martel_installed():
File "setup.py", line 292, in is_Martel_installed
del sys.modules["Martel"] # Delete the old version of Martel.
The function is_Martel_installed() starts by trying to load the bundled
Martel, by calling can_import("Martel"). This is failing with an ImportError
from mxTextTools - and hence the Martel version of the bundled copy cannot be
determined. The next line of is_Martel_installed() causes the problem:
del sys.modules["Martel"]
I think this only makes sense if the module could be imported, patch to follow.
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