[Biopython-dev] [Bug 2882] New: Unnamed variable used to raise Exception in /Bio/SwissProt/__init__.py
bugzilla-daemon at portal.open-bio.org
bugzilla-daemon at portal.open-bio.org
Tue Jul 21 15:21:35 UTC 2009
http://bugzilla.open-bio.org/show_bug.cgi?id=2882
Summary: Unnamed variable used to raise Exception in
/Bio/SwissProt/__init__.py
Product: Biopython
Version: 1.51b
Platform: All
OS/Version: All
Status: NEW
Severity: normal
Priority: P2
Component: Main Distribution
AssignedTo: biopython-dev at biopython.org
ReportedBy: sjcockell at gmail.com
When raising a ValueError on finding an unknown key in a SwissProt record,
Bio.SwissProt.__init__._read() references the undefined 'keyword' instead of
the expected 'key'.
Instead of raising a ValueError, a NameError is raised:
Traceback (most recent call last):
File "goClass.py", line 31, in <module>
main('tubulin')
File "goClass.py", line 23, in main
record = SwissProt.read(handle)
File
"[...]/biopython-1.51b/build/lib.macosx-10.5-i386-2.5/Bio/SwissProt/__init__.py",
line 120, in read
record = _read(handle)
File
"[...]/biopython-1.51b/build/lib.macosx-10.5-i386-2.5/Bio/SwissProt/__init__.py",
line 236, in _read
raise ValueError("Unknown keyword %s found" % keyword)
NameError: global name 'keyword' is not defined
Fixed by the following patch file:
"
240c240
< raise ValueError("Unknown keyword %s found" % keyword)
---
> raise ValueError("Unknown keyword %s found" % key)
"
Regards
Simon
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