[Biopython] Biopython: python setup.py test
Michiel de Hoon
mjldehoon at yahoo.com
Tue Mar 11 01:43:16 UTC 2014
I have fixed the typo in github.
Best,
-Michiel.
--------------------------------------------
On Mon, 3/10/14, McCully, Dwayne (NIH/NIAMS) [C] <dmccully at mail.nih.gov> wrote:
Subject: [Biopython] Biopython: python setup.py test
To: "'biopython at lists.open-bio.org'" <biopython at lists.open-bio.org>
Date: Monday, March 10, 2014, 3:14 PM
During the testing of Biopython I get
the following error.
Should I be concerned?
Linux 6.5
Python 2.7.6
Dwayne
Bio.Statistics.lowess docstring test ... ok
Bio.PDB.Polypeptide docstring test ... ok
Bio.PDB.Selection docstring test ... ok
======================================================================
ERROR: test_read_from_url
(test_Entrez_online.EntrezOnlineCase)
Test Entrez.read from URL
----------------------------------------------------------------------
Traceback (most recent call last):
File "test_Entrez_online.py", line 44, in
test_read_from_url
rec = Entrez.read(einfo)
File
"/home/dmccully/biopython-1.63/build/lib.linux-x86_64-2.7/Bio/Entrez/__init__.py",
line 372, in read
record = handler.read(handle)
File
"/home/dmccully/biopython-1.63/build/lib.linux-x86_64-2.7/Bio/Entrez/Parser.py",
line 187, in read
self.parser.ParseFile(handle)
File
"/home/dmccully/biopython-1.63/build/lib.linux-x86_64-2.7/Bio/Entrez/Parser.py",
line 529, in externalEntityRefHandler
raise RuntimeException("Failed to access %s at
%s" % (filename, url))
NameError: global name 'RuntimeException' is not defined
----------------------------------------------------------------------
Ran 223 tests in 513.473 seconds
FAILED (failures = 1)
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