[Biopython] Getting apparently spurious errors when running tests

[Dougherty, Gregory T., M.S.]

Thank you Peter.

Should I take from this that my installation of BioPython is correct?
-- 
Gregory Dougherty
Sr. Analyst/Programmer | Information Technology
Information Technology
(507) 284-8493 | dougherty.gregory at mayo.edu



On 2/20/18, 3:46 AM, "Peter Cock" <p.j.a.cock at googlemail.com> wrote:

>Hi Gregory,
>
>The good news is these two issues are harmless.
>
>ExPASy HTTP vs HTTPS has been fixed:
>https://github.com/biopython/biopython/pull/1428
>
>The second issue is white space differences in NumPy 1.14,
>which we have not yet properly resolved:
>
>https://github.com/biopython/biopython/issues/1496
>
>Peter
>
>On Tue, Feb 20, 2018 at 3:52 AM, Dougherty, Gregory T., M.S.
><Dougherty.Gregory at mayo.edu> wrote:
>> Installed biopython 1.7 running under anaconda installed python 2.7.14
>>
>> $ cd ../../biopython-1.70/Tests/
>> $ python run_tests.py
>> Python version: 2.7.14 |Anaconda, Inc.| (default, Dec  7 2017, 17:05:42)
>> [GCC 7.2.0]
>> Operating system: posix linux2
>> ...
>> Bio.SVDSuperimposer docstring test ... FAIL
>>======================================================================
>>FAIL: test_prodoc_html (test_ExPASy.ExPASyOnlineTests)
>>======================================================================
>>FAIL: test_prosite_html (test_ExPASy.ExPASyOnlineTests)
>>======================================================================
>>FAIL: Record (Bio.Affy.CelFile)
>> Doctest: Bio.Affy.CelFile.Record
>>======================================================================
>> FAIL: SVDSuperimposer (Bio.SVDSuperimposer)
>> Doctest: Bio.SVDSuperimposer.SVDSuperimposer
>>----------------------------------------------------------------------
>> Ran 274 tests in 520.026 seconds
>>
>> FAILED (failures = 3)
>>
>> --
>> Gregory Dougherty
>> Sr. Analyst/Programmer
>> Information Technology
>>
>>
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>