[Biopython] help - Biopython Install

[Peter Cock]

On Tue, May 14, 2013 at 5:07 AM, Tomlin, Joshua James
<tomlin.9 at wright.edu> wrote:
> I'm trying to install biopython on my laptop. I have mac os x 10.7.5, python 2.7, and have installed numpy I believe.
> I can run the 'import Bio' command in python without any errors but when I try run 'python setup.py test' I get 6 errors which you can see below.
>
> Basically I need to know if I have done everything I need to do correctly? If I have then why are these 6 tests failing and will that impact my future use of biopython?
>
> Thanks.
>
> Python version: 2.7.4 (v2.7.4:026ee0057e2d, Apr  6 2013, 11:43:10)
> [GCC 4.2.1 (Apple Inc. build 5666) (dot 3)]
> Operating system: posix darwin
> test_Entrez_online ... FAIL
> test_SearchIO_write ... FAIL
> test_SeqIO_index ... FAIL
> test_Tutorial ... FAIL
> test_bgzf ... FAIL
> Bio.bgzf docstring test ... FAIL
> ----------------------------------------------------------------------
> Ran 213 tests in 296.686 seconds
>
> FAILED (failures = 6)

Hi Tomlin,

I replied to your longer email with the full test output (it was
held for moderation as the email was unusually long):
http://lists.open-bio.org/pipermail/biopython/2013-May/008558.html

Peter