[Biopython-dev] buildbot issue on Python 3.1 - stdout?

[Peter Cock]

On Fri, Dec 14, 2012 at 12:48 PM, Wibowo Arindrarto
<w.arindrarto at gmail.com> wrote:
> Hi everyone,
>
>>> It's reproducible in my machine: Arch Linux 64 bit running
>>> Python3.1.5. Haven't figured out a fix yet, but trying to see if I
>>> can.
>>
>> Great. We haven't really proved this is down to a change in
>> either Python 3.1.4 or 3.1.5 but it does look likely.
>
> It's reproduced in my local 3.1.4 installation. Seems like an unfixed
> bug that went through to 3.1.5.

Regarding this issue with test_Emboss.py,
AttributeError: '_io.FileIO' object has no attribute 'read1'
http://lists.open-bio.org/pipermail/biopython-dev/2012-December/010156.html

I've now tried downgrading Python 3.1 on this machine, and it does
seem to be a problem under Python 3.1.4 and 3.1.5 but not 3.1.3.
For now I have simply left this buildslave running 3.1.3 instead. I
will also downgrade Python 3.1 on the second 64 bit Linux server.

That should take care of the annoying buildbot failures (and the
daily email I've been getting). This thread may help someone else
with a similar issue, but I don't feel inclined to try and explore in
any more depth what exactly is going wrong under Python 3.1.4
and 3.1.5, and if there is a Python bug we should report.

Regards,

Peter