[Biopython-dev] TogoWS test failure, was: Compiling Biopython on 64 bit Windows

Sat Apr 19 08:23:35 EDT 2014

The TogoWS team confirmed this is a problem with the
server and expect it to be fixed shortly.

Peter

On Fri, Apr 18, 2014 at 9:57 PM, Manlio Calvi <manlio.calvi at gmail.com> wrote:
> Maybe they did a slight change to the output and thought was so minor that
> no one get disturbed by it. However if remain in this form I think it's not
> too difficult extract it with a regex.
>
> I haven't time to look to the other issues in the Win 64 build raised, they
> are different from python 2.7 to 3.4.
>
> I'll build manually more or less once a day until we get the buildbot in
> order. If something else get raised up, I'll post here.
>
> Manlio
>
>
> On Fri, Apr 18, 2014 at 10:24 PM, Peter Cock <p.j.a.cock at googlemail.com>
> wrote:
>>
>> Thanks Lenna,
>>
>> Strange - although I was sure it was working perfectly on Linux
>> at work this afternoon, I can reproduce this as well now.
>>
>> This commit adds a more informative error message:
>>
>> https://github.com/biopython/biopython/commit/e5c656e7ce7496db0291f0055da61c492c5054aa
>>
>> e.g.
>>
>> ValueError: Expected an integer from URL
>> http://togows.dbcls.jp/search/pubmed/TogoWS/count, got: '<!DOCTYPE
>> html PUBLIC "-//W3C//DTD XHTML 1.0 Strict//EN"
>> "http://www.w3.org/TR/xhtml1/DTD/xhtml1-strict.dtd">\n<html
>> xmlns="http://www.w3.org/1999/xhtml">\n<head>\n  <meta
>> http-equiv="Content-Type" content="text/html; charset=UTF-8"
>> />\n</head>\n<body>\n<div>1</div>\n\n</body>\n</html>\n'
>>
>> i.e. Rather than plain text, it is HTML with the value
>> inside a <div> tag. This may be a content negotiation
>> problem, but I will raise this with the TogoWS team.
>>
>> Manlio - we can ignore this for now for 64 bit Windows
>> testing,
>>
>> Thanks,
>>
>> Peter
>>