[Biopython-dev] next release closer (?)

[Cayte]

----- Original Message -----
From: "Cayte" <katel at worldpath.net>
To: "Andrew Dalke" <dalke at acm.org>; <biopython-dev at biopython.org>
Sent: Sunday, November 26, 2000 8:28 PM
Subject: Re: [Biopython-dev] next release closer (?)


>
> ----- Original Message -----
> From: "Andrew Dalke" <dalke at acm.org>
> To: <biopython-dev at biopython.org>
> Sent: Monday, November 20, 2000 9:38 PM
> Subject: Re: [Biopython-dev] next release closer (?)
>
>
> > Jeff on the error Cayte's getting:
> > >>    I get an error from test_prosite.  My OS is Win98.
> > >>
> > >> test test_prosite crashed -- exceptions.TypeError : an integer is
> > required
> > >
> > >I don't know.  Andrew?
> > >
> > >One thing you can try, is to run:
> > >python test_prosite.py
> > >
> > >and see the full stack dump that's generated.
> >
> > I would need to see the stack trace.  I cannot reproduce the error using
> > the current CVS version.
> >
> > I don't see the string "an integer is required" anywhere in the Prosite
> > code, nor in the rest of the biopython distribution.  Looking at the
> > source code for Python, that only arises during a conversion to int.
> > So I would need to find out which call to int is failing and the text
> > that it's trying to convert.
> >
> C:\biopython-0.90-d03\Tests>python test_prosite.py
> Patterns: 'A.' 'A' '(A)'
> Traceback (most recent call last):
>   File "test_prosite.py", line 88, in ?
>     m = p.search(Seq.Seq(x))
>   File "c:\biopyt~1.90-\Bio\Prosite\Pattern.py", line 168, in search
>     m = self.grouped_re.search(buffer(seq.data), pos, endpos)
> TypeError: an integer is required
>
>                                      Cayte
>
  Its OK with the laest Pattern.py