[Biopython] PDBParser Class --> Output

[João Rodrigues]

Yup, sounds sensible, i'll patch it tomorrow!

Meanwhile, as Peter pointed out, with the warnings module it should be
pretty simple to silence these messages.

Cheers!

João [...] Rodrigues
http://doeidoei.wordpress.com



On Mon, Feb 14, 2011 at 1:04 PM, Peter Cock <p.j.a.cock at googlemail.com>wrote:

> On Mon, Feb 14, 2011 at 8:29 AM, Edvin Fuglebakk
> <edvin.fuglebakk at gmail.com> wrote:
> >
> > On 13. feb. 2011, at 18.54, Peter Cock wrote:
> >
> >> On Sun, Feb 13, 2011 at 5:39 PM, Willis, Jordan R
> >> <jordan.r.willis at vanderbilt.edu> wrote:
> >>> 1.56,
> >>>
> >>> As it turns out, our molecular modeling suite does not output an
> >>> element field.
> >>
> >> Could you ask the authors to populate this field?
> >
> > I would just like to comment on this remark that prior to pdb 2.0 there
> were no
> > slots for element symbols in the ATOM / HETATM records. So it is probably
> > not uncommon for old software to not populate this field. I have
> encountered
> > missing elements myself from time to time.
> >
> > cheers
> > -Edvin
>
> Hmm - thinking out loud, maybe the warning could be silenced when the PDB
> parser is used in permissive mode? Does that sound possible João?
>
> Peter
>
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