[BioRuby] URL Generation in Bioruby

[Ben Woodcroft]

Thanks for your response. I would have thought the fact that they change is
more reason to include it - not less.

Is that database you speak of freely available? Just as part of the AceDB
download?

Thanks,
ben

2008/10/10 Michael Han <mh6 at sanger.ac.uk>

>
> On 10 Oct 2008, at 05:18, Ben Woodcroft wrote:
>
> Hi list,
>
> A common thing I find myself doing is to 'linkout' to other databases. For
> instance, I have a PDB id and I want to link to the corresponding record in
> pdb.org. Right now, I would have to go to the pdb site and try to reverse
> engineer it. In the past I've even had to email the webmasters for more
> information. It seems to me this is a duplication of effort, and so
> class(es) to collect this information for me might have a place in BioRuby.
>
> Does this sound reasonable to anyone? Is there any precendents out there?
> What might be a good way to structure the code?
>
> Thanks,
> ben
>
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>
> Hi Ben,
>
> what we did is save URL constructors in an database object in a sprintf
> style, which is in turn used by the xref objects linked to
> genes/proteins/etc.
> Anyway I am not sure if it is a good idea to put it in the bioruby library,
> as when you have a couple of dozens of different database, you can be sure
> that one URL will change every few days/weeks, so it is a hassle to keep all
> of them up-to-date.
> Michael
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-- 
FYI: My email addresses at unimelb, uq and gmail all redirect to the same
place.