[Gmod-resources] Re: [GMOD-devel] Common MOD URL for genome data?

[Aaron J. M. <am...@pc...>]

I like B_name too, but I'd suggest it might be a synonym for the 
Binomial_name; NCBI Taxonomy IDs might also be valid synonyms.

Also, we're going to run into subspecies/isolate issues, e.g. 
Plasmodium_falciparum_3D7 vs. Plasmodium_falciparum_DD2.  In this case, 
I'd think that

    http://your.site/genome/P_falciparum/releases/

might provide the index/RSS for all isolates, pointing to fully-named 
directories:

    http://your.site/genome/P_falciparum_3D7/v4.4/dna

And perhaps 501 Not Implemented is better than 404 Not Found?

Todd, are you planning on implementing these handlers as part of the 
Bio::GMOD toolkit?

-Aaron

On Mar 23, 2005, at 11:02 AM, Kara Dolinski wrote:

> Looks great to me, and I like the B_name idea (vs. Binomial_name).  
> Less tricky typing is good.
>
> One suggestion on the doc, from a previous point on this thread:  we 
> might want to explicitly have a note for MODs that do not yet provide 
> all file types, something like:
>
> If your MOD does not yet provide a particular file type in this 
> specification, then the URL for the unsupported file type should 
> return a 404 Not Found
> (or text that states "This file is not yet available for this MOD" or 
> whatever behavior people think is most useful)....
>
> I think this will be a common question that will come up.
>
> On Mar 23, 2005, at 10:19 AM, Lincoln Stein wrote:
>
>> Ok, how does this look as the basis for a document that we can post at
>> the Sequence Ontology and/or GMOD web sites?
>>
>> Lincoln
>>
>> -- 
>> Lincoln D. Stein
>> Cold Spring Harbor Laboratory
>> 1 Bungtown Road
>> Cold Spring Harbor, NY 11724
>>
>> NOTE: Please copy Sandra Michelsen <mic...@cs...> on
>> all emails regarding scheduling and other time-critical topics.
>> <standard_urls.txt>
>
>
--
Aaron J. Mackey, Ph.D.
Dept. of Biology, Goddard 212
University of Pennsylvania       email:  am...@pc...
415 S. University Avenue         office: 215-898-1205
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