[Tdwg-guid] Simple LSID resolver
Roderic Page
r.page at bio.gla.ac.uk
Thu Jun 15 13:20:08 CEST 2006
OK, I've grabbed lsidres.org, so to resolve a LSID straight to
metadata, stick http://lsidres.org in front of the LSID, e.g.:
urn:lsid:lsid.zoology.gla.ac.uk:predicates:objectiveSynonym
becomes
http://lsidres.org/urn:lsid:lsid.zoology.gla.ac.uk:predicates:
objectiveSynonym
and
urn:lsid:ubio.org:namebank:2735664
becomes
http://lsidres.org/urn:lsid:ubio.org:namebank:2735664
So now, it's as easy as DOIs...
Regards
Rod
On 15 Jun 2006, at 11:56, Roderic Page wrote:
> Dear Kevin,
>
> The reasons against doing what you suggest (which I agree works in most
> cases) are:
>
> 1. An LSID with authority example.org need not be handled by
> example.org. For example, ipni.org resolves to
> http://beta.ipni.org:9090
>
> 2. You're assuming that we're all going to use port 80, whereas some
> may serve metadata and data over a different port (e.g., IPNI use
> 9090).
>
> 3. I feel having a standard prefix before the LSID that remains the
> same makes it easier for people to remember (i.e., we don't have to
> think, "gee, so what bit of the LSID to I extract, and what was that
> mumbo jumbo I stick on the end?"). Probably we should make it even
> simpler by grabbing a short domain name to make it even easier.
> Remember, DOIs make it simple - just tack the DOI onto the end of
> http://dx.doi.org, and it's resolved.
>
> Regards
>
> Rod
>
>
>
>
>
>
>
> On 15 Jun 2006, at 10:32, Kevin Richards wrote:
>
>> The theory is that most lsid resolvers/authorities will implement the
>> http get protocol for resolving lsids.
>> This means that:
>>
>> http://example.org/authority/?lsid=urn:lsid.... will return the wsdl
>> equivalent to the getAvailableServices SOAP call
>>
>> http://example.org/authority/data/?lsid=urn:lsid... will return the
>> data
>> for that lsid
>>
>> http://example.org/authority/metadata/?lsid=urn:lsid... will return
>> the
>> metadata for that lsid
>>
>> so why not just use these urls if you want to use urls?
>>
>> Kevin
>>
>>>>> Roderic Page <r.page at bio.gla.ac.uk> 06/15/06 10:13 AM >>>
>> Dear Steve,
>>
>> It's written in PHP, and is basically a cleaner version of the LSID
>> test. I developed it on my iBook running Apache and PHP 4.3.10, and
>> deployed it on Fedora Core 4 with PHP 5. I've not tested it on
>> Windows,
>>
>> the issue would be whether the Net:DNS module I use to do the
>> resolution also works on Windows (who in their right mind uses Windows
>> as a server ;-)
>>
>> Yep, the error reporting is bad, but I could work on this. It tries to
>> trap some errors and report them in XML, but I put it together when I
>> should have been listening to the talks at GUID2, so it's a bit rough
>> and ready.
>>
>> Having a HTTP GET service sounds like a good idea, if it helps people
>> play with this stuff. Maybe it could be as simple as a convention that
>> if the "LSID" lacks a namespace and id (i.e., is just the authority)
>> the service returns metadata about the authority. For data, perhaps
>> the
>>
>> prefix "data" could be inserted before the LSID, rather like a lot of
>> static URLs have the format of the data embedded in them, such as
>> http://www.connotea.org/rss/recent/user/rdmpage?q=Formicidae (an RSS
>> feed).
>>
>> Not elegant, but simple.
>>
>> Regards
>>
>> Rod
>>
>>
>> On 14 Jun 2006, at 17:07, Steven Perry wrote:
>>
>>> Hi Rod,
>>>
>>> This is pretty cool. What language is it in? What kind of server
>>> does it require (application server, apache, etc.)?
>>> When I tried to put in an LSID that I knew didn't exist, I got an XML
>>
>>> parsing error. No worries, since this is an early prototype, but I
>>> was wondering if you're planning on trapping these kinds of errors
>>> and
>>
>>> returning an HTTP status code like 204 (NO_CONTENT), 404 (NOT_FOUND),
>>
>>> or 410 (GONE), or if you had something else in mind.
>>>
>>> I've also been thinking about an HTTP-GET based LSID resolution
>>> gateway that might be exposed as a service. It could support several
>>
>>> additional functions besides (the default) getMetadata():
>>>
>>> getAuthorityInfo :: given an LSID, return information (in RDF) about
>>> the authority extracted from the authority metadata
>>> getData:: might work a bit differently from the spec in that it
>>> always
>>
>>> sends through HTTP and it tries to set the correct mime type.
>>>
>>> However getMetadata is the critical function and these others may
>>> not,
>>
>>> upon more reflection, make much sense.
>>>
>>> Given that we want to be able to integrate with existing semantic web
>>
>>> apps and tools that can't currently understand the LSID resolution
>>> process, I think we'll come to depend upon these kinds of services.
>>> They also provide convenience to developers who are working with
>>> languages that don't yet have a resolution client API. It might be
>>> nice to work out how such a service ought to behave and present it to
>>
>>> TAG.
>>>
>>> -Steve
>>>
>>>
>>> Roderic Page wrote:
>>>> It was good to see everybody who made it to sunny Edinburgh over the
>>
>>>> weekend.
>>>>
>>>> I've put together a very simple LSID resolver that returns RDF
>>>> metadata for a LSID. I wanted something very simple, so all you do
>>>> is stick your LSID on the end of http://lsid.zoology.gla.ac.uk/,
>>>> e.g.
>>>>
>>>> http://lsid.zoology.gla.ac.uk/urn:lsid:ubio.org:namebank:2735664
>>>>
>>>> http://lsid.zoology.gla.ac.uk/urn:lsid:lsid.zoology.gla.ac.uk:
>>>> predicate:isBasionymOf
>>>>
>>>> It's far from bullet proof, and not as pretty as other resolvers.
>>>> However, it means you see the RDF straight away, and if you wanted
>>>> to
>>
>>>> aggregate the RDF for a LSID you could use this to do the
>>>> resolution
>>
>>>> for you.
>>>>
>>>> Regards
>>>>
>>>> Rod
>>>>
>>>>
>>>>
>> ----------------------------------------------------------------------
>>>> -- ----------------------------------------
>>>> Professor Roderic D. M. Page
>>>> Editor, Systematic Biology
>>>> DEEB, IBLS
>>>> Graham Kerr Building
>>>> University of Glasgow
>>>> Glasgow G12 8QP
>>>> United Kingdom
>>>>
>>>> Phone: +44 141 330 4778
>>>> Fax: +44 141 330 2792
>>>> email: r.page at bio.gla.ac.uk
>>>> web: http://taxonomy.zoology.gla.ac.uk/rod/rod.html
>>>> reprints: http://taxonomy.zoology.gla.ac.uk/rod/pubs.html
>>>>
>>>> Subscribe to Systematic Biology through the Society of Systematic
>>>> Biologists Website: http://systematicbiology.org
>>>> Search for taxon names:
>> http://darwin.zoology.gla.ac.uk/~rpage/portal/
>>>> Find out what we know about a species: http://ispecies.org
>>>> Rod's rants on phyloinformatics: http://iphylo.blogspot.com
>>>>
>>>>
>>>> _______________________________________________
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>>>> TDWG-GUID at mailman.nhm.ku.edu
>>>> http://mailman.nhm.ku.edu/mailman/listinfo/tdwg-guid
>>>>
>>>
>>>
>>>
>> ----------------------------------------------------------------------
>> -
>> -
>>
>> ----------------------------------------
>> Professor Roderic D. M. Page
>> Editor, Systematic Biology
>> DEEB, IBLS
>> Graham Kerr Building
>> University of Glasgow
>> Glasgow G12 8QP
>> United Kingdom
>>
>> Phone: +44 141 330 4778
>> Fax: +44 141 330 2792
>> email: r.page at bio.gla.ac.uk
>> web: http://taxonomy.zoology.gla.ac.uk/rod/rod.html
>> iChat: aim://rodpage1962
>> reprints: http://taxonomy.zoology.gla.ac.uk/rod/pubs.html
>>
>> Subscribe to Systematic Biology through the Society of Systematic
>> Biologists Website: http://systematicbiology.org
>> Search for taxon names: http://darwin.zoology.gla.ac.uk/~rpage/portal/
>> Find out what we know about a species: http://ispecies.org
>> Rod's rants on phyloinformatics: http://iphylo.blogspot.com
>>
>>
>>
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> -----------------------------------------------------------------------
> -
> ----------------------------------------
> Professor Roderic D. M. Page
> Editor, Systematic Biology
> DEEB, IBLS
> Graham Kerr Building
> University of Glasgow
> Glasgow G12 8QP
> United Kingdom
>
> Phone: +44 141 330 4778
> Fax: +44 141 330 2792
> email: r.page at bio.gla.ac.uk
> web: http://taxonomy.zoology.gla.ac.uk/rod/rod.html
> iChat: aim://rodpage1962
> reprints: http://taxonomy.zoology.gla.ac.uk/rod/pubs.html
>
> Subscribe to Systematic Biology through the Society of Systematic
> Biologists Website: http://systematicbiology.org
> Search for taxon names: http://darwin.zoology.gla.ac.uk/~rpage/portal/
> Find out what we know about a species: http://ispecies.org
> Rod's rants on phyloinformatics: http://iphylo.blogspot.com
>
>
>
> _______________________________________________
> TDWG-GUID mailing list
> TDWG-GUID at mailman.nhm.ku.edu
> http://mailman.nhm.ku.edu/mailman/listinfo/tdwg-guid
>
>
------------------------------------------------------------------------
----------------------------------------
Professor Roderic D. M. Page
Editor, Systematic Biology
DEEB, IBLS
Graham Kerr Building
University of Glasgow
Glasgow G12 8QP
United Kingdom
Phone: +44 141 330 4778
Fax: +44 141 330 2792
email: r.page at bio.gla.ac.uk
web: http://taxonomy.zoology.gla.ac.uk/rod/rod.html
iChat: aim://rodpage1962
reprints: http://taxonomy.zoology.gla.ac.uk/rod/pubs.html
Subscribe to Systematic Biology through the Society of Systematic
Biologists Website: http://systematicbiology.org
Search for taxon names: http://darwin.zoology.gla.ac.uk/~rpage/portal/
Find out what we know about a species: http://ispecies.org
Rod's rants on phyloinformatics: http://iphylo.blogspot.com
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