January 2006 - tdwg-tag - lists.tdwg.org

Re: Breakout groups and volunteers to take notes
by Kevin Thiele 25 Jan '06

25 Jan '06

How about trying for an "Other" breakout group? - this would make three. Our interest at the meeting will be in using GUIDs for descriptive characters and states, so we fit under neither group. But if we had a breakout for that specific topic, it might be a bit lonely (good for getting agreement within the group, as Jesse points out). -k -----Original Message----- From: Taxonomic Databases Working Group GUID Project [mailto:TDWG-GUID@LISTSERV.NHM.KU.EDU] On Behalf Of Ricardo Scachetti Pereira Sent: Tuesday, 24 January 2006 11:01 PM To: TDWG-GUID(a)LISTSERV.NHM.KU.EDU Subject: Breakout groups and volunteers to take notes Dear GUID-1 Workshop Participants, On the 2nd day of our workshop, we are planning on having two breakout groups to discuss in parallel the specific needs of different data domains regarding GUIDs. So far we have two breakout groups planned: - Taxonomic Names and Concepts, to be convened by Jessie Kennedy (thanks Jessie for kindly accepting our invitation!), and - Specimen and Collection Data, to be convened by me. So I have some requests regarding the breakout groups: 1) Please choose the group you would like to participate based on your work and affinity. I will make a headcount (probably via a show of hands) on the first day of the workshop so we can allocate the appropriate room for each group. 2) We need volunteers to take notes about our discussions and the decisions we make during the breakout and the main sessions. We need at least one volunteer for each breakout session and one or more to take notes during the main sessions. We need to know who the volunteers will be before the meeting. 3) If you feel that we should have additional breakout groups to discuss specific needs of other data domains (ecological, observation, and genomic data, for example), please let me know as soon as possible, so we can discuss the possibility and make the appropriate arrangements (recruit a convener, a secretary, and participants, allocate a room, etc). Thank you very much for your help. Best regards, Ricardo

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Re: Breakout groups and volunteers to take notes
by Bob Morris 24 Jan '06

24 Jan '06

Somewhere in a monitoring and/or a descriptive data breakout or both, don't forget to consider multimedia objects. JPEG2000 presents special problems because its serializations can have multiple media and XML packages in a single file. All are addressable with internet URLs which depend on the server offering the file. Which gets the GUID, the file object or the content pieces? This must be a generic GUID problem for composite objects. Sounds like an interesting party. Kevin will bring me the news when we meet up in Agadir. Bob Matt Jones wrote: > I think a focus on GUIDs for ecological and environmental montitoring > and experimental data would be good. Ricardo wrote to me about this > topic before but I was unable to respond at the time. Nevertheless, I > would be happy to participate in such a group, and even take some > responsibility if others are interested. Anyone else interested in this > topic? > > Matt > > > -----Original Message----- > >> From: Taxonomic Databases Working Group GUID Project >> [mailto:TDWG-GUID@LISTSERV.NHM.KU.EDU] On Behalf Of Ricardo Scachetti >> Pereira >> Sent: Tuesday, 24 January 2006 11:01 PM >> To: TDWG-GUID(a)LISTSERV.NHM.KU.EDU >> Subject: Breakout groups and volunteers to take notes >> >> Dear GUID-1 Workshop Participants, >> >> On the 2nd day of our workshop, we are planning on having two >> breakout groups to discuss in parallel the specific needs of different >> data domains regarding GUIDs. So far we have two breakout groups >> planned: >> >> - Taxonomic Names and Concepts, to be convened by Jessie Kennedy (thanks >> Jessie for kindly accepting our invitation!), and >> - Specimen and Collection Data, to be convened by me. >> >> So I have some requests regarding the breakout groups: >> >> 1) Please choose the group you would like to participate based on your >> work and affinity. I will make a headcount (probably via a show of >> hands) on the first day of the workshop so we can allocate the >> appropriate room for each group. >> >> 2) We need volunteers to take notes about our discussions and the >> decisions we make during the breakout and the main sessions. We need at >> least one volunteer for each breakout session and one or more to take >> notes during the main sessions. We need to know who the volunteers will >> be before the meeting. >> >> 3) If you feel that we should have additional breakout groups to discuss >> specific needs of other data domains (ecological, observation, and >> genomic data, for example), please let me know as soon as possible, so >> we can discuss the possibility and make the appropriate arrangements >> (recruit a convener, a secretary, and participants, allocate a room, >> etc). >> >> Thank you very much for your help. >> >> Best regards, >> >> Ricardo > > > -- > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ > Matt Jones Ph: 907-789-0496 > jones(a)nceas.ucsb.edu SIP #: 1-747-626-7082 > National Center for Ecological Analysis and Synthesis (NCEAS) > UC Santa Barbara http://www.nceas.ucsb.edu/ecoinformatics > ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ -- Robert A. Morris Professor of Computer Science UMASS-Boston ram(a)cs.umb.edu http://www.cs.umb.edu/efg http://www.cs.umb.edu/~ram phone (+1)617 287 6466

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Re: Breakout groups and volunteers to take notes
by Sally Hinchcliffe 24 Jan '06

24 Jan '06

I agree I'm torn already between the names and the specimens because although I am going with my IPNI hat on (hence names) I will also be thinking about it from the point of view of Kew's own specimen collections... Sally > Hi Ricardo > > I hope there aren't too many breakout groups. If so it might be easier > to get consensus in a smaller breakout but then we might have problems > getting consensus between the groups....just a thought. > > Jessie > > > -----Original Message----- > > From: Taxonomic Databases Working Group GUID Project [mailto:TDWG- > > GUID(a)LISTSERV.NHM.KU.EDU] On Behalf Of Ricardo Scachetti Pereira > > Sent: 24 January 2006 12:01 > > To: TDWG-GUID(a)LISTSERV.NHM.KU.EDU > > Subject: Breakout groups and volunteers to take notes > > > > Dear GUID-1 Workshop Participants, > > > > On the 2nd day of our workshop, we are planning on having two > > breakout groups to discuss in parallel the specific needs of different > > data domains regarding GUIDs. So far we have two breakout groups > planned: > > > > - Taxonomic Names and Concepts, to be convened by Jessie Kennedy > (thanks > > Jessie for kindly accepting our invitation!), and > > - Specimen and Collection Data, to be convened by me. > > > > So I have some requests regarding the breakout groups: > > > > 1) Please choose the group you would like to participate based on your > > work and affinity. I will make a headcount (probably via a show of > > hands) on the first day of the workshop so we can allocate the > > appropriate room for each group. > > > > 2) We need volunteers to take notes about our discussions and the > > decisions we make during the breakout and the main sessions. We need > at > > least one volunteer for each breakout session and one or more to take > > notes during the main sessions. We need to know who the volunteers > will > > be before the meeting. > > > > 3) If you feel that we should have additional breakout groups to > discuss > > specific needs of other data domains (ecological, observation, and > > genomic data, for example), please let me know as soon as possible, so > > we can discuss the possibility and make the appropriate arrangements > > (recruit a convener, a secretary, and participants, allocate a room, > etc). > > > > Thank you very much for your help. > > > > Best regards, > > > > Ricardo > This message is intended for the addressee(s) only and should not be read, copied or disclosed to anyone else outwith the University without the permission of the sender. > It is your responsibility to ensure that this message and any attachments are scanned for viruses or other defects. Napier University does not accept liability for any loss > or damage which may result from this email or any attachment, or for errors or omissions arising after it was sent. Email is not a secure medium. Email entering the > University's system is subject to routine monitoring and filtering by the University. *** Sally Hinchcliffe *** Computer section, Royal Botanic Gardens, Kew *** tel: +44 (0)20 8332 5708 *** S.Hinchcliffe(a)rbgkew.org.uk

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Re: Breakout groups and volunteers to take notes
by Matt Jones 24 Jan '06

24 Jan '06

I think a focus on GUIDs for ecological and environmental montitoring and experimental data would be good. Ricardo wrote to me about this topic before but I was unable to respond at the time. Nevertheless, I would be happy to participate in such a group, and even take some responsibility if others are interested. Anyone else interested in this topic? Matt > -----Original Message----- > From: Taxonomic Databases Working Group GUID Project > [mailto:TDWG-GUID@LISTSERV.NHM.KU.EDU] On Behalf Of Ricardo Scachetti > Pereira > Sent: Tuesday, 24 January 2006 11:01 PM > To: TDWG-GUID(a)LISTSERV.NHM.KU.EDU > Subject: Breakout groups and volunteers to take notes > > Dear GUID-1 Workshop Participants, > > On the 2nd day of our workshop, we are planning on having two > breakout groups to discuss in parallel the specific needs of different > data domains regarding GUIDs. So far we have two breakout groups planned: > > - Taxonomic Names and Concepts, to be convened by Jessie Kennedy (thanks > Jessie for kindly accepting our invitation!), and > - Specimen and Collection Data, to be convened by me. > > So I have some requests regarding the breakout groups: > > 1) Please choose the group you would like to participate based on your > work and affinity. I will make a headcount (probably via a show of > hands) on the first day of the workshop so we can allocate the > appropriate room for each group. > > 2) We need volunteers to take notes about our discussions and the > decisions we make during the breakout and the main sessions. We need at > least one volunteer for each breakout session and one or more to take > notes during the main sessions. We need to know who the volunteers will > be before the meeting. > > 3) If you feel that we should have additional breakout groups to discuss > specific needs of other data domains (ecological, observation, and > genomic data, for example), please let me know as soon as possible, so > we can discuss the possibility and make the appropriate arrangements > (recruit a convener, a secretary, and participants, allocate a room, etc). > > Thank you very much for your help. > > Best regards, > > Ricardo -- ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Matt Jones Ph: 907-789-0496 jones(a)nceas.ucsb.edu SIP #: 1-747-626-7082 National Center for Ecological Analysis and Synthesis (NCEAS) UC Santa Barbara http://www.nceas.ucsb.edu/ecoinformatics ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

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Re: Breakout groups and volunteers to take notes
by Kennedy, Jessie 24 Jan '06

24 Jan '06

Hi Ricardo I hope there aren't too many breakout groups. If so it might be easier to get consensus in a smaller breakout but then we might have problems getting consensus between the groups....just a thought. Jessie > -----Original Message----- > From: Taxonomic Databases Working Group GUID Project [mailto:TDWG- > GUID(a)LISTSERV.NHM.KU.EDU] On Behalf Of Ricardo Scachetti Pereira > Sent: 24 January 2006 12:01 > To: TDWG-GUID(a)LISTSERV.NHM.KU.EDU > Subject: Breakout groups and volunteers to take notes > > Dear GUID-1 Workshop Participants, > > On the 2nd day of our workshop, we are planning on having two > breakout groups to discuss in parallel the specific needs of different > data domains regarding GUIDs. So far we have two breakout groups planned: > > - Taxonomic Names and Concepts, to be convened by Jessie Kennedy (thanks > Jessie for kindly accepting our invitation!), and > - Specimen and Collection Data, to be convened by me. > > So I have some requests regarding the breakout groups: > > 1) Please choose the group you would like to participate based on your > work and affinity. I will make a headcount (probably via a show of > hands) on the first day of the workshop so we can allocate the > appropriate room for each group. > > 2) We need volunteers to take notes about our discussions and the > decisions we make during the breakout and the main sessions. We need at > least one volunteer for each breakout session and one or more to take > notes during the main sessions. We need to know who the volunteers will > be before the meeting. > > 3) If you feel that we should have additional breakout groups to discuss > specific needs of other data domains (ecological, observation, and > genomic data, for example), please let me know as soon as possible, so > we can discuss the possibility and make the appropriate arrangements > (recruit a convener, a secretary, and participants, allocate a room, etc). > > Thank you very much for your help. > > Best regards, > > Ricardo This message is intended for the addressee(s) only and should not be read, copied or disclosed to anyone else outwith the University without the permission of the sender. It is your responsibility to ensure that this message and any attachments are scanned for viruses or other defects. Napier University does not accept liability for any loss or damage which may result from this email or any attachment, or for errors or omissions arising after it was sent. Email is not a secure medium. Email entering the University's system is subject to routine monitoring and filtering by the University.

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Re: Breakout groups and volunteers to take notes
by Ricardo Scachetti Pereira 24 Jan '06

24 Jan '06

Jessie, Thanks for pointint that out. We are looking at 3 groups at most. So there may be room for one more breakout group to discuss other kinds of data, and maybe discuss external linkage from the core data domains. Otherwise we will factor in some time for the entire group to discuss that subject. Ricardo Kennedy, Jessie wrote: >Hi Ricardo > >I hope there aren't too many breakout groups. If so it might be easier >to get consensus in a smaller breakout but then we might have problems >getting consensus between the groups....just a thought. > >Jessie > >

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Breakout groups and volunteers to take notes
by Ricardo Scachetti Pereira 24 Jan '06

24 Jan '06

Dear GUID-1 Workshop Participants, On the 2nd day of our workshop, we are planning on having two breakout groups to discuss in parallel the specific needs of different data domains regarding GUIDs. So far we have two breakout groups planned: - Taxonomic Names and Concepts, to be convened by Jessie Kennedy (thanks Jessie for kindly accepting our invitation!), and - Specimen and Collection Data, to be convened by me. So I have some requests regarding the breakout groups: 1) Please choose the group you would like to participate based on your work and affinity. I will make a headcount (probably via a show of hands) on the first day of the workshop so we can allocate the appropriate room for each group. 2) We need volunteers to take notes about our discussions and the decisions we make during the breakout and the main sessions. We need at least one volunteer for each breakout session and one or more to take notes during the main sessions. We need to know who the volunteers will be before the meeting. 3) If you feel that we should have additional breakout groups to discuss specific needs of other data domains (ecological, observation, and genomic data, for example), please let me know as soon as possible, so we can discuss the possibility and make the appropriate arrangements (recruit a convener, a secretary, and participants, allocate a room, etc). Thank you very much for your help. Best regards, Ricardo

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Re: greetings
by Ricardo Scachetti Pereira 23 Jan '06

23 Jan '06

Ben There is no predefined slide template for the workshop. Please use whatever suits you best. Cheers, Ricardo Benjamin H Szekely wrote: > > Hi, > Is there a preferred slide template for the workshop? Otherwise, > I will just use the basic IBM template. > > - Ben

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Re: greetings
by Benjamin H Szekely 23 Jan '06

23 Jan '06

Hi, Is there a preferred slide template for the workshop? Otherwise, I will just use the basic IBM template. - Ben Taxonomic Databases Working Group GUID Project <TDWG-GUID(a)LISTSERV.NHM.KU.EDU> wrote on 01/20/2006 07:48:06 AM: > Ben, > > Thank you very much for sharing the outline of your presentation > with us. It certainly seems ideal for our purposes. > > We would be very interested in picking your brains on wider semantic > interoperability issues during the workshop. > > Regarding LSIDs specifically, our biggest challange is to find an > appropriate way to define stable byte-identical data for our objects. We > have therefore been thinking mostly of turning everything to metadata. > We would be very interested in knowing what your thoughts are regarding > that issue. > > Best regards, > > Ricardo > > Benjamin H Szekely wrote: > > > > > Hi All, > > Thank you again for including me in your workshop. From reading > > Rod's paper and many of the following comments, it seems that this > > community is certainly on the right track and shares a similar vision > > for LSIDs and metadata to that of our development team here in > > Cambridge, MA. I encourage anybody to ask questions on the list about > > LSID or Semantic Web technology in general. Our team has been elbow > > deep in the Semantic Web for 3 years and have been working on a wide > > variety of projects outside of LSID including Storage and replication, > > annotation, workflow, and RDF-based user interfaces, > > > > I am tentatively planning to organize my talk as follows: > > > > - Overview of LSID (10-15 minutes) > > > > - Survey of global LSID participation (10-15 minutes) > > > > - Brief overview of IBM Cambridge Semantic Web projects (5 minutes) > > > > I am certainly open to reorganization. I'm not planning on discussing > > too many technical and implementation details, but I'd be happy to > > discuss these throughout the week at the workshop. > > > > - Ben

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Re: [tdwg-tapir] FAQ page
by Chuck.Miller＠mobot.org 20 Jan '06

20 Jan '06

Hopefully we can at least arrive in the future at a single GBIF UDDI for all data exchange providers. Chuck -----Original Message----- From: "Döring, Markus" [mailto:m.doering@BGBM.org] Sent: Tuesday, January 17, 2006 10:49 AM To: Chuck.Miller(a)mobot.org; tdwg-tapir(a)lists.tdwg.org Cc: Berendsohn, Walter G. Subject: AW: [tdwg-tapir] FAQ page Chuck, The original BioCASE uses its own registry for service discovery, has its own kind of cache and discovers availble data elements (concepts) through the biocase wrappers(=services) themselves. This "capability" request does also exist in TAPIR. So a service can technically describe itself to clients. The current work on BioCASE makes use of the GBIF UDDI, but adds some extra data to it (mainly for statistics). Markus -----Ursprüngliche Nachricht----- Von: Chuck.Miller(a)mobot.org [mailto:Chuck.Miller@mobot.org] Gesendet: Dienstag, 17. Januar 2006 15:57 An: Döring, Markus; Chuck.Miller(a)mobot.org; tdwg-tapir(a)lists.tdwg.org Cc: Berendsohn, Walter G. Betreff: RE: [tdwg-tapir] FAQ page Thanks, Markus. That helps add more to the ontology of data exchange. But, you also added another term - wrapper. So, we have services, wrappers, protocols, providers and portals. Still confusing to most I'm afraid. My general request is for "someone" to produce a single document that organizes it all into a form understandable by the non-programmers. Also, does BioCASE use UDDI for discovery of the provider metadata and the data elements available from the provider/wrapper? Chuck -----Original Message----- From: "Döring, Markus" [mailto:m.doering@BGBM.org] Sent: Friday, January 13, 2006 4:27 AM To: Chuck.Miller(a)mobot.org; tdwg-tapir(a)lists.tdwg.org Cc: Berendsohn, Walter G. Subject: AW: [tdwg-tapir] FAQ page Chuck, from the BioCASE side I can add the following: BioCASE ------- BioCASE is a European project and its also the name of the protocol (sometimes written as BioCASe). The BioCASE portal (software) is referred to simply as the BioCASE portal. The core of the BioCASE provider software (BPS) is called PyWrapper. This wrapper understands the BioCASE protocol, but also the Species2000/SPICE protocol. So you can use it to serve data in ABCD, SPICE/Species2000, DarwinCore, MCPDH, NaturalCollectionMetadata (NCD) or nearly any other XML standard with some limitations (unfortunately used by SDD). TAPIR ------ TAPIR refers only to the protocol. The primary goal of TAPIR is the unification of DiGIR and BioCASE, thus replacing them so that data providers and clients can access our data in the same way. There is a full TAPIR provider software available based on the PyWrapper which is called TAPIR PyWrapper. There is no TAPIR portal yet or any other client application for TAPIR. RDF ---- In many discussions currently RDF is considered a better way to share our data. To fully go the RDF way we would have to migrate the TDWG XML schema standards to some sort of RDF schema or ontology. There is still a performance problem with RDF if used with millions of records (equivalent to maybe hundreds of millions of rdf statements). So I dont see RDF being used right now in full production, but its surely a promising way to go. Personally I am a bit concerned we are about to split the community again - this time into TAPIR and RDF; but maybe thats how technological progress is made... regards, Markus -----Ursprüngliche Nachricht----- Von: tdwg-tapir-bounces(a)lists.tdwg.org [mailto:tdwg-tapir-bounces@lists.tdwg.org] Im Auftrag von Dave Vieglais Gesendet: Freitag, 13. Januar 2006 16:03 An: Javier privat Cc: tdwg-tapir(a)lists.tdwg.org Betreff: Re: [tdwg-tapir] FAQ page Much of the confusion has come about I guess because DiGIR 2 is actually a code name for a project that is building a data service application that supports pluggable protocols. There is no official name for that application, and there is no release (yet). So to try and help things a little: DiGIR 2 is a data server application, not a protocol. The application supports multiple protocols for accessing the data it serves including: * DiGIR 1.5 (i.e. the current version of DiGIR) * TAPIR (may not be a full implementation) * WFS (OGC Web Feature Service) * possibly SPARQL (an RDF query language) DiGIR 2 data server is being developed because we do not yet feel that there is a single unifying protocol for our community, and that new protocols may emerge and then different versions of the protocols will be developed. Having a single data service application that supports pluggable protocols will, we hope, significantly reduce the maintenance and configuration overhead of those interested in serving their data, since one the application is installed, we expect it to be a relatively trivial matter to add protocols or updates to existing protocols. We will provide more information about the project as updates become available. regards, Dave Vieglais Javier de la Torre said the following on 1/12/2006 8:23 AM: > Dear all, > > We had today the GBIF ICT Expert Group meeting and a lot of people > where making questions about TAPIR. > Seems that there is confusion regarding names. People were asking why > there is Digir 2 if we are all going to TAPIR and things like that. > There were also questions regarding when things are gonna be ready, > what can we expect from Digir2 and TAPIR pywrapper and what would be > the reasons to migrate, how difficult is going to be to migrate, etc. > > I was thinking of extending the FAQ page that Renato started in Madrid > to answer all these questions, but I need some help specially from the > Digir2 people. > > -What is the status of Digir2? > -Is it going to be difficult to update from Digir 1 to 2? > > I will in any case start writing there and maybe you can then modify > extend thins related to you. > > Best regards, > > Javi. > > _______________________________________________ > tdwg-tapir mailing list > tdwg-tapir(a)lists.tdwg.org > http://lists.tdwg.org/mailman/listinfo/tdwg-tapir_lists.tdwg.org > _______________________________________________ tdwg-tapir mailing list tdwg-tapir(a)lists.tdwg.org http://lists.tdwg.org/mailman/listinfo/tdwg-tapir_lists.tdwg.org

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