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[tdwg-lit] Lit meeting at TDWG 2007: getting to the Faculty of Science on Sunday 16 September
by Weitzman, Anna 10 Sep '07

10 Sep '07

Hi all, Three things (again): 1. The literature charter has now been approved and the LIT group is now an official Interest Group of TDWG. See http://www.tdwg.org/activities/literature/ for links to the charter , Wiki (currently inactive; hosted by Bob Morris at UMass Boston), and mailing list. 2. As a reminder, we are having a meeting of those interested and available of the Literature interest group meeting on Sunday, 16 September 2007 from 2:30-5:00 pm in Bratislava. The meeting will be held at the Faculty of Science. There is a map at the bottom of the list on: http://www.tdwg.org/conference2007/housingtravel/maps/ <http://www.tdwg.org/conference2007/housingtravel/maps/> There is also a document attached to this message with some ideas (not cleaned up from our Slovakian colleagues English!) for travel to the Faculty of Science. In addition, our host, Eduard has provided the following: * from Suza hotel: - follow green line on map - "downhill" along Korabinskeho street (steeply down among gardens), cross bridge over highway and turn to left, then follow indicators of the conference along Ilkovicova street (there are many new houses compared to Google Earth or Google Maps); total distance about 1.5 km - or you can use trolleybus (lines 203 or 207) and tram (line no. 1, 5 or 9 towards Karlova Ves) - leave tram at 4th stop after tunnel (stop Botanical Garden) - walk uphill to faculty (follow indicators) * from Ibis hotel - use tram line no. 1, 5 or 9 towards Karlova Ves - leave tram at 4th stop after tunnel (stop Botanical Garden) - walk uphill to faculty (follow indicators) * from Hotel no 16 - walk to faculty or to the closest tram or trolleybus stop For people staying at the SUZA or Hotel No. 16 I think walking would be best, although it's a bit of a trek from the latter. 3. Finally, I have heard from only a few of you about the possibility of attending a meeting in November. Given that most of those I have heard from are from North America, I am going to look at holding it someplace over here, as I think that will be cheapest. If you have not responded and are interested, please let me know as soon as possible, so I can include you and the costs to get you to the meeting in my proposal! I look forward to seeing as many of you as possible soon! Cheers, Anna Anna L. Weitzman, PhD Botanical and Biodiversity Informatics Research National Museum of Natural History Smithsonian Institution office: 202.633.0846 mobile: 202.415.4684 weitzman(a)si.edu

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[tdwg-tnc] looking for volunteers for a spot of user testing at TDWG, Bratislava
by Graham, Martin 06 Sep '07

06 Sep '07

Hi, anyone interested in helping us test a couple of interfaces for interacting with multiple taxonomic classifications based on TCS concept data? --> http://www.dcs.napier.ac.uk/~marting/ProjectWiki/index.php?n=Main.Usabil ityTesting (with 'tdwg' as the password for editing the page) Once I discover 'where' in the complex I'll be based I'll add that info to the page also... Thanks, Martin Graham Napier University 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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[Biogeosdi] Re: biogeosdi Digest, Vol 10, Issue 2
by Meganck Bart 05 Sep '07

05 Sep '07

Hi Javier, "A great workshop with an excellent outcome" - that's very nice to hear ! best regards, Bart. On Tue, 2007-09-04 at 16:44 +0200, biogeosdi-request(a)lists.tdwg.org wrote: -- Bart Meganck, ICT & GIS engineer, African Zoology Department. Royal Museum for Central Africa, Leuvensesteenweg 13, B-3080 Tervuren, Belgium. Tel : +32(0)2 769 56 92 Fax : +32(0)2 767 02 42 Email : bart.meganck(a)africamuseum.be Website : www.africamuseum.be ########################################### This message has been scanned by ICT - Africa Museum ________________________________________ 5/9/2007 - Filtered through antispam by ICT

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[Biogeosdi] Fwd: Auto-discard notification
by Javier de la Torre 04 Sep '07

04 Sep '07

Begin forwarded message: > From: biogeosdi-bounces(a)lists.tdwg.org > Date: 4 de septiembre de 2007 16:36:05 GMT+02:00 > To: biogeosdi-owner(a)lists.tdwg.org > Subject: Auto-discard notification > > The attached message has been automatically discarded. > From: Javier de la Torre <jatorre(a)imaste-ips.com> > Date: 4 de septiembre de 2007 16:35:55 GMT+02:00 > To: biogeosdi(a)lists.tdwg.org > Subject: Fwd: The BiogeoSDI workshop: Demonstrating the use of TDWG > and OGC standards > > > Abstract was accepted! > > Hey people! Our abstract was accepted! > > Congrats! > > Cheers. > > Begin forwarded message: > >> Date: 4 de septiembre de 2007 16:16:31 GMT+02:00 >> To: Javier de la Torre <jatorre(a)imaste-ips.com> >> Subject: The BiogeoSDI workshop: Demonstrating the use of TDWG and >> OGC standards >> >> together >> Content-Type: text/plain; charset="utf-8" >> X-Mailer: Open Journal Systems v2 >> X-Originating-IP: 128.227.143.231 >> From: Reed Beaman <reed.beaman(a)yale.edu> >> Message-Id: <20070904141628.129FA1781AC(a)falcon.tdwg.gbif.org> >> Date: Tue, 4 Sep 2007 16:16:28 +0200 (CEST) >> >> Javier de la Torre: >> >> We have now completed the review of your submission "The BiogeoSDI >> workshop: Demonstrating the use of TDWG and OGC standards >> together." Our >> decision is as follows. >> >> "..." >> >> Additional comments on the paper, based on the editorial and peer >> review, >> are found by logging in to the journal web site: >> >> Submission URL: >> http://www.tdwg.org/proceedings/author/submissionEditing/203 >> Username: JavierTorre >> >> If you have any questions, please contact me. >> >> Reed Beaman >> reed.beaman(a)yale.edu >> ------------------------------------------------------ >> Reviewer A: >> This is a valuable presentation and should be included. Given what >> follows, I think the first sentence of the second paragraph should >> read, >> "Two versions of a prototype web application were developed using >> PHP and >> Flex". >> >> ------------------------------------------------------ >> >> >> ------------------------------------------------------ >> Reviewer B: >> A great workshop with an excellent outcome. Even the abstract was >> well >> written! >> >> ------------------------------------------------------ >> _____________________________________________________________________ >> ___ >> Proceeding of TDWG >> http://www.tdwg.org/proceedings > > IMASTE-IPS > > Javier de la Torre [Dtor. Tecnología] > Jose Abascal 52 7d > ES-28003, Madrid, Spain > Tel: +34 91 536 05 03 > Mov: +34 629 69 38 70 > skype:jatorre555 > jatorre(a)imaste-ips.com > >

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[Biogeosdi] Re: biogeosdi Digest, Vol 9, Issue 9
by Meganck Bart 03 Sep '07

03 Sep '07

Hi Renato, Nice to hear from you ! Yes, we thought about returning the results in the same format as the tool's answers (instead of raw CDATA XML). But the problem there is that it would take a whole conversion, different for each protocol - which would imply a mapping of all elements that are in the schema... That was something we decided against for the first prototype, although it would certainly be interesting. As for the TAPIR style : I just tried to stick as close to the description for TAPIR answers I found on the website - but I'm not yet such an expert here. If you have any suggestions for small adaptations to improve this, I'd be happy to hear them. best regards, Bart. > ---------------------------------------------------------------------- > > Message: 1 > Date: Tue, 28 Aug 2007 09:18:51 -0300 (BRT) > From: "Renato De Giovanni" <renato(a)cria.org.br> > Subject: Re: [Biogeosdi] generic query tool > To: biogeosdi(a)lists.tdwg.org > Message-ID: <2513.201.82.129.216.1188303531.squirrel(a)201.82.129.216> > Content-Type: text/plain;charset=iso-8859-1 > > Hi Bart, > > Markus mentioned something about this work some time ago, but I didn't > know that you were the main developer. It looks like a proxy service that > allows people to query different types of providers using the same API, > which is definitely interesting. If you allow me a suggestion, it would be > nice to get back results in the same format too (in case you're planning > future developments). > > Yes, I can see the TAPIR style in your protocol, but it would need some > changes before it could get an official "TAPIR compliance certificate". > :-) > > Best Regards, > -- > > Renato > > > Hi all, > > > > I've been working on SYNTHESYS NA-D 1.6 for some time, and this has > > produced a tool that I think could be of some use in a general TDWG/Gbif > > context. > > > > It's a small (medium) PHP program meant for integration in workflows > > such as the one we've done in Campinas : querying servers, combining > > data and displaying them on maps... > > > > There is no graphical front-end, the tool is meant for developers. > > You communicate with it via HTTP GET parameters, and you get result back > > in a TAPIR-like response XML (though I'm not sure it would pass Renato's > > close scrutiny ;) > > > > What is does is get info about, and query, any server that talks in > > either the BioCase, DiGIR or TAPIR protocol. > > > > In the current version, this means : > > > > * you can ask info for any server, and you'll get the server type, some > > other metadata, and the specific data for the different protocols (e.g. > > the possible resources for diGIR servers). > > > > * you can search any BioCase, DiGIR or TAPIR server for the scientific > > names of specimens. > > For the moment, only one "version" of each protocol is implemented, > > and no other fields than scientific name can be searched. But more of > > this should be not too difficult to implement in further versions. > > > > The tool is meant to be simple, meaning that for most parameters default > > values are used, and that it's functionality is -at the moment- quite > > limited. But it should be good at what is does, and is designed to be as > > programmer-friendly as possible, with extensive documentation, useful > > error messages, and plenty of debugging info. > > > > You'll find the tool on : http://synthesys.africamuseum.be/GQT.html > > > > Here you can download the PHP code (e.g. for a local install), which > > includes some examples as well. Or try the online version at > > http://synthesys.africamuseum.be/GQT/generic.php, for example with : > > > > > > > > http://synthesys.africamuseum.be/GQT/generic.php?op=help (help function, > > overview of parameters) > > > > > > > > http://synthesys.africamuseum.be/GQT/generic.php?op=info > > &endpoint=http://193.190.223.48/biocase/pywrapper.cgi?dsa=RMCA_Amphibians > > (info about our biocase server) > > > > > > > > http://synthesys.africamuseum.be/GQT/generic.php?op=search > > &endpoint=http://193.190.223.48/biocase/pywrapper.cgi?dsa=RMCA_Amphibians > > &filter=A > > (&timeout=5) > > (&count=true) > > > > (search (count) our biocase server for names starting with A) > > > > > > http://synthesys.africamuseum.be/GQT/generic.php?op=search > > &endpoint=http://digir.austmus.gov.au:80/ozcam/DiGIR.php > > &filter=Fel > > &count=false > > > > ( search (full) the DiGIR server for names starting with "Fel" ) > > > > > > Any comments are welcome, though I will not be in office next week > > (holiday(a)belgian.coast) to respond immediately. > > > > best regards, > > > > Bart. > > > > -- > > > > Bart Meganck, > > > > ICT & GIS engineer, > > African Zoology Department. > > > > Royal Museum for Central Africa, > > Leuvensesteenweg 13, > > B-3080 Tervuren, > > Belgium. > > > > Tel : +32(0)2 769 56 92 > > Fax : +32(0)2 767 02 42 > > Email : bart.meganck(a)africamuseum.be > > Website : www.africamuseum.be > > > > > ------------------------------ > > _______________________________________________ > biogeosdi mailing list > biogeosdi(a)lists.tdwg.org > http://lists.tdwg.org/mailman/listinfo/biogeosdi > > > End of biogeosdi Digest, Vol 9, Issue 9 > *************************************** -- Bart Meganck, ICT & GIS engineer, African Zoology Department. Royal Museum for Central Africa, Leuvensesteenweg 13, B-3080 Tervuren, Belgium. Tel : +32(0)2 769 56 92 Fax : +32(0)2 767 02 42 Email : bart.meganck(a)africamuseum.be Website : www.africamuseum.be ########################################### This message has been scanned by ICT - Africa Museum ________________________________________ 3/9/2007 - Filtered through antispam by ICT

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[Biogeosdi] generic query tool
by Meganck Bart 28 Aug '07

28 Aug '07

Hi all, I've been working on SYNTHESYS NA-D 1.6 for some time, and this has produced a tool that I think could be of some use in a general TDWG/Gbif context. It's a small (medium) PHP program meant for integration in workflows such as the one we've done in Campinas : querying servers, combining data and displaying them on maps... There is no graphical front-end, the tool is meant for developers. You communicate with it via HTTP GET parameters, and you get result back in a TAPIR-like response XML (though I'm not sure it would pass Renato's close scrutiny ;) What is does is get info about, and query, any server that talks in either the BioCase, DiGIR or TAPIR protocol. In the current version, this means : * you can ask info for any server, and you'll get the server type, some other metadata, and the specific data for the different protocols (e.g. the possible resources for diGIR servers). * you can search any BioCase, DiGIR or TAPIR server for the scientific names of specimens. For the moment, only one "version" of each protocol is implemented, and no other fields than scientific name can be searched. But more of this should be not too difficult to implement in further versions. The tool is meant to be simple, meaning that for most parameters default values are used, and that it's functionality is -at the moment- quite limited. But it should be good at what is does, and is designed to be as programmer-friendly as possible, with extensive documentation, useful error messages, and plenty of debugging info. You'll find the tool on : http://synthesys.africamuseum.be/GQT.html Here you can download the PHP code (e.g. for a local install), which includes some examples as well. Or try the online version at http://synthesys.africamuseum.be/GQT/generic.php, for example with : http://synthesys.africamuseum.be/GQT/generic.php?op=help (help function, overview of parameters) http://synthesys.africamuseum.be/GQT/generic.php?op=info &endpoint=http://193.190.223.48/biocase/pywrapper.cgi?dsa=RMCA_Amphibians (info about our biocase server) http://synthesys.africamuseum.be/GQT/generic.php?op=search &endpoint=http://193.190.223.48/biocase/pywrapper.cgi?dsa=RMCA_Amphibians &filter=A (&timeout=5) (&count=true) (search (count) our biocase server for names starting with A) http://synthesys.africamuseum.be/GQT/generic.php?op=search &endpoint=http://digir.austmus.gov.au:80/ozcam/DiGIR.php &filter=Fel &count=false ( search (full) the DiGIR server for names starting with "Fel" ) Any comments are welcome, though I will not be in office next week (holiday(a)belgian.coast) to respond immediately. best regards, Bart. -- Bart Meganck, ICT & GIS engineer, African Zoology Department. Royal Museum for Central Africa, Leuvensesteenweg 13, B-3080 Tervuren, Belgium. Tel : +32(0)2 769 56 92 Fax : +32(0)2 767 02 42 Email : bart.meganck(a)africamuseum.be Website : www.africamuseum.be

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[tdwg-lit] TDWG Lit interest group revitalisation!
by Weitzman, Anna 16 Aug '07

16 Aug '07

Hi all, I am sending this to everyone who has signed up for the list and to a few people who have expressed continued interest, but who have not yet signed up. If you wish to join this list, please do so at: http://lists.tdwg.org/mailman/listinfo/tdwg-lit. First, the Lit group charter is under review. I presume that it will be approved before the upcoming TDWG meeting in Bratislava. Second, I want to let you know that we have scheduled (I apologize for the short notice) a 'formal' Lit interest group meeting on Sunday, 16 September 2007 from 2:30-5:00 pm in Bratislava (prior to the TDWG meeting which starts the following morning and before the opening reception). For those of you who cannot attend the meeting, I'll send out minutes (or at least a summary after the TDWG meeting). Third, and most importantly, I have been receiving some pressure from the TDWG TIP program to apply for funds for a workshop to bring as many of us together as possible so we can quickly 'knock out' version one of a standard ASAP (by the end of 2007???). There was not time to pull this together at the time of the TDWG meeting, so I have been thinking about potentials for this and the best I can think of is 2-3 days in mid-November (the week of 12 November). Please let me know if that time is possible for you. Once I get an idea of who might be able to come (and the geographic distribution of those able to do so), I will figure out the most cost-effective location and put in a proposal for funds. I look forward to seeing as many of you as possible in Bratislava and at the workshop! Regards, Anna Anna L. Weitzman, PhD Editor, TDWG Proceedings Botanical and Biodiversity Informatics Research National Museum of Natural History Smithsonian Institution office: 202.633.0846 mobile: 202.415.4684 weitzman(a)si.edu

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[tdwg-obs] Observation Associations Controlled Vocabulary
by Kevin Richards 13 Aug '07

13 Aug '07

Hi all I apologise for any cross postings, and Im not sure Ive even got the right mailing lists here. I am trying to get hold of a controlled vocabularly / list of terms that define associations between organisms with respect to observations or specimens. For example parasites, hosts etc - eg to specify that a specimen/observation was found living on another specimen (host). I need this for the specimens RDF/LSID presentation I am giving at TDWG this year. Any help would be appreciated. Thanks Kevin Richards ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ WARNING: This email and any attachments may be confidential and/or privileged. They are intended for the addressee only and are not to be read, used, copied or disseminated by anyone receiving them in error. If you are not the intended recipient, please notify the sender by return email and delete this message and any attachments. The views expressed in this email are those of the sender and do not necessarily reflect the official views of Landcare Research. Landcare Research http://www.landcareresearch.co.nz ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++

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[Biogeosdi] Good reading, someone wants to write an article?
by Javier de la Torre 08 Aug '07

08 Aug '07

Hi all, Some of you might now already this article about the use of GBIF data for developing biodiversity change indicators. Its lecture will probably not provide much more info of what you know already, it has been written by A. T. Peterson and J. Soberon so you know what their ideas are. I just thought it is a good base for our biogeosdi experiment. If you take a look at their proposed approach we have already fulfilled some of the steps. I think that taking this article as a base and talk about what we have done will probably create a nice article we could publish somewhere... anybody interested in doing this? Is there anybody interested in gaining publications? Cheers. >>> >>> >>

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[Biogeosdi] News item at TDWG site
by Javier de la Torre 08 Aug '07

08 Aug '07

Hey people! We got a news item at the TDWG site :) Check it out at: http://www.tdwg.org/homepage-news-item/article/geointeroperability- workshop-outcomes/ Cheers.

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