From bexis2-dev at listserv.uni-jena.de Wed Jul 6 16:41:16 2016 From: bexis2-dev at listserv.uni-jena.de (bexis2-dev at listserv.uni-jena.de) Date: Wed, 6 Jul 2016 16:41:16 +0200 Subject: [BEXIS2-Dev] [bexis] Minor Corrections Needed on Our Data Publisher Page In-Reply-To: References: <153a1710-b503-952f-01aa-998553a83131@uni-jena.de> Message-ID: Hi Jan, adding new datasets is planned on a yearly basis. Modifying is not planned but could occur due to curating processes. I can deploy a script. Do I understand it correctly, that this script is used to push our data to your server? It would be really helpful if you could assist me by creating such a script. Do you have any examples from already running instances? Regarding your question with the module, I Cc this message with the Bexis2 project developers. The software is in re-developing process and such a module could be part of it. Best Andreas On 06.07.2016 12:02, helpdesk wrote: > > Hi Andreas, > > I see the archives behind the URL now. The issue is that there are > quite a number of datasets and this makes it impractical to register > them one at the time. Each dataset must be registered separately and > doing this manually is not very sensible. This is why I am suggesting > the option of using some kind of script to register and crawl each of > these 103 resources. > > May I ask if you are planning to add new datasets on a regular basis, > or if you are planning on curating, modifying, or adding to the 103 > datasets already existing behind the endpoint you sent me? > > If the resources are ‘dynamic’ or there are going to be more datasets > added, I recommend having a script in place to register and index > those datasets. All this can be done using the GBIF RESTful JSON based > API. > > I can assist in creating a script that registers these resources in > one batch. > > Please let me know what you think of this. > > On a related note – do you plan on adding a module to the BExIS > software that can share biodiversity data with GBIF? > > Best, > > Jan > > *From:*Andreas Ostrowski [mailto:andreas.ostrowski at uni-jena.de] > *Sent:* 5. juli 2016 14:24 > *To:* Jan Legind > *Cc:* helpdesk; BExIS List > *Subject:* Re: [bexis] Minor Corrections Needed on Our Data Publisher Page > > Hi Jan, > > the ready compiled zip files are available via the URL I send. > https://www.bexis.uni-jena.de/PublicData/Files/GBIF/ > > Now I enabled directory browsing for this specific directory and you > should see the files. There is no need to supply or confirm anything. > I thought if we provide the files via the url you will crawl them from > here. Is this right? > > I send you an example file a while ago and you meant that it should > pass the validation process. > > Best Andreas > > On 05.07.2016 12:53, Jan Legind wrote: > > Dear Andreas, > > Let me explains the requirements for getting biodiversity datasets > into the GBIF Portal: > > -First off, the datasets must be directly available through an > open connection without the need to supply credentials > > -The dataset must be downloadable in one step (no ‘I understand > the license/user-agreement’ tick box or any other intermediary > actions) > > -There is a validation process when the dataset is downloaded and > if the formal requirements are not met the indexing process will > be terminated for that dataset. > > Since you have an impressive number of datasets ready for > publication, I suggest that you get set up with some kind of > script or platform to register the datasets programmatically. We > have the GBIF API for this kind of work: > > http://www.gbif.org/developer/summary > > The GBIF IPT installation can do this for you and since you have > Darwin Core archives; these could be uploaded straight to the IPT > and get validated prior to indexing. > > If you wish to run a custom publishing setup, please get back to me. > > Best wishes for the summer, > > Jan > > *From:*Andreas Ostrowski [mailto:andreas.ostrowski at uni-jena.de] > *Sent:* 5. juli 2016 11:22 > *To:* Jan Legind > *Cc:* helpdesk; BExIS List > *Subject:* Re: [bexis] Minor Corrections Needed on Our Data > Publisher Page > > Dear Jan, > > thanks for your reply. We have our own implementation for > generating DwC archives. The (103) zip files are deposited here: > https://www.bexis.uni-jena.de/PublicData/Files/GBIF/ > > Directory browsing is disabled. Please come back to me if you have > any problems (e.g. in crawling the data) or other questions. > > Best Andreas > > > On 01.07.2016 11:35, helpdesk wrote: > > Dear Michael, > > I have changed the publisher description accordingly and the > contact has been updated as well. > > Regarding the new DwC archives: If you are using a BioCASE > installation or have custom DwC archives, please get back to > me with the URL for the zip files. > > If you are publishing with the IPT you should be able to > directly associate new datasets with BE using this passw0rd: > > > Best regards, > > Jan > > *From:*michael.owonibi at googlemail.com > [mailto:michael.owonibi at googlemail.com] > *On Behalf Of *Michael Owonibi > *Sent:* 27. juni 2016 10:59 > *To:* helpdesk > *Cc:* BExIS List > *Subject:* Re: [bexis] Minor Corrections Needed on Our Data > Publisher Page > > Dear Jan, > > I sent you this mail below sometimes ago and I have not gotten > any response from you with respect to how we can go ahead. > > I will really appreciate a response from you. > > Thanks a lot. > > Best regards. > > On 15 June 2016 at 09:31, Michael Owonibi > > wrote: > > Dear Jan, > > We would like to > > 1)Change the text under the description of data publisher to > this below > > "The Biodiversity Exploratories (BE) are a German Science > Foundation > funded research project (DFG Priority Programme 1374). It has > three > research Exploratories (areas) which serve as open research > platform > for biodiversity and ecosystem research groups of Germany. The > study > objective of the BE include the understanding of the relationship > between biodiversity of different taxa and levels, the role of > land use > and management for biodiversity, and the role of biodiversity for > ecosystem processes. As such, many of the researchers collect > biodiversity-related datasets from three main areas in > Germany, and > these data often contain species occurrence information" > > > 2) Change the name of the Administrative Contact to Christiane > Fischer > > > On a different topic - We have created link for each of our > Darwin Core > Archive for each of our datasets, and we are not sure about how to > submit these links to GBIF. Can you please give us more > information on > how to proceed? > > > Thanks a lot for your assistance. > > > > > > On 6/14/2016 11:39 AM, helpdesk wrote: > > Dear Michael, > > > > Please send me the changes you wish to see on the publisher > page and I will update it. There is no easy way for publishers > to implement changes to the organization page in GBIF themselves. > > > > Best regards, > > > > Jan K. Legind > > Data manager, GBIF Secretariat > > > > > > -----Original Message----- > > From: Michael Owonibi [mailto:michael.owonibi at uni-jena.de > ] > > Sent: 14. juni 2016 10:48 > > To: helpdesk > > Cc: BExIS List > > Subject: Minor Corrections Needed on Our Data Publisher Page > > > > Dear Helpdesk, > > > > > > We are registered as data provider on GBIF, and our page can > be found on > http://www.gbif.org/publisher/541c2668-9391-4479-b90f-fe90b365f33b > . > > > > There are a few typos on this page that we would like to > correct, and we would like to know how we can go about this. > > > > Thanks > > > > > > -- > > Michael Owonibi, PhD > > BExIS Data Manager > > Friedrich-Schiller-University > > Institut für Informatik > > Leutragraben 1, Jentower > > 07743 Jena > > Germany > > Phone.: +49(0)3641-946440 > > Web: > http://fusion.cs.uni-jena.de/professur/about-us/team/michael-owonibi > > > > -- > Michael Owonibi, PhD > BExIS Data Manager > Friedrich-Schiller-University > Institut für Informatik > Leutragraben 1, Jentower > 07743 Jena > Germany > Phone.: +49(0)3641-946440 > Web: > http://fusion.cs.uni-jena.de/professur/about-us/team/michael-owonibi > > _______________________________________________ > bexis mailing list > bexis at listserv.uni-jena.de > https://lserv.uni-jena.de/mailman/listinfo/bexis > > > > -- > > Michael Owonibi, PhD > > BExIS Data Manager > > Friedrich-Schiller-University > > Institut für Informatik > > Leutragraben 1, Jentower > 07743 Jena > > Germany > > Phone.: +49(0)3641-946440 > > Web: > http://fusion.cs.uni-jena.de/professur/about-us/team/michael-owonibi > > > > > > _______________________________________________ > > bexis mailing list > > bexis at listserv.uni-jena.de > > https://lserv.uni-jena.de/mailman/listinfo/bexis > > > > > -- > > Andreas Ostrowski > > Datenmanagement Biodiversitaets-Exploratorien > > Friedrich-Schiller-Universität Jena > > Institut für Informatik > > Leutragraben 1, Jentower > > 07743 Jena > > Tel.: ++ 49 3641 9 46431 > > > > E-Mail:andreas.ostrowski at uni-jena.de > > WWW:http://www.biodiversity-exploratories.de > > -- > > > > -- > Andreas Ostrowski > Datenmanagement Biodiversitaets-Exploratorien > Friedrich-Schiller-Universität Jena > Institut für Informatik > Leutragraben 1, Jentower > 07743 Jena > Tel.: ++ 49 3641 9 46431 > E-Mail:andreas.ostrowski at uni-jena.de > WWW:http://www.biodiversity-exploratories.de > -- -- Andreas Ostrowski Datenmanagement Biodiversitaets-Exploratorien Friedrich-Schiller-Universität Jena Institut für Informatik Leutragraben 1, Jentower 07743 Jena Tel.: ++ 49 3641 9 46431 E-Mail: andreas.ostrowski at uni-jena.de WWW: http://www.biodiversity-exploratories.de -- -------------- nächster Teil -------------- Ein Dateianhang mit HTML-Daten wurde abgetrennt... 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