- IPT - lists.gbif.org

IPT setup
by Tim Robertson 06 May '15

06 May '15

Hi Max, Thanks for popping by today. On your server you have apache running on port 80 [1] and tomcat running on port 8080, but port 8080 is not accessible on the internet. You can therefore either do a) run tomcat on port 80 as described here: http://georgik.sinusgear.com/2012/03/10/tomcat-7-listen-on-port-80-linux-de… - I am afraid this varies on operating system to operating system and on the operating system version, so the best answers will probably come from googling, or asking the Tomcat mailing list. b) use apache as a proxy to tomcat as described in https://code.google.com/p/gbif-providertoolkit/wiki/IPTServerPreparation#Co… Please can I ask that you join the IPT mailing list on http://lists.gbif.org/mailman/listinfo/ipt and post questions there for assistance? I hope this helps, and please let us know how you get on Tim [1] http://62.176.19.143/

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IPT v2.2.1 released
by Kyle Braak 20 Apr '15

20 Apr '15

Dear IPT users, A new minor release of the IPT (v2.2.1) has been released and is available for download here [1]. This release fixes a bug [2] limited to IPT version 2.2 instances where archival mode [3] has been turned ‘off'. The bug causes the DwC-A download to disappear from the resource homepage. For those affected, you can either A) upgrade to 2.2.1, or B) turn ‘on' the IPT’s archival mode and republish your resources. Instructions on how to upgrade your IPT can be found in the IPT’s release notes [4]. Sorry for the inconvenience this bug may have caused you, Kyle [1] http://repository.gbif.org/content/groups/gbif/org/gbif/ipt/2.2.1/ipt-2.2.1… [2] https://code.google.com/p/gbif-providertoolkit/issues/detail?id=1155 [3] https://code.google.com/p/gbif-providertoolkit/wiki/IPT2ManualNotes?tm=6#Co… [4] https://code.google.com/p/gbif-providertoolkit/wiki/IPTReleaseNotes22#Upgra…

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update to IPT 22
by Renato Mazzanti 31 Mar '15

31 Mar '15

Dear developers and administrators IPT. I'll update the IPT version 2.0.3 to the last version 22. The previous IPT has several datasets and some are Data papers and obviously all user settings, configuration, etc. I will do a new installation on a new server and need the data directory are also in the same server. Do you have something that you recommend to me?. best regards -- Renato Mazzanti

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IPT v2.2 released
by Kyle Braak 27 Mar '15

27 Mar '15

Dear IPT users, The GBIF Secretariat is pleased to announce that a new release of the Integrated Publishing Toolkit (IPT v2.2) is now available for download here. For information about how to upgrade your installation, you can check out the Release Notes. Added to this version, is the ability to automatically connect with either DataCite or EZID to assign DOIs to datasets. This new feature makes biodiversity data easier to access on the Web and facilitates tracking its re-use. To find out what else is new, you can check out the latest post on the GBIF Developer Blog. New users should follow the installation guidelines in the IPT User Manual that has been updated for this version. Thank you once again for using the IPT, and we hope you enjoy the latest version. With kind regards, Kyle, on behalf of the GBIF development team and the GBIF Secretariat

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examples of datasets using Identification History extensions
by Herbario SANT 20 Mar '15

20 Mar '15

Hi Niels and rest of IPT list suscriptors. I saw Niels Klazenga message to TDWG list, about using DarwinCore extensions in IPT and mapping them from mysql databases. I am not currently using IPT yet, but I also try to figure out how to do the same thing, and also wondering how the final results will be. Regarding that, I still couldn't find any GBIF dataset which is using the Identification History extension. I would like to see how those date look like when they are searched through gbif portal. Maybe any of you can provide me with links to occurrence datasets (preferrably herbaria) which are provinding Identification History data? By the way ... is it possible to use that extension using a Tapirlink provider? If so, I would also like to know about some examples of providers using it. Thanks a lot David On Mon, Sep 1, 2014 at 3:33 PM, Niels Klazenga < Niels.Klazenga(a)rbg.vic.gov.au> wrote: > Thanks Tim and Kyle, > I have signed up to the IPT list, to which I will send any further > questions, but thanks to your responses I have already worked out how to do > what I wanted to do. Turns out that I did overlook something, namely that I > needed to create multiple data sources within the same resource. Pretty > obvious in hindsight. > > Niels > > >>> Tim Robertson <trobertson(a)gbif.org> 09/01/14 5:43 PM >>> > > Hi Niels, > > The correct mailing list is the IPT list ( > http://lists.gbif.org/mailman/listinfo/ipt) I suggest mailing that, > providing as much information as possible - IPT version, the core and > extensions you are using, the SQL statements you use etc. > > The IPT does allows multiple mappings per source file which is a common > practice, but you cannot map to an extension until you have mapped the > core. There are some workarounds there, such as creating a core with only > the minimum fields, and then effectively mapping an extension in a 1:1 > manner (rather than multiple rows per core record). > > Cheers, > Tim > > > > > On 01 Sep 2014, at 09:11, Niels Klazenga <Niels.Klazenga(a)rbg.vic.gov.au> > wrote: > > Dear all, > Not sure if this is appropriate use of this list, but I don't know where > else to go. I was hoping I could prevail on someone to help me find out how > to use extensions in the IPT provider for data from an SQL database, > without creating duplicate rows in the core file or empty rows (apart from > the core ID) in the extension file(s). I think I tried everything, but I > must be overlooking something. > > I found this, http://lists.gbif.org/pipermail/ipt/2013-October/000545.html, > during my googling for an answer, which I think has the solution, but I > can't work out how to implement it, as my IPT installation doesn't seem to > let me create a mapping to just an extension and only lets me use one data > mapping source for any resource. > > Niels > > > > ___________________________________________________________ > > Niels Klazenga > Programmer Information Technology, Biodiversity Information Officer > > National Herbarium of Victoria, Royal Botanic Gardens > Birdwood Avenue > South Yarra, VIC 3141 > Australia > Tel: (03) 9252 2346 > Fax: (03) 9252 2444 > > e-mail: niels.klazenga(a)rbg.vic.gov.au > > -- > This email and any attachments may contain information that is personal, confidential, legally privileged and/or copyright. No part of it should be reproduced, adapted or communicated without the prior written consent of the sender and/or copyright owner. > It is the responsibility of the recipient to check for and remove viruses. > If you have received this email in error, please notify the sender by return email, delete it from your system and destroy any copies. You are not authorised to use, communicate or rely on the information contained in this email. > Please consider the environment before printing this email. > This email was Anti Virus checked by Sophos UTM. > > _______________________________________________ > tdwg-content mailing list > tdwg-content(a)lists.tdwg.org > http://lists.tdwg.org/mailman/listinfo/tdwg-content > > > > _______________________________________________ > tdwg-content mailing list > tdwg-content(a)lists.tdwg.org > http://lists.tdwg.org/mailman/listinfo/tdwg-content > > -- David García San León (dixitalización / control de fondos) Herbario SANT Facultade de Farmacia - Laboratorio de Botánica Universidade de Santiago de Compostela 15782 - Galicia (Spain) http://www.usc.es/herbario Tel. +34 881815022 Fax +34 981594912 Skype: herbarium_sant Twitter: @SANT_Herbarium

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IPT v2.2 - release candidate
by Kyle Braak 13 Mar '15

13 Mar '15

Dear IPT users, A release candidate of IPT v2.2 is now available for download [1]. Please note this release is only intended for testing, and should not be installed in production. If you don’t have time to install it, you can always try it out at http://ipt.gbif-uat.org/ [2] (just email me if you want an account). There have been a lot of changes in this version. Below I list some of the most exciting changes that we’d appreciate your help testing: 3 new major features added: It can be configured with a DataCite or EZID account making it possible to assign DOIs to resources (if you don’t have a DataCite or EZID account, just email me for a test account) It can auto-generate a citation for a resource including the version number and DOI, which enable consistent and reliable citation. It can validate that each occurrence record has a valid basisOfRecord 3 new minor features added: Source mappings can be previewed prior to publication The resource version pending publication can be previewed prior to publication It uses a new version of the GBIF Metadata Profile (v1.1) to publish metadata allowing: i) a user ID (e.g. ORCID) to be entered for each contact, ii) a machine readable license to be stored, iii) support for multiple collections, iv) support for multiple creators, contacts, metadata providers, project personnel 3 notable bugs fixed: Cells in Excel now get written as they are displayed in Excel; previously integers were being written as decimals, and formulas were written as unevaluated strings A reverse proxy (mod_proxy) can be used regardless of the URL; previously this wouldn’t work if the URL didn’t contain the application context (e.g. /ipt) IPT can be deployed using Wildfly8 (JBoss); previously this didn't work because of a dependency incompatibility Also please be aware that starting with this version, publishers are required to publish their data under a CC0 1.0, CC-BY 4.0 or CC-BY-NC 4.0 declaration. Those who do not choose one of these licenses will not be able to register their resource with GBIF or make it globally discoverable through GBIF.org. For background on GBIF's decision, see here [3]. If no major problems are uncovered during testing, IPT v2.2 will be released in a couple weeks. In the meantime, volunteer translators are also hard at work, and the user manual is being updated. Thank you for all your help, Kyle, on behalf of the IPT development team and the GBIF Secretariat [1] https://dl.dropboxusercontent.com/u/4552753/ipt-2.2-rc1.war [2] http://ipt.gbif-uat.org/ [3] http://www.gbif.org/terms/licences

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ipt next release?
by Dröge, Gabriele 26 Feb '15

26 Feb '15

Hi, can you tell me when the next IPT version will be released? It was originally planned for November. Best, Gabi

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New IPT resources available
by Alberto González-Talaván [GBIF] 08 Jan '15

08 Jan '15

Hello everyone, Yesterday, a 2-hour webinar about the installation of the IPT that was held, organized by a consortium of North American and Canadian institutions (i.e., iDigBio, Canadensys, VertNet and others) and the GBIF Secretariat. Laura Russell (VertNet) and Kyle Braak (GBIF Secretariat) acted as trainers, while Deborah Paul (iDigBio) and I acted as facilitators. The session was held in the iDigBio Adobe Connect platform. As part of this exercise, a number of new resources are available: 1. A 2-hour recording of the complete webinar <http://idigbio.adobeconnect.com/p4dfquy4bsf/> ; 2. A 7-minute video describing the IPT installation <http://vimeo.com/116142276> ; 3. 3 new presentations about the IPT [1] requirements <http://www.gbif.org/resources/78258> , [2] customization options <http://www.gbif.org/resources/78260> , [3] known issues <http://www.gbif.org/resources/78261> that may occur during the installation and help resources; All this documentation is available in the resources section of GBIF.org <http://www.gbif.org/resources/archive> , in the IPT interest group as a summary page <http://community.gbif.org/pg/pages/view/45708/resources-from-the-january-20 15-ipt-webinar> and in the webinar wiki page <https://www.idigbio.org/wiki/index.php/Data_Sharing_Data_Standards_and_Demy stifying_the_IPT#Pre-Workshop_WEBINAR_on_IPT_Install_.2F_Set_up> . Please use these resources as much as you like. If you have developed other training or promotional resources related to the IPT, I would love to know about it :) With regards Alberto ---------- Alberto GONZÁLEZ TALAVÁN Senior Programme Officer for Training Global Biodiversity Information Facility Secretariat Universitetsparken 15 DK-2100 Copenhagen, Denmark email: atalavan(a)gbif.org twitter: atalavan <https://twitter.com/atalavan> web: http://www.gbif.org/ http://community.gbif.org/pg/profile/atalavan T: +45 35 32 14 83 F: +45 35 32 14 80

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Access IPT via web services
by Doug Palmer 20 Nov '14

20 Nov '14

Hi IPTers, I'm looking for a way to access an IPT instance as a web service. What I would like to do is poll for a list of the available resources in some machine friendly form, such as JSON or XML and use it to decide whether there have been any changes that I am interested in. I think that I can probably do it via playing around with the the RSS feed but I would like to see if there is a more direct route that I could take or an extension that someone has already developed. Doug Palmer

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Unable to register and update resource in IPT 2.0.3
by Aaike De Wever 25 Sep '14

25 Sep '14

Dear all, Although I could successfully register datasets with GBIF until recently, I get a "Registration of resource failed!" message now. Similarly I tried to re-publish a number of resources after applying a small edit to the mapping and am getting a "Error publishing resource: Bad registry response" message. As we are still on version 2.0.3, I was wondering whether this may be the reason (and we urgently need to update) or if these error messages mean something else. Thanks a lot for your help! With best regards, -- Aaike De Wever BioFresh Science Officer Operational Directorate Natural Environments Royal Belgian Institute of Natural Sciences Vautierstraat 29, 1000 Brussels Belgium tel.: +32(0)2 627 43 90 mobile.: +32(0)486 28 05 93 email: <aaike.dewever(a)naturalsciences.be> skype: aaikew LinkedIn: <http://be.linkedin.com/in/aaikedewever> BioFresh: <http://www.freshwaterbiodiversity.eu/> and <http://data.freshwaterbiodiversity.eu/>

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