- IPT - lists.gbif.org

Short presentations about the IPT available in German
by Alberto González-Talaván (GBIF) 24 Aug '10

24 Aug '10

Dear Friends from the IPT list, Thanks to Jörg Holetschek from the Botanischer Garten und Botanisches Museum Berlin-Dahlem (Germany) we have now available the set of 6 short presentations about the IPT available also in German! (Sorry Jörg for having taken some time to upload them!) It is awesome the work that you guys have done with the translation of those presentations into Chinese, Dutch, English, French, German, Portuguese and Spanish!! As usual, the presentations are available in the IPT resources page of the "GBIF IPT helpdesk and training experts" group of the GBIF Community Site: http://community.gbif.org/pg/pages/view/3872/ The GBIF Community Site has been recently officially launched and we have doubled the number of users in a very short time. Have a look at the new aspect of the site and the list of new users or join it if you have not done so yet! Thanks again to all those involved in the translations! With best regards Alberto ---------- Alberto GONZÁLEZ TALAVÁN Training Officer Global Biodiversity Information Facility Secretariat Universitetsparken 15 DK-2100 Copenhagen, Denmark email: <mailto:atalavan@gbif.org> atalavan(a)gbif.org web: <http://www.gbif.org/> http://www.gbif.org/ T: +45 35 32 14 83 F: +45 35 32 14 80

1 0

Re: [IPT] IPT configuration question
by Tim Robertson (GBIF) 17 Aug '10

17 Aug '10

Dear Jens and Jose, Could you please liaise to make sure that at the time of registration there are no outages and perhaps debug this issue? I suspect that there is some firewall issue coming in to play here from the client (it's port 80 though), or perhaps there is some proxy involved that we have not seen before. May I also please ask Jens - which version of the IPT is being installed? Many thanks, Tim On Aug 17, 2010, at 1:36 PM, Jens Rathsman wrote: > Dear GBIF developers, > > I work at the Swedish GBIF node and have a question about IPT- > organization setup. I write to you as system architect because I > didn’t know who else to contact. Maybe you can redirect me if you > are not the one to answer those questions? > > Some months ago I installed and tried out IPT on some datasets here > at the museum. Maps and embedded tapir worked nicely. Now one of our > data contributors is installing IPT for automatic data delivery to > us, and he had problems. I verified at our installation, that was > successfully setup earlier and saw the same problem. > > When configuring “Admin > Configuration > Organization” IPT seems > to get stuck at “loading from repository” while looking up “Title” > and “GIBF Node”. I don’t remember seeing this problem before. What > do you think is the reason? I have two guesses, > 1. could it be that the lookup is made on some port that is > blocked? (We have a new firewall since installing in march.) If so, > what port is used? > 2. Does gbif.org have a problem with the lookup service? > > Is the organization configuration needed for data contributors, or > only for Gbif-nodes? > > Best regards, > Jens Rathsman > > --------------------------------- > Jens Rathsman, System developper > GBIF Sweden - http://www.gbif.se > mailto:jens.rathsman@nrm.se > tel: +46 8 5195 5116 > Swedish Museum of Natural History - http://www.nrm.se Box 50007 > SE-104 05 Stockholm > Sweden >

3 2

Geoserver and Tomcat 6.0.26
by Burke Chih-Jen Ko 16 May '10

16 May '10

Dear IPT friends, While upgrading my IPT instance to 1.0RC3, I also upgraded Tomcat 6.0.26. IPT 1.0RC3 worked, but either bundled or original geoserver 1.7.7 didn't startup. Downgrading Tomcat back to 6.0.24 solves this issue. My Tomcat runs on Mac OS X 10.6.3 with JDK 1.6. For information only. Cheers, Burke Taiwan Biodiversity Information Facility, TaiBIF Biodiversity Research Center, Academia Sinica 128 Sec 2, Academia Rd., Nangang District Taipei 115, Taiwan Tel: +886 2 27899621 ext. 220

1 0

problem with charts/graphs
by Andrea Hahn (GBIF) 04 May '10

04 May '10

(forwarding for Kyle) Hi, I'm on an internet connection going through an HTTP proxy that is password protected. Unfortunately, I lose the charts/graphs in my IPT and was wondering why that is. Charts/graphs displayed from the same default resource 'Pontaurus' on ipt.gbif.org for example display fine. Any idea what the problem might be? If the problem is not related to connecting via a password protected proxy, what other roots might there be to this problem? Thanks for your time and help in resolving this problem, Kyle

2 1

OAI-PMH on IPT
by Hannu Saarenmaa 15 Apr '10

15 Apr '10

Hello How can I find the OAI-PMH access point of an IPT resource or of the entire server? It is not listed among the other webservices & resources. Is this documented somewhere? Thanks, Hannu

3 3

Re: [IPT] IPT-lite in Google code?
by Dag Terje Filip Endresen 19 Mar '10

19 Mar '10

Hi Hanna, The DEMO site for IPT LITE is at: http://ipt-lite.gbif.org/index.html There is an OLD compile of the IPT LITE from the Google Code site (September 15, 2009) http://gbif-providertoolkit.googlecode.com/files/gbif-ipt-lite-1.0RC2.war I did not test this LITE version myself. But I expect that this LITE version is much less demanding regarding memory. The LITE will only provide a tool to generate the Darwin Core text Archive (DwC-A) and not provide the visual display of your datasets. See also the Google Code Issue 254: Revive IPT lite to be build via war overlay based on the regular IPT. "IPT lite is a stripped down IPT that does share 99% of IPT code base, but removes the entire portal, webservices and even the database storing dwc records. It is only meant for creating dwc archives as efficient as possible and authoring metadata about the resource. Good for large datasets and a hosting environment." http://code.google.com/p/gbif-providertoolkit/issues/detail?id=254 I believe that you will build a recent version of the IPT LITE together with the standard IPT if you download the source code (SVN checkout) and build this with for example Maven. BUT it is probably much easier for you to download the GBIF IPT LITE 1.0 RC2 to start testing this version of the toolkit... The Darwin Core Google Code project includes a Darwin Core Archive (DwC-A) reader (dwc-archive-1.0.jar, dwca-reader-1.0.jar). I am not sure how (if at all) these relates to the IPT LITE. But perhaps worthwhile to test as well? http://code.google.com/p/darwincore/downloads/list I have no hands-on experiences with the LITE version so I copy my reply to the IPT mailing list to see if we can catch any remarks for others more experienced with this LITE version. Cheers Dag Terje _____ From: Hanna Koivula [mailto:hanna.koivula@helsinki.fi] To: dag.endresen(a)nordgen.org Sent: Fri, 19 Mar 2010 12:48:26 +0100 Subject: IPT-lite in Google code? Hi Dag! It was nice to meet you in Alikante! I’ll try to get some pics from the Castillo to the community site… You mentioned that you have commented how to make IPT Lite on the Google code platform. Can you guide me where to find that? I think our developers would love to try that out, since our Metacat installation is not proceeding and they need to get the metadata out in public somehow… Best wishes, Hanna ~*~*~*~*~*~*~*~*~*~*~*~*~*~*~* Hanna Koivula Data Manager Finnish Museum of Natural History 000014 Helsinki University http://www.fmnh.helsinki.fi/english/ tel. +358 50 4154850 ~*~*~*~*~*~*~*~*~*~*~*~*~*~*~*

2 1

Short presentations about the IPT available in Portuguese
by Alberto González-Talaván (GBIF) 19 Mar '10

19 Mar '10

Dear Friends from the IPT list, Thanks to Pedro Corrêa, André Quintela Bertuzzi, Bruno Vannucci and Paulo Pessoa from the University of São Paulo (Brazil) we have now available the set of 6 short presentations about the IPT available also in Portuguese! The presentations are available in the IPT resources page of the "GBIF IPT helpdesk and training experts" group of the GBIF Community Site. For those of you who are not members of the group, please consider creating an account in the GBIF Community Site and joining the group and give a hand in the deployment of the tool around the world ;-) http://community.gbif.org/pg/pages/view/3872/ So now Chinese, Dutch, English, French, Portuguese and Spanish are the languages in which these presentations are available! This is really impressive and I cannot but thank again to all of you who have collaborated in this! The person who initially offered to make the translation into German is quite busy at the moment, so if any other German speaker wants to collaborate translating some (or all) of the translations, please drop me a line! With best regards Alberto ---------- Alberto GONZÁLEZ TALAVÁN Training Officer Global Biodiversity Information Facility Secretariat Universitetsparken 15 DK-2100 Copenhagen, Denmark email: <mailto:atalavan@gbif.org> atalavan(a)gbif.org web: <http://www.gbif.org/> http://www.gbif.org/ T: +45 35 32 14 83 F: +45 35 32 14 80

1 0

Short presentations about the IPT available in Spanish
by Alberto González-Talaván (GBIF) 03 Mar '10

03 Mar '10

Dear Friends, Thanks to Silvia Lusa from GBIF Spain and Aurelio Sanabria from GBIF Costa Rica we have now available the set of 6 short presentations about the IPT available in Spanish! The presentations, as usual, are available in the IPT resources page of the "GBIF IPT helpdesk and training experts" group of the GBIF Community Site: http://community.gbif.org/pg/pages/view/3872/ As you can see, we have now these presentations available in Chinese, Dutch, English, French and Spanish! Thanks to all of you who have collaborated in this common effort! Those of you who have experience using the GBIF IPT and think that you can help/train others to overcome their problems with the tool, please consider joining that group of the GBIF Community Site (http://community.gbif.org/). Please contact me if you find any difficulties in the process. With best regards Alberto ---------- Alberto GONZÁLEZ TALAVÁN Training Officer Global Biodiversity Information Facility Secretariat Universitetsparken 15 DK-2100 Copenhagen, Denmark email: <mailto:atalavan@gbif.org> atalavan(a)gbif.org web: http://www.gbif.org/ T: +45 35 32 14 83 F: +45 35 32 14 80

1 0

IPT short presentations available in Dutch
by Alberto González-Talaván (GBIF) 02 Mar '10

02 Mar '10

Dear friends of the IPT list, The short presentations about the GBIF IPT are now available also in Dutch thanks to the work done by our colleagues Andre Heughebaert and Dimitri Brosens from the Belgian Biodiversity Platform (www.bebif.be). They are available in the resources page of the 'IPT helpdesk and training experts' group of the GBIF Community site: http://community.gbif.org/pg/pages/view/3872/ Our sincere thanks to Andre and Dimitri for making this available for the group! Alberto ---------- Alberto GONZÁLEZ TALAVÁN Training Officer Global Biodiversity Information Facility Secretariat Universitetsparken 15 DK-2100 Copenhagen, Denmark email: <mailto:atalavan@gbif.org> atalavan(a)gbif.org web: http://www.gbif.org/ T: +45 35 32 14 83 F: +45 35 32 14 80

1 0

FW: What does Yikes mean
by Andrea Hahn (GBIF) 19 Feb '10

19 Feb '10

Dear GBIF IPT contributors, Hannu is getting stuck with a "Yikes" issue (original email below). I am aware of the issue outlined in the IPT FAQ at http://code.google.com/p/gbif-providertoolkit/wiki/FAQ, and have pointed Hannu at it. Do you have any additional comment or advice that might help to fix this? Many thanks in advance, Andrea --------------------------------------------------------------- Andrea Hahn (ahahn(a)gbif.org) Data Portal Manager Global Biodiversity Information Facility Secretariat Universitetsparken 15, DK-2100 Copenhagen, Denmark Tel: +45-35321491 Fax: +45-35321480 URL: <http://www.gbif.org> http://www.gbif.org --------------------------------------------------------------- -----Original Message----- From: Hannu Saarenmaa [mailto:hannu.saarenmaa@helsinki.fi] Sent: Thursday, February 18, 2010 4:40 PM To: GBIF Helpdesk Subject: What does Yikes mean Our IPT has become unusable. Even simple things like upload of new file and click on Mappings->Edit (dump below) give this kind of trail. We are not Java and Tomcat experts, so we need help. Does this dump tell you something? Hannu Yikes! javax.servlet.ServletException: Filter execution threw an exception at net.sf.ehcache.constructs.web.filter.Filter.logThrowable(Filter.java:152) at net.sf.ehcache.constructs.web.filter.Filter.doFilter(Filter.java:97) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Applicati onFilterChain.java:215) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilter Chain.java:188) at org.appfuse.webapp.filter.LocaleFilter.doFilterInternal(LocaleFilter.java: 74) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerReques tFilter.java:76) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Applicati onFilterChain.java:215) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilter Chain.java:188) at org.springframework.orm.hibernate3.support.OpenSessionInViewFilter.doFilte rInternal(OpenSessionInViewFilter.java:198) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerReques tFilter.java:76) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Applicati onFilterChain.java:215) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilter Chain.java:188) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:359) at org.springframework.security.intercept.web.FilterSecurityInterceptor.invok e(FilterSecurityInterceptor.java:109) at org.springframework.security.intercept.web.FilterSecurityInterceptor.doFil ter(FilterSecurityInterceptor.java:83) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.ExceptionTranslationFilter.doFilterHttp(Ex ceptionTranslationFilter.java:101) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.providers.anonymous.AnonymousProcessingFilter .doFilterHttp(AnonymousProcessingFilter.java:105) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.rememberme.RememberMeProcessingFilter.doFi lterHttp(RememberMeProcessingFilter.java:116) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.wrapper.SecurityContextHolderAwareRequestFilt er.doFilterHttp(SecurityContextHolderAwareRequestFilter.java:91) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.basicauth.BasicProcessingFilter.doFilterHt tp(BasicProcessingFilter.java:172) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.AbstractProcessingFilter.doFilterHttp(Abst ractProcessingFilter.java:268) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.logout.LogoutFilter.doFilterHttp(LogoutFil ter.java:87) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.ui.SessionFixationProtectionFilter.doFilterHt tp(SessionFixationProtectionFilter.java:61) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.context.HttpSessionContextIntegrationFilter.d oFilterHttp(HttpSessionContextIntegrationFilter.java:235) at org.springframework.security.ui.SpringSecurityFilter.doFilter(SpringSecuri tyFilter.java:53) at org.springframework.security.util.FilterChainProxy$VirtualFilterChain.doFi lter(FilterChainProxy.java:371) at org.springframework.security.util.FilterChainProxy.doFilter(FilterChainPro xy.java:174) at org.springframework.web.filter.DelegatingFilterProxy.invokeDelegate(Delega tingFilterProxy.java:236) at org.springframework.web.filter.DelegatingFilterProxy.doFilter(DelegatingFi lterProxy.java:167) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Applicati onFilterChain.java:215) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilter Chain.java:188) at org.springframework.web.filter.CharacterEncodingFilter.doFilterInternal(Ch aracterEncodingFilter.java:96) at org.springframework.web.filter.OncePerRequestFilter.doFilter(OncePerReques tFilter.java:76) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(Applicati onFilterChain.java:215) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilter Chain.java:188) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve. java:213) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve. java:172) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:1 27) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:1 17) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.ja va:108) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:174 ) at org.apache.coyote.http11.Http11Processor.process(Http11Processor.java:873) at org.apache.coyote.http11.Http11BaseProtocol$Http11ConnectionHandler.proces sConnection(Http11BaseProtocol.java:665) at org.apache.tomcat.util.net.PoolTcpEndpoint.processSocket(PoolTcpEndpoint.j ava:528) at org.apache.tomcat.util.net.LeaderFollowerWorkerThread.runIt(LeaderFollower WorkerThread.java:81) at org.apache.tomcat.util.threads.ThreadPool$ControlRunnable.run(ThreadPool.j ava:689) at java.lang.Thread.run(Thread.java:619) -- Hannu Saarenmaa Head of Unit for Biodiversity Informatics (yli-intendentti, lajitietotiimi) Finnish Museum of Natural History P.O. Box 17 (P.Rautatiekatu 13) FIN-00014 University of Helsinki hannu.saarenmaa(a)helsinki.fi Telephone +358-9-191-28688 Mobile +358-50-3102689 http://www.gbif.fi/

3 2