Error when trying to link a person with a grant

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juanlop...@gmail.com

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Nov 23, 2020, 6:33:34 PM11/23/20
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Hello,

I'm having some troubles ... when I'm going to assign a label to any investigator rol on a grant, the platform throws the following error: 

Mensaje de error: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#> . <https://redinvestigadores.org/individual/n3450> <http://purl.obolibrary.org/obo/RO_0000053> <https://redinvestigadores.org/individual/n1976> . <https://redinvestigadores.org/individual/n1976> a <http://vivoweb.org/ontology/core#ResearcherRole> . <https://redinvestigadores.org/individual/n1976> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450> .

Traza de errores (Traza completa disponible en el registro de VIVO): java.lang.Error: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#> . <https://redinvestigadores.org/individual/n3450> <http://purl.obolibrary.org/obo/RO_0000053> <https://redinvestigadores.org/individual/n1976> . <https://redinvestigadores.org/individual/n1976> a <http://vivoweb.org/ontology/core#ResearcherRole> . <https://redinvestigadores.org/individual/n1976> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:98) at edu.cornell.mannlib.vitro.webapp.controller.freemarker.FreemarkerHttpServlet.doGet(FreemarkerHttpServlet.java:106) at javax.servlet.http.HttpServlet.service(HttpServlet.java:634) at javax.servlet.http.HttpServlet.service(HttpServlet.java:741) at edu.cornell.mannlib.vitro.webapp.controller.VitroHttpServlet.service(VitroHttpServlet.java:71) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.filters.ExpiresFilter.doFilter(ExpiresFilter.java:1230) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doNonDisplayPage(PageRoutingFilter.java:111) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doFilter(PageRoutingFilter.java:102) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.ClickjackFilter.doFilter(ClickjackFilter.java:34) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.RequestModelsPrep.doFilter(RequestModelsPrep.java:59) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.URLRewriterFilter.doFilter(URLRewriterFilter.java:40) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.JSessionStripFilter.doFilter(JSessionStripFilter.java:63) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.produceBasicResponse(CachingResponseFilter.java:321) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.doFilter(CachingResponseFilter.java:120) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.i18n.selection.LocaleSelectionFilter.doFilter(LocaleSelectionFilter.java:64) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CharsetEncodingFilter.doFilter(CharsetEncodingFilter.java:36) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.SessionTimeoutLimitingFilter.doFilter(SessionTimeoutLimitingFilter.java:41) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.StartupStatusDisplayFilter.doFilter(StartupStatusDisplayFilter.java:66) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:199) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:139) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92) at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:651) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.ajp.AjpProcessor.service(AjpProcessor.java:394) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:754) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1385) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.lang.Thread.run(Thread.java:748) Caused by: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#> . <https://redinvestigadores.org/individual/n3450> <http://purl.obolibrary.org/obo/RO_0000053> <https://redinvestigadores.org/individual/n1976> . <https://redinvestigadores.org/individual/n1976> a <http://vivoweb.org/ontology/core#ResearcherRole> . <https://redinvestigadores.org/individual/n1976> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToRDF(ProcessRdfForm.java:302) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToChange(ProcessRdfForm.java:259) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.editExistingStatements(ProcessRdfForm.java:161) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.process(ProcessRdfForm.java:79) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:95) ... 61 more

Causada por: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#> . <https://redinvestigadores.org/individual/n3450> <http://purl.obolibrary.org/obo/RO_0000053> <https://redinvestigadores.org/individual/n1976> . <https://redinvestigadores.org/individual/n1976> a <http://vivoweb.org/ontology/core#ResearcherRole> . <https://redinvestigadores.org/individual/n1976> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToRDF(ProcessRdfForm.java:302) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToChange(ProcessRdfForm.java:259) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.editExistingStatements(ProcessRdfForm.java:161) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.process(ProcessRdfForm.java:79) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:95) at edu.cornell.mannlib.vitro.webapp.controller.freemarker.FreemarkerHttpServlet.doGet(FreemarkerHttpServlet.java:106) at javax.servlet.http.HttpServlet.service(HttpServlet.java:634) at javax.servlet.http.HttpServlet.service(HttpServlet.java:741) at edu.cornell.mannlib.vitro.webapp.controller.VitroHttpServlet.service(VitroHttpServlet.java:71) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.filters.ExpiresFilter.doFilter(ExpiresFilter.java:1230) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doNonDisplayPage(PageRoutingFilter.java:111) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doFilter(PageRoutingFilter.java:102) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.ClickjackFilter.doFilter(ClickjackFilter.java:34) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.RequestModelsPrep.doFilter(RequestModelsPrep.java:59) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.URLRewriterFilter.doFilter(URLRewriterFilter.java:40) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.JSessionStripFilter.doFilter(JSessionStripFilter.java:63) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.produceBasicResponse(CachingResponseFilter.java:321) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.doFilter(CachingResponseFilter.java:120) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.i18n.selection.LocaleSelectionFilter.doFilter(LocaleSelectionFilter.java:64) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CharsetEncodingFilter.doFilter(CharsetEncodingFilter.java:36) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.SessionTimeoutLimitingFilter.doFilter(SessionTimeoutLimitingFilter.java:41) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.StartupStatusDisplayFilter.doFilter(StartupStatusDisplayFilter.java:66) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:199) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:139) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92) at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:651) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.ajp.AjpProcessor.service(AjpProcessor.java:394) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:754) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1385) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.lang.Thread.run(Thread.java:748


any ideas what might be the problem here?


best regards,


Juan.

Andrew Woods

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Nov 23, 2020, 7:39:44 PM11/23/20
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Hello Juan,
What version of VIVO are you using?
Regards,
Andrew

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Sent: Monday, November 23, 2020 6:33 PM
To: VIVO Tech
Subject: [vivo-tech] Error when trying to link a person with a grant
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juanlop...@gmail.com

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Nov 24, 2020, 11:35:09 AM11/24/20
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Hello andrew,

I'm using V 1.10 

Andrew Woods

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Nov 27, 2020, 11:48:11 AM11/27/20
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Thank you, Juan.

The issue you are seeing is likely related to fact that the placeholders in the RDF (such as your "?inverseRolePredicate") should be replaced with actual values here:
https://github.com/vivo-project/Vitro/blob/vitro-1.10.0/api/src/main/java/edu/cornell/mannlib/vitro/webapp/edit/n3editing/VTwo/ProcessRdfForm.java#L157-L159

Can you provide the detailed steps you are taking in the UI that results in this error.

Additionally, is there anything about your data that may be helpful to note?

Regards,
Andrew

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Sent: Tuesday, November 24, 2020 11:35 AM
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Subject: Re: [vivo-tech] Error when trying to link a person with a grant
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juanlop...@gmail.com

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Nov 30, 2020, 9:01:18 AM11/30/20
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Hello Andrew,

Thanks for your reply!

Here are the steps I'm taking that throws the error:

1. Click a researcher.
2. Click on the "plus button" of Other Research Activities
3. Declare a role at any investigation project.
4. Click "Save" and the error is thrown.

And for your first comment, does that means that I have to update my ProcessRdfForm.java to what the github has and then recompile VIVO again?

Thanks in advance

Gross, Benjamin

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Nov 30, 2020, 10:25:33 AM11/30/20
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Have you altered ProcessRdfForm.java or AddResearcherRoleToPersonGenerator.java at all? I’m not experiencing that error using the current VIVO dev code. 
Have you made any changes to the ontology files? It seems possible the inverse value of obo:RO_0000053 is not being read or parsed for some reason. The value in this case should be obo:RO_0000052, but as Andrew mentioned, it’s not being dropped in as expected.

Benjamin


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Benjamin Gross
VIVO Product Manager, Web of Science Group

Clarivate
Accelerating innovation

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juanlop...@gmail.com

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Nov 30, 2020, 6:05:11 PM11/30/20
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As far as I know, We haven't made any change on the core ontologies of vivo ... where can I see the possible changes made on my ontology list?

Brian Lowe

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Dec 2, 2020, 3:49:12 AM12/2/20
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Hi Juan,

 

We discussed your issue on yesterday’s VIVO developer call.  Following prior sleuthing by Benjamin, Andrew and others, we raised the possibility that you might be missing an inferred ontology triple if somehow your reasoner is not running correctly.

 

If you run the following query from the SPARQL query page linked from Site Admin, does it report true or false?  Also, do you see any errors in your vivo.all.log that mention reasoning or inferences?

 

ASK { <http://purl.obolibrary.org/obo/RO_0000053> owl:inverseOf <http://purl.obolibrary.org/obo/RO_0000052> }

 

Brian

 

De la: vivo...@googlegroups.com <vivo...@googlegroups.com> În numele juanlop...@gmail.com
Trimis: marți, 1 decembrie 2020 01:05
Către: VIVO Tech <vivo...@googlegroups.com>
Subiect: Re: [vivo-tech] Error when trying to link a person with a grant

juanlop...@gmail.com

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Dec 3, 2020, 11:37:53 AM12/3/20
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Hi Brian!

Is always great to hear from you!

At this exact moment the sparql query throws a "false" and the vivo.all.log doesn't seems to report any errors about this.


Juan.

Brian Lowe

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Dec 4, 2020, 10:40:43 AM12/4/20
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Hi Juan,

 

OK, so that’s something.  The “false” indicates the lack of that expected triple is at least the immediate cause of the form’s failure.  I realized that I should have also asked you to try the ASK in the other direction at the same time, e.g.

 

ASK { <http://purl.obolibrary.org/obo/RO_0000052> owl:inverseOf <http://purl.obolibrary.org/obo/RO_0000053> }

 

This second query checks for the triple we would expect to get loaded from the ontology files that ship with VIVO.  If this query returns true, then it means that your problem is a lack of a triple that is supposed to be filled in by the reasoner.  But since it sounds like your log does not show (obvious) inference-related errors, perhaps you’re actually missing the original triple from the ontology itself:  that would be the case if the query above also returns false.

 

So if this one is also false, the next thing I would look at is the rdf/tbox/filegraph subdirectory of your VIVO home directory to see if the files there look like they might have been modified locally.

 

Brian

 

De la: vivo...@googlegroups.com <vivo...@googlegroups.com> În numele juanlop...@gmail.com
Trimis: joi, 3 decembrie 2020 18:38

juanlop...@gmail.com

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Dec 4, 2020, 2:02:11 PM12/4/20
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Hi Brian,

The query returns true, in this case what should we do to fix this issue?

Juan

Brian Lowe

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Dec 8, 2020, 8:05:46 AM12/8/20
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Hi Juan,

 

I would suggest, as an immediate fix to get around the form issue, to add the missing inference to your “asserted TBox”.  That is, paste the following triples into a file and use Site Admin > “Add/Remove RDF data” > add mixed RDF to load it in N-Triples format :

 

<http://purl.obolibrary.org/obo/RO_0000053> <http://www.w3.org/2002/07/owl#inverseOf> <http://purl.obolibrary.org/obo/RO_0000052> .

<http://purl.obolibrary.org/obo/RO_0000053> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/2002/07/owl#ObjectProperty> .

<http://purl.obolibrary.org/obo/RO_0000052> <http://www.w3.org/1999/02/22-rdf-syntax-ns#type> <http://www.w3.org/2002/07/owl#ObjectProperty> .

 

(The redundant type triples are so the Add/Remove RDF recognizes which graph it should store it in.)  Hopefully after loading this, your form will start to work (unless it finds something else missing).

 

After that, I would be curious what happens when you add a new ontology entity through the interface.  I would do Site Admin > Class hierarchy > Add New Class and enter some temporary test values.  Then, after submitting the form, in the address bar, change the vclassEdit?uri part of the URI to entityEdit?uri= and hit Enter.  Press the “Raw Statements with This Resource as Subject.”  Do you see two triples that are in the http://vitro.mannlib.cornell.edu/default/inferred-tbox graph? Namely, that the new class you created is inferred to be subclass of owl:Thing and that it is equivalent to itself?

 

Brian

 

De la: vivo...@googlegroups.com <vivo...@googlegroups.com> În numele juanlop...@gmail.com
Trimis: vineri, 4 decembrie 2020 21:02

juanlop...@gmail.com

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Dec 10, 2020, 12:07:40 PM12/10/20
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Hi Brian,

After aplying that change the error is not showing anymore, however,  the connection between the person and the project is showing "missing activity":



Maybe we left something out on the n-triplet?

Andrew Woods

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Dec 10, 2020, 12:31:19 PM12/10/20
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My question here is, "why are these inferred triples missing, and is the setup of the inferencer culpable"?
Andrew

________________________________________
From: vivo...@googlegroups.com <vivo...@googlegroups.com> on behalf of juanlop...@gmail.com <juanlop...@gmail.com>
Sent: Thursday, December 10, 2020 12:07 PM
To: VIVO Tech
Subject: Re: [vivo-tech] Error when trying to link a person with a grant

Hi Brian,

After aplying that change the error is not showing anymore, however, the connection between the person and the project is showing "missing activity":

[X]
Have you altered ProcessRdfForm.java or AddResearcherRoleToPersonGenerator.java<https://github.com/vivo-project/VIVO/blob/master/api/src/main/java/edu/cornell/mannlib/vitro/webapp/edit/n3editing/configuration/generators/AddResearcherRoleToPersonGenerator.java> at all? I’m not experiencing that error using the current VIVO dev code.
Have you made any changes to the ontology files? It seems possible the inverse value of obo:RO_0000053 is not being read or parsed for some reason. The value in this case should be obo:RO_0000052, but as Andrew mentioned, it’s not being dropped in as expected.

Benjamin


_____________________________
Benjamin Gross
VIVO Product Manager, Web of Science Group

Clarivate
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Accelerating innovation

On Nov 30, 2020, at 7:01 AM, juanlop...@gmail.com<http://gmail.com> <juanlop...@gmail.com> wrote:

Hello Andrew,

Thanks for your reply!

Here are the steps I'm taking that throws the error:

1. Click a researcher.
2. Click on the "plus button" of Other Research Activities
3. Declare a role at any investigation project.
4. Click "Save" and the error is thrown.

And for your first comment, does that means that I have to update my ProcessRdfForm.java<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_vivo-2Dproject_Vitro_blob_vitro-2D1.10.0_api_src_main_java_edu_cornell_mannlib_vitro_webapp_edit_n3editing_VTwo_ProcessRdfForm.java-23L157-2DL159&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=68R-A1KOBBYewZZdCDJ06wYkOAfQB7xs6KMV-5xGkx0&e=> to what the github has and then recompile VIVO again?

Thanks in advance
El viernes, 27 de noviembre de 2020 a las 11:48:11 UTC-5, andrew...@lyrasis.org<http://lyrasis.org> escribió:
Thank you, Juan.

The issue you are seeing is likely related to fact that the placeholders in the RDF (such as your "?inverseRolePredicate") should be replaced with actual values here:
https://github.com/vivo-project/Vitro/blob/vitro-1.10.0/api/src/main/java/edu/cornell/mannlib/vitro/webapp/edit/n3editing/VTwo/ProcessRdfForm.java#L157-L159<https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_vivo-2Dproject_Vitro_blob_vitro-2D1.10.0_api_src_main_java_edu_cornell_mannlib_vitro_webapp_edit_n3editing_VTwo_ProcessRdfForm.java-23L157-2DL159&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=68R-A1KOBBYewZZdCDJ06wYkOAfQB7xs6KMV-5xGkx0&e=>

Can you provide the detailed steps you are taking in the UI that results in this error.

Additionally, is there anything about your data that may be helpful to note?

Regards,
Andrew

________________________________________
From: vivo...@googlegroups.com <vivo...@googlegroups.com> on behalf of juanlop...@gmail.com <juanlop...@gmail.com>
Sent: Tuesday, November 24, 2020 11:35 AM
To: VIVO Tech
Subject: Re: [vivo-tech] Error when trying to link a person with a grant

Hello andrew,

I'm using V 1.10

El lunes, 23 de noviembre de 2020 a las 19:39:44 UTC-5, andrew...@lyrasis.org escribió:
Hello Juan,
What version of VIVO are you using?
Regards,
Andrew

________________________________________
From: vivo...@googlegroups.com <vivo...@googlegroups.com> on behalf of juanlop...@gmail.com <juanlop...@gmail.com>
Sent: Monday, November 23, 2020 6:33 PM
To: VIVO Tech
Subject: [vivo-tech] Error when trying to link a person with a grant

Hello,

I'm having some troubles ... when I'm going to assign a label to any investigator rol on a grant, the platform throws the following error:


Mensaje de error: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=FfCsi-ZcSUFPFKs6JIAtQVUQAQafTH5Mb4N--tzzgco&e=>> . <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> <http://purl.obolibrary.org/obo/RO_0000053<https://urldefense.proofpoint.com/v2/url?u=http-3A__purl.obolibrary.org_obo_RO-5F0000053&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=KAOy7hSxkHa7hgeswH5e0MMhul27vCnc-283UHHfcQk&e=>> <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> a <http://vivoweb.org/ontology/core#ResearcherRole<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23ResearcherRole&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=pLn2AdJZikemmwfvfSDMbfkudtTWzYHsHmBl6pWy0ck&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> .

Traza de errores (Traza completa disponible en el registro de VIVO): java.lang.Error: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=FfCsi-ZcSUFPFKs6JIAtQVUQAQafTH5Mb4N--tzzgco&e=>> . <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> <http://purl.obolibrary.org/obo/RO_0000053<https://urldefense.proofpoint.com/v2/url?u=http-3A__purl.obolibrary.org_obo_RO-5F0000053&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=KAOy7hSxkHa7hgeswH5e0MMhul27vCnc-283UHHfcQk&e=>> <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> a <http://vivoweb.org/ontology/core#ResearcherRole<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23ResearcherRole&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=pLn2AdJZikemmwfvfSDMbfkudtTWzYHsHmBl6pWy0ck&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:98) at edu.cornell.mannlib.vitro.webapp.controller.freemarker.FreemarkerHttpServlet.doGet(FreemarkerHttpServlet.java:106) at javax.servlet.http.HttpServlet.service(HttpServlet.java:634) at javax.servlet.http.HttpServlet.service(HttpServlet.java:741) at edu.cornell.mannlib.vitro.webapp.controller.VitroHttpServlet.service(VitroHttpServlet.java:71) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.filters.ExpiresFilter.doFilter(ExpiresFilter.java:1230) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doNonDisplayPage(PageRoutingFilter.java:111) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doFilter(PageRoutingFilter.java:102) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.ClickjackFilter.doFilter(ClickjackFilter.java:34) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.RequestModelsPrep.doFilter(RequestModelsPrep.java:59) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.URLRewriterFilter.doFilter(URLRewriterFilter.java:40) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.JSessionStripFilter.doFilter(JSessionStripFilter.java:63) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.produceBasicResponse(CachingResponseFilter.java:321) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.doFilter(CachingResponseFilter.java:120) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.i18n.selection.LocaleSelectionFilter.doFilter(LocaleSelectionFilter.java:64) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CharsetEncodingFilter.doFilter(CharsetEncodingFilter.java:36) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.SessionTimeoutLimitingFilter.doFilter(SessionTimeoutLimitingFilter.java:41) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.StartupStatusDisplayFilter.doFilter(StartupStatusDisplayFilter.java:66) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:199) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:139) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92) at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:651) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.ajp.AjpProcessor.service(AjpProcessor.java:394) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:754) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1385) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.lang.Thread.run(Thread.java:748) Caused by: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=FfCsi-ZcSUFPFKs6JIAtQVUQAQafTH5Mb4N--tzzgco&e=>> . <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> <http://purl.obolibrary.org/obo/RO_0000053<https://urldefense.proofpoint.com/v2/url?u=http-3A__purl.obolibrary.org_obo_RO-5F0000053&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=KAOy7hSxkHa7hgeswH5e0MMhul27vCnc-283UHHfcQk&e=>> <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> a <http://vivoweb.org/ontology/core#ResearcherRole<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23ResearcherRole&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=pLn2AdJZikemmwfvfSDMbfkudtTWzYHsHmBl6pWy0ck&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToRDF(ProcessRdfForm.java:302) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToChange(ProcessRdfForm.java:259) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.editExistingStatements(ProcessRdfForm.java:161) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.process(ProcessRdfForm.java:79) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:95) ... 61 more

Causada por: java.lang.Exception: Errors processing required N3. The EditConfiguration should be setup so that if a submission passes validation, there will not be errors in the required N3. [line: 4, col: 50] Not a valid token for an RDF term: [VAR:inverseRolePredicate] N3: @prefix core: <http://vivoweb.org/ontology/core#<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=FfCsi-ZcSUFPFKs6JIAtQVUQAQafTH5Mb4N--tzzgco&e=>> . <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> <http://purl.obolibrary.org/obo/RO_0000053<https://urldefense.proofpoint.com/v2/url?u=http-3A__purl.obolibrary.org_obo_RO-5F0000053&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=KAOy7hSxkHa7hgeswH5e0MMhul27vCnc-283UHHfcQk&e=>> <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> a <http://vivoweb.org/ontology/core#ResearcherRole<https://urldefense.proofpoint.com/v2/url?u=http-3A__vivoweb.org_ontology_core-23ResearcherRole&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=pLn2AdJZikemmwfvfSDMbfkudtTWzYHsHmBl6pWy0ck&e=>> . <https://redinvestigadores.org/individual/n1976<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n1976&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=tiPc1_DZ0aA2EsaY1gVhrQb---Be96C_vOJ73_uKei0&e=>> ?inverseRolePredicate <https://redinvestigadores.org/individual/n3450<https://urldefense.proofpoint.com/v2/url?u=https-3A__redinvestigadores.org_individual_n3450&d=DwMFaQ&c=OGmtg_3SI10Cogwk-ShFiw&r=Ag44mtLAVeml2NkGcBnDJkhzy1zEmeKaYoIXJtzmKVY&m=tf9NE131F_EciHQLXoVP7oOIEYw1REhgNMx1Uy2j0ag&s=MWnAMD1ck_Bt-x_yr2Z-5kO7IQ7U5dH19zx4C4DnOdg&e=>> . at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToRDF(ProcessRdfForm.java:302) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.parseN3ToChange(ProcessRdfForm.java:259) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.editExistingStatements(ProcessRdfForm.java:161) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.VTwo.ProcessRdfForm.process(ProcessRdfForm.java:79) at edu.cornell.mannlib.vitro.webapp.edit.n3editing.controller.ProcessRdfFormController.processRequest(ProcessRdfFormController.java:95) at edu.cornell.mannlib.vitro.webapp.controller.freemarker.FreemarkerHttpServlet.doGet(FreemarkerHttpServlet.java:106) at javax.servlet.http.HttpServlet.service(HttpServlet.java:634) at javax.servlet.http.HttpServlet.service(HttpServlet.java:741) at edu.cornell.mannlib.vitro.webapp.controller.VitroHttpServlet.service(VitroHttpServlet.java:71) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:231) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.tomcat.websocket.server.WsFilter.doFilter(WsFilter.java:53) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.filters.ExpiresFilter.doFilter(ExpiresFilter.java:1230) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doNonDisplayPage(PageRoutingFilter.java:111) at edu.cornell.mannlib.vitro.webapp.filters.PageRoutingFilter.doFilter(PageRoutingFilter.java:102) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.ClickjackFilter.doFilter(ClickjackFilter.java:34) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.RequestModelsPrep.doFilter(RequestModelsPrep.java:59) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.URLRewriterFilter.doFilter(URLRewriterFilter.java:40) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.JSessionStripFilter.doFilter(JSessionStripFilter.java:63) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.produceBasicResponse(CachingResponseFilter.java:321) at edu.cornell.mannlib.vitro.webapp.filters.CachingResponseFilter.doFilter(CachingResponseFilter.java:120) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.i18n.selection.LocaleSelectionFilter.doFilter(LocaleSelectionFilter.java:64) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.CharsetEncodingFilter.doFilter(CharsetEncodingFilter.java:36) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.SessionTimeoutLimitingFilter.doFilter(SessionTimeoutLimitingFilter.java:41) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at edu.cornell.mannlib.vitro.webapp.filters.StartupStatusDisplayFilter.doFilter(StartupStatusDisplayFilter.java:66) at org.apache.catalina.core.ApplicationFilterChain.internalDoFilter(ApplicationFilterChain.java:193) at org.apache.catalina.core.ApplicationFilterChain.doFilter(ApplicationFilterChain.java:166) at org.apache.catalina.core.StandardWrapperValve.invoke(StandardWrapperValve.java:199) at org.apache.catalina.core.StandardContextValve.invoke(StandardContextValve.java:96) at org.apache.catalina.authenticator.AuthenticatorBase.invoke(AuthenticatorBase.java:494) at org.apache.catalina.core.StandardHostValve.invoke(StandardHostValve.java:139) at org.apache.catalina.valves.ErrorReportValve.invoke(ErrorReportValve.java:92) at org.apache.catalina.valves.AbstractAccessLogValve.invoke(AbstractAccessLogValve.java:651) at org.apache.catalina.core.StandardEngineValve.invoke(StandardEngineValve.java:87) at org.apache.catalina.connector.CoyoteAdapter.service(CoyoteAdapter.java:343) at org.apache.coyote.ajp.AjpProcessor.service(AjpProcessor.java:394) at org.apache.coyote.AbstractProcessorLight.process(AbstractProcessorLight.java:66) at org.apache.coyote.AbstractProtocol$ConnectionHandler.process(AbstractProtocol.java:754) at org.apache.tomcat.util.net.NioEndpoint$SocketProcessor.doRun(NioEndpoint.java:1385) at org.apache.tomcat.util.net.SocketProcessorBase.run(SocketProcessorBase.java:49) at java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1149) at java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:624) at org.apache.tomcat.util.threads.TaskThread$WrappingRunnable.run(TaskThread.java:61) at java.lang.Thread.run(Thread.java:748


any ideas what might be the problem here?


best regards,


Juan.

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juanlop...@gmail.com

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Dec 10, 2020, 12:42:08 PM12/10/20
to VIVO Tech
Hi andrew, we used the 1.10 version of github to make the installation.

for the moment, I have a question... can we add something to this list? 
The property is "Contributor" and is a faux property of Vivo:relates

juanlop...@gmail.com

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Dec 10, 2020, 12:49:44 PM12/10/20
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I'm sorry, I thing that the list didn't paste:

Captura de pantalla 2020-12-10 124918.png

Brian Lowe

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Jan 13, 2021, 5:06:18 AM1/13/21
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Hi Juan,

We revisited your issue yesterday on the Developers call. Are you still experiencing these problems when editing? The "missing activity" that appears after the form submits definitely makes it seem likely that your reasoner simply isn't working at all -- which is not a situation any of us recalls observing, except in cases where we've intentionally disabled reasoning.

Have you by chance made any changes to startup_listeners.txt that would disable the reasoner? Assuming you haven't, in order to diagnose any further we'd probably need to see an extract from your vivo.all.log file. If you're able to share the segment starting the line *after* INFO [ConfigurationProperties] and up until [JSessionStripFilter] Filtering: no jsessionids will be generated , we can try to see if anything looks amiss.

Brian

-----Mesaj original-----
De la: vivo...@googlegroups.com <vivo...@googlegroups.com> În numele Andrew Woods
Trimis: joi, 10 decembrie 2020 19:31
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juanlop...@gmail.com

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Jan 16, 2021, 5:49:37 PM1/16/21
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Hello Brian!

I Wish a very good 2021 for you.

In this moment we are not having this issue anymore, I think that the solution that you guys told us worked after some time.

Thank you very much!
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