VocBench (and Semantic Turkey) 11.2 and ShowVoc 2.2 "LifeWatch BE-LISA" release

[Armando Stellato]

Dear all,

 

Version 11.2 of VocBench and 2.2 of ShowVoc have been released today, and are available at the following pages:

 

VocBench: http://vocbench.uniroma2.it/downloads/

 

ShowVoc: http://showvoc.uniroma2.it/downloads/

 

These versions have been developed in the context of the BE-LISA project, funded by the LifeWatch ERIC e-Science infrastructure for Biodiversity and Ecosystem Research

 

 

GraphDB and RDF4J compliancy:

 

You can still use the same versions adopted with VocBench/ShowVoc: 11.2/2.2

 

GraphDB compliancy is the same as for VB 11.1/SV 2.1, with the caveat of not moving to the most recent GDB 10.x

So, we provide a link to 9.8.1 (the last one not requiring the separated indexing plugin) in our installation docs: http://vocbench.uniroma2.it/doc/sys/#separate_triple_store

If you have a more recent version (still in the 9.x range, so < 10.0), after version 9.8.1 of GDB, the indexing system adopted by VocBench is no more embedded into GDB, it needs to be deployed manually into the plugins directory of the triple store.

This is available by download here:

https://bitbucket.org/art-uniroma2/semantic-turkey/downloads/lucene-fts-plugin.zip

 

Release notes

 

Release notes are reported below for the two applications and for their common service backend.

 

SemanticTurkey 11.2

  * improved the OntoPortal connector to consider the frontend base URL and retrieve missing settings from /site_config

  * improved the OntoPortal deployer to identify violations of constraints on data structure and then try to propose fixes

  * added a Deployer targeting ShowVoc

  * added an exporter for a selected scheme

  * added support for HTTP resolution and Content negotiation

  * fixed a bug related to an exception about the use of abstract datasets erroneously raised in assisted search when

    selecting a local project

  * fixed a bug related to transaction management preventing the execution of assisted search on local projects

  * updated dependency on Sheet2RDF 5.0.3

 

VocBench Web App 11.2

• Added possibility to filter structure tabs in Data page
• In the Data page added the possibility to prompt an addess to resolve
• Fixed performances issues by replacing usage setTimeout() with ChangeDetectorRef#detectChanges(). Thanks to Saku Seppälä for the contribution!
• Fixed authorization issues with CustomSearch stored at system level
• Minor bugfixes and improvements
• See Semantic Turkey improvements related to available deployers and other major functionalities

ShowVoc Web App 2.2

•     Added model-oriented graph and class-diagram (uml-like)
•     Implemented the facet-based visualization of datasets
•     Implemented MetadataRegistry
•     Introduced Customizable Reports for internal users
•     Introduced Custom Services for internal users
•     Implemented Custom Search
•     Implemented storage of SPARQL queries (for authenticated user only)
•     Added parameterized SPARQL queries (for authenticated user only)
•     Added statistical charts in Metadata page
•     Implemented support for HTTP resolution and content-negotiation
•     Fixed performances issues by replacing usage setTimeout() with ChangeDetectorRef#detectChanges(). Thanks to Saku Seppälä for the contribution!

 

Migration from a previous version of the system

As usual, for people migrating from a previous version of VocBench 3 / ShowVoc, it suffices to:

• keep the “SemanticTurkeyData” directory (you might want to make a backup just in case anything happens, even though the system has been extensively tested for migration)
• consider that some migration routines will make the data directory not entirely compatible with prior versions of VocBench
• remove the previous distribution (directory semanticturkey-x.y) and replace it with the new one inside the vocbench3-11.2-full.zip (or equivalent of ShowVoc) archive
• if using an external triple store:
• replace the old st-changetracking-sail-x.y.jar file located in the lib directory of the triple store with the new one: st-changetracking-sail-11.2.jar, that can be extracted from:
  /semanticturkey-11.2.0/system/it/uniroma2/art/semanticturkey/st-changetracking-sail/11.2
• replace the old st-trivial-inference-sail-x.y.jar file located in the lib directory of the triple store with the new one: st-trivial-inference-sail-11.2.jar, that can be extracted from:
  /semanticturkey-11.2.0/system/it/uniroma2/art/semanticturkey/st-trivial-inference-sail/11.2

  

For developers willing to recompile the project:

 

all of the dependencies of VocBench based on other software written by us:

• semantic-turkey (11.2):        http://semanticturkey.uniroma2.it/        https://bitbucket.org/art-uniroma2/semantic-turkey   
• coda (1.7.6):            http://art.uniroma2.it/coda/            https://bitbucket.org/art-uniroma2/coda   
• lime-api (0.4.3):        http://art.uniroma2.it/lime/            https://bitbucket.org/art-uniroma2/lime-api        
• sheet2rdf (5.0.3):    http://art.uniroma2.it/sheet2rdf/    https://bitbucket.org/art-uniroma2/sheet2rdf
• maple (0.0.12):    http://art.uniroma2.it/maple/    https://bitbucket.org/art-uniroma2/maple

 

have already been committed to Maven Central, so they may choose what to re-build and what to take as-is from the dependencies

 

Cheers,

 

The VocBench/ShowVoc team

 

 

 

P.S. there’s an annoying bug at startup:

 

After the first installation and run, the system might log some errors on the console. These errors are non-deterministic (they depend on non-synchronic factors, which vary from machine to machine) but are usually related to installation of bundles/web bundles. Examples are:              

 

Failed to install artifact: C:\Users\Tiziano\Desktop\TEMP\semanticturkey-6.0\deploy\vocbench3-6.0.0.war

java.lang.IllegalStateException: Unknown protocol: webbundle

        at org.apache.felix.framework.URLHandlersStreamHandlerProxy.toExternalForm(URLHandlersStreamHandlerProxy.java:482)

        at org.apache.felix.framework.URLHandlersStreamHandlerProxy.toExternalForm(URLHandlersStreamHandlerProxy.java:474)

        at java.net.URL.toExternalForm(URL.java:929)

        at java.net.URL.toString(URL.java:915)

        ….

 

OR

 

18:57:40.185 ERROR [fileinstall-C:\TEMP\semanticturkey-6.0/deploy] Registration exception. Skipping.

org.osgi.service.http.NamespaceException: alias: '/vocbench3' is already in use in this or another context

        at org.ops4j.pax.web.service.spi.model.ServerModel.addServletModel(ServerModel.java:124)

        at org.ops4j.pax.web.service.internal.HttpServiceStarted.registerServlet(HttpServiceStarted.java:243)

        at org.ops4j.pax.web.service.internal.HttpServiceStarted.registerResources(HttpServiceStarted.java:307)

        at org.ops4j.pax.web.service.internal.HttpServiceProxy.registerResources(HttpServiceProxy.java:76)

 

In that case, ignore the error, wait for the various procedures to complete and when they are finished, close the system and restart. Since the second time the system is started, they do not usually appear anymore, because the bundles have been installed and they are all available at system start.

 

We will fix this annoyance with a major revision of the architecture in the next releases.