Start d2r on molgenis n3 mapping on molgenis4phenotype :

• In local installation d2r-server -p 2020 molgenis.n3
• there are some problems about :
  • de.fuberlin.wiwiss.d2rq.D2RQException: Column @@digital_identity.digital_identity_id@@ not found in database (E0)
  • Exception in thread "main" java.lang.NullPointerException?
    • at de.fuberlin.wiwiss.d2rs.JettyLauncher .start(JettyLauncher.java:68 )
    • at d2r.server.startServer(server.java:86 )
    • at d2r.server.main(server.java:57 )
  • The problem above is a inconsistency of the model that lives in the directory where d2r server is run and the database schema.
    • Solved by steps:
      1. generate in molgenis .
      2. update database
      3. run
      4. copy generated .n3 file in d2r running directory

TODO :

• Next steps : check which DB it makes use . This digital identity seems to be in a really old DB .(DONE)
• after taking NULL EXCEPTION off the command line run of D2R..(DONE - see steps above)
• check the SPARQL interface if is running om localhost/8080 ​http://localhost:2020/snorql/ (DONE check at http://localhost:2020/snorql/)

DONE :

23 d2rq:jdbcDSN "jdbc:mysql://127.0.0.1/addressbook "; this is actually used . So copy another molgenis n3 mapping from a valid database. The schemes seems to be incompatible .

Start d2r on molgenis n3 mapping on molgenisGCC project :

$$$ mv molgenis-rdf-mapping.n3 molgenis-rdf-mapping_gcc.n3

$$$ d2r-server molgenis-rdf-mapping_gcc.n3

• Fix missing classes:  (despoina)
  • * de.fuberlin.wiwiss.d2rq.D2RQException: Object for d2rq:refersToClassMap not found at d2rq:PropertyBridge map:Biobank_materials (E21) *