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| | [[Category:NCBO Virtual Appliance]] | | [[Category:NCBO Virtual Appliance]] |
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| − | On this page you will find some guidelines on how Advanced administration of the BioPortal Virtual Appliance. To proceed you will need a ssh connexion to your Appliance.<br/>
| + | This content has been moved! Please visit it at our new [https://ontoportal.github.io/administration/ OntoPortal Virtual Appliance Administration pages]. |
| − | To simplify the examples we will consider we are using a Virtual Appliance deployed at '''http://my-bioportal-vm/'''
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| − | = NCBO architecture diagram =
| + | You can find Advanced content in each of the sections [https://ontoportal.github.io/administration/steps/ Installing OntoPortal], [https://ontoportal.github.io/administration/ontologies/ Managing Ontologies in OntoPortal], and [https://ontoportal.github.io/administration/management/ Managing Your System]. |
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| − | [[File:Ncbo_architecture.png]]
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| − | = Solr search index =
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| − | == Access to solr ==
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| − | It is hosted by the tomcat on the port 8082
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| − | http://my-bioportal-vm:8082/solr
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| − | There are 2 cores:
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| − | * core1 is used for search
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| − | * core2 is used when doing a full reindexing (it allows the search to work fine when reindexing the whole bioportal)
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| − | To swap the 2 cores:
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| − | * Go to core admin tab
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| − | * Select core1
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| − | * Hit the "Swap" button
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| − | == Reindex all ontologies in core2 ==
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| − | Re-indexing in the core2 allows the BioPortal Appliance to not stop working during the reindexing (you just have to swap the cores when the reindexing is over)
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| − | bin/ncbo_ontology_index -a -l logs/reindexing_all.log -c http://my-bioportal-vm:8082/solr/core2
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| − | == Reindex only the specified ontologies in core2 ==
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| − | bin/ncbo_ontology_index -o STY,SNOMED -l logs/reindexing_STY_SNOMED.log -c http://my-bioportal-vm:8082/solr/core2
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| − | = Updating the Annotator cache and dictionary =
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| − | See the [http://www.bioontology.org/wiki/index.php/Annotator_Documentation#Update_cache_and_dictionary Annotator Documentation]
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| − | = Common troubles =
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| − | == ontologies_report.json is missing ==
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| − | When running some job you can face the following error:
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| − | ontologies_report.json : No such file or directory
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| − | To avoid it you have to create a ''ontologies_report.json'' file at the following location:
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| − | /srv/reports/ontologies_report.json
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| − | It has to be owned by ncbobp:ncbobp and to have permission 666
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