Category:NCBO Virtual Machine Image

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The NCBO Virtual Machine Image contains a pre-installed, pre-configured version of commonly used NCBO software. The image was created using VMWare and is available for download from NCBO ADD_DOWNLOAD_LOCATION_HERE.

The following software is included on the image:

  • BioPortal Ontology Services (BioPortal Core)
  • BioPortal Web User Interface (including ontology visualization, Flex widgets, Annotator and Resource Index UIs)
  • BioPortal Admin (a UI for administering BioPortal Ontology Services)
  • Annotator
  • Resource Index

Please see below for how-to documentation for managing the software and running data population for Annotator and Resource Index.

Getting Started

  • The default hostname for the machine is ncbobioportal
  • Change default passwords
    • Operating System
      • Username: root
      • Password: changemeNOW
    • BioPortal Admin User
      • Username: admin
      • Password: changeme
  • Add an ontology using the BioPortal Admin User here: http://ncbobioportal/ontologies/new
    • BioPortal Ontology Services will automatically process new ontologies every hour at 30 minutes past the hour. This processing includes:
      • Parsing any new, unparsed ontologies
      • Calculating a set of metrics for these ontologies
      • Indexing these ontologies for use with search
  • Parsing, indexing, metrics calculation, and ontology deletion can all be manually triggered or re-triggered using the BioPortal Admin user interface, which is available here: http://ncbobioportal/bioportal_admin

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