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- #' Make a fresh install from the base VM
- #'
- #' Make a fresh install from the base VM
- #'
- #' Set the permissions,
- #' create the admin account for the system, database, and i2b2
- #' Set the domain and project
- #' Delete the default users
- #' Clear the metadata database, and the *_dimension tables in demodata
- #'
- #' @param admin The admin account for the PostgreSQL database
- #' @param pass the password for the admin account
- #' @param domain_id The desired domain_id
- #' @param domain_name The desired domain_name
- #' @export
- fresh_install <- function(admin, pass, domain_id, domain_name)
- {
- # System
- set_permissions()
-
- create_admin(admin, pass)
-
- # Clear the default install
- clear_webclient()
-
- clear_default_workdata()
-
- clear_default_metadata()
-
- clear_default_imdata()
-
- clear_default_demodata()
-
- # Set the new domain
- set_domain(domain_id, domain_name)
-
- # Add new admin
- add_users("i2b2", "demouser", data.frame(id = admin, password = pass, name = admin, email = "", role = "ADMIN", project = "@"))
-
- # Prepare to clone i2b2demodata
- service("pg", "restart")
-
- add_project("main", "Main Project")
-
- add_user_roles("i2b2", "demouser", "admin", "main", c("MANAGER", "USER", "DATA_PROT"))
-
- # Clean old users
- delete_users(c("i2b2","demo"))
-
- # Add ontologies
- # add_ont("Name", "Scheme")
-
- # Populate the ontologies
- # populate_ont(readr::read_csv(".ont"), readr::read_csv(".modi"), "Scheme")
-
- # Populate the concept/provider tables needed
- # populate_concept(readr::read_csv(".ont", readr::read_csv(".modi", "Scheme", "main")))
-
- # Restart wildfly
- service("jboss", "restart")
- }
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