## ----eval=FALSE--------------------------------------------------------------- # library(opalr) # o <- opal.login("administrator", "password", "https://opal-demo.obiba.org") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.package_descriptions(o, profile = "default") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.install_package(o, pkg = "dsBase", profile = "default") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.install_github_package(o, pkg = "dsSurvival", username = "neelsoumya", ref = "v1.0.0", profile = "default") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.install_local_package(o, devtools::build(), profile = "default") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.remove_package(o, pkg = "dsSurvival", profile = "default") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.profiles(o) ## ----eval=FALSE--------------------------------------------------------------- # # ensure the profile does not exist # if (dsadmin.profile_exists(o, "demo")) # dsadmin.profile_delete(o, "demo") # # create a profile, disabled # dsadmin.profile_create(o, "demo", cluster = "default") # # make only dsBase and resourcer packages visible # dsadmin.profile_init(o, "demo", packages = c("dsBase", "resourcer")) # # ready to be used # dsadmin.profile_enable(o, "demo") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.profile_perm_add(o, "demo", subject = "testers", type = "group") # # verify permissions # dsadmin.profile_perm(o, "demo") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.get_methods(o, type = "aggregate", profile = "demo") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.set_method(o, "hello", func = function(x) { paste0("Hello ", x, "!") }, type = "aggregate", profile = "demo") # # verfiy custom method # dsadmin.get_method(o, "hello", type = "aggregate", profile = "demo") ## ----eval=FALSE--------------------------------------------------------------- # library(DSOpal) # builder <- DSI::newDSLoginBuilder() # builder$append(server = "study1", url = "https://opal-demo.obiba.org", # user = "administrator", password = "password", # profile = "demo") # logindata <- builder$build() # conns <- DSI::datashield.login(logins = logindata) # # call the hello() function on the R server # datashield.aggregate(conns, expr = quote(hello('friends'))) # datashield.logout(conns) ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.set_option(o, "datashield.privacyLevel", "10", profile = "demo") # # verify options # dsadmin.get_options(o, profile = "demo") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.profile_rparser(o, "demo", rParser = "v1") ## ----eval=FALSE--------------------------------------------------------------- # if (oadmin.user_exists(o, "userx")) # oadmin.user_delete(o, "userx") # # generated password # password <- oadmin.user_add(o, "userx", groups = c("demo", "datashield")) # # verify user # subset(oadmin.users(o), name == "userx") ## ----eval=FALSE--------------------------------------------------------------- # lapply(opal.tables(o, "CNSIM")$name, function(table) { # opal.table_perm_add(o, "CNSIM", table, subject = "demo", type = "group", permission = "view") # }) # # verify table permissions # opal.table_perm(o, "CNSIM", "CNSIM1") ## ----eval=FALSE--------------------------------------------------------------- # opal.resources_perm_add(o, "RSRC", subject = "demo", type = "group", permission = "view") # # verify permissions # opal.resources_perm(o, "RSRC") ## ----eval=FALSE--------------------------------------------------------------- # dsadmin.perm_add(o, subject = "datashield", type = "group", permission = "use") # # verify permissions # dsadmin.perm(o) ## ----eval=FALSE--------------------------------------------------------------- # opal.logout(o)