mlstrOpalr (version 1.0.3)

opal_tables_push: Upload datasets into an Opal environment as tables in an Opal project

Description

Uploads a dossier or dataset from the local environment to an Opal environment. This is a wrapper function for opalr::opal.table_create(), opalr::opal.table_save() and opalr::opal.table_dictionary_update().

Usage

opal_tables_push(
  opal,
  dossier = NULL,
  data_dict = NULL,
  dataset = NULL,
  table_name = NULL,
  project_name,
  .force = FALSE,
  .overwrite = FALSE
)

Value

A table or table(s) in Opal.

Arguments

opal

Opal login attributes.

dossier

List of data frame, each of them being datasets.

data_dict

A list of tibble(s) representing metadata of an associated dataset. Automatically generated if not provided.

dataset

A tibble identifying the dataset observations associated to its data dictionary.

table_name

A character string specifying an Opal table name.

project_name

A character string specifying the Opal project name.

.force

If the destination already exists, stop with an informative message if this flag is FALSE (default).

.overwrite

If the destination table already exists, it will be replaced (deleted, re-created with associated permissions reinstated and then imported). Otherwise the table will be updated (data dictionaries merge may conflict). Default is FALSE.*

Details

Opal is the OBiBa application for data management, and Opal environments can be integrated with RStudio environments using the package opalr. The user must have adequate credentials to interact with a specific Opal environment. Some function errors produced may be associated with the handler or Opal read/write permissions.

See Also

Please see Opal documentation for complete documentation. madshapR::as_dossier() madshapR::as_dataset() madshapR::as_data_dict_mlstr()

Examples

if (FALSE) {

library(opalr)
opal <- 
 opal.login('administrator','password',
   url ='https://opal-demo.obiba.org/')
    
# use madshapR_DEMO provided by the package
library(madshapR)
library(stringr)
dataset <- madshapR_DEMO$dataset_MELBOURNE
    
tempdir <- basename(tempdir())
try(opal_project_create(opal, tempdir))

# push a table in a project.
try(
  opal_tables_push(
  opal,
  dataset = dataset,
  table_name = 'MELBOURNE',
  project_name = tempdir,
  .force = TRUE,
  .overwrite = TRUE))

}