du.upload: Upload dictionaries and data into the DataSHIELD backend.

In lifecycle-project/ds-upload: Upload Functions for DataSHIELD Backends

Upload dictionaries and data into the DataSHIELD backend.

Description

Upload dictionaries and data into the DataSHIELD backend.

Usage

du.upload(
  dict_version,
  data_version = "1_0",
  dict_kind,
  cohort_id,
  database_name = "opal_data",
  data_input_format = du.enum.input.format()$CSV,
  data_input_path,
  action = du.enum.action()$ALL,
  upload = TRUE,
  run_mode = du.enum.run.mode()$NORMAL,
  override_project = NULL,
  download_method = "libcurl"
)

Arguments

dict_version	version of the data dictionary to be used
data_version	version of the dataset to be uploaded
dict_kind	can be 'core' or 'outcome'
cohort_id	cohort name: [du.enum.cohorts]
database_name	is the name of the data backend of DataSHIELD, default = opal_data
data_input_format	format of the database to be reshaped. Can be [du.enum.input.format]
data_input_path	path to the to-be-uploaded data
action	action to be performed, can be [du.enum.action]
upload	directly upload the reshaped database to the logged in DataSHIELD server, TRUE or FALSE
run_mode	default = NORMAL, [du.enum.run.mode]
override_project	overrides the generated project name
download_method	method to be passed to 'method' argument of download.file. Default is "libcurl".

Examples

## Not run: 
du.upload(
  data_input_format = "CSV",
  data_input_path = "~/path-to-file/all_measurements_v1_2.csv",
  data_version = "1_0",
  dict_version = "2_1",
  cohort_id = "gecko"
)

## End(Not run)

lifecycle-project/ds-upload documentation built on June 14, 2024, 6:54 a.m.