ds.ls: lists all objects on a server-side environment
In datashield/dsBaseClient: DataSHIELD Client Functions

ds.ls

R Documentation

lists all objects on a server-side environment

Description

creates a list of the names of all of the objects in a specified serverside environment.

Usage

ds.ls(
  search.filter = NULL,
  env.to.search = 1L,
  search.GlobalEnv = TRUE,
  datasources = NULL
)

Arguments

`search.filter`	character string (potentially including `` symbol) specifying the filter for the object name that you want to find in the enviroment. For more information see Details*.
`env.to.search`	an integer (e.g. in `2` or `2L` format) specifying the position in the search path of the environment to be explored. `1L` is the current active analytic environment on the server-side and is the default value of `env.to.search`. For more information see Details.
`search.GlobalEnv`	Logical. If TRUE, `ds.ls` will list all objects in the `.GlobalEnv` R environment on the server-side. If FALSE and if `env.to.search` is also set as a valid integer, `ds.ls` will list all objects in the server-side R environment identified by `env.to.search` in the search path. For more information see Details.
`datasources`	a list of `DSConnection-class` objects obtained after login. If the `datasources` argument is not specified the default set of connections will be used: see `datashield.connections_default`.

Details

When running analyses one may want to know the objects already generated. This request is not disclosive as it only returns the names of the objects and not their contents.

By default, objects in DataSHIELD's Active Serverside Analytic Environment (.GlobalEnv) will be listed. This is the environment that contains all of the objects that server-side DataSHIELD is using for the main analysis or has written out to the server-side during the process of managing or undertaking the analysis (variables, scalars, matrices, data frames, etc).

The environment to explore is specified by the argument env.to.search (i.e. environment to search) to an integer value. The default environment which R names as .GlobalEnv is set by specifying env.to.search = 1 or 1L (1L is just an explicit way of writing the integer 1).

If the search.GlobalEnv argument is set to TRUE the env.to.search parameter is set to 1L regardless of what value it is set in the call or if it is set to NULL. So, if search.GlobalEnv is set to TRUE, ds.ls will automatically search the .GlobalEnv R environment on the server-side which contains all of the variables, data frames and other objects read in at the start of the analysis, as well as any new objects of any sort created using DataSHIELD assign functions.

Other server-side environments contain other objects. For example, environment 2L contains the functions loaded via the native R stats package and 6L contains the standard list of datasets built into R. By default ds.ls will return a list of ALL of the objects in the environment specified by the env.to.search argument but you can specify search filters including * wildcards using the search.filter argument.

In search.filter you can use the symbol * to find all the object that contains the specified characters. For example, search.filter = "Sd2*" will list the names of all objects in the specified environment with names beginning capital S, lower case d and number 2. Similarly, search.filter="*.ID" will return all objects with names ending with .ID, for example Study.ID. If a value is not specified for the search.filter argument or it is set as NULL, the names of all objects in the specified environment will be returned.

Server function called: lsDS.

Value

ds.ls returns to the client-side a list containing:
(1) the name/details of the server-side R environment which ds.ls has searched;
(2) a vector of character strings giving the names of all objects meeting the naming criteria specified by the argument search.filter in this specified R server-side environment;
(3) the nature of the search filter string as it was applied.

Author(s)

DataSHIELD Development Team

Examples

## Not run: 

  ## Version 6, for version 5 see the Wiki
  
  # connecting to the Opal servers

  require('DSI')
  require('DSOpal')
  require('dsBaseClient')

  builder <- DSI::newDSLoginBuilder()
  builder$append(server = "study1", 
                 url = "http://192.168.56.100:8080/", 
                 user = "administrator", password = "datashield_test&", 
                 table = "CNSIM.CNSIM1", driver = "OpalDriver")
  builder$append(server = "study2", 
                 url = "http://192.168.56.100:8080/", 
                 user = "administrator", password = "datashield_test&", 
                 table = "CNSIM.CNSIM2", driver = "OpalDriver")
  builder$append(server = "study3",
                 url = "http://192.168.56.100:8080/", 
                 user = "administrator", password = "datashield_test&", 
                 table = "CNSIM.CNSIM3", driver = "OpalDriver")
  logindata <- builder$build()
  
  connections <- DSI::datashield.login(logins = logindata, assign = TRUE, symbol = "D") 
  
  #Example 1: Obtain the list of  all objects on a server-side environment
  
  ds.ls(datasources = connections)
  
  #Example 2: Obtain the list of all objects that contain "var" character in the name
  #Create in the server-side variables with "var" character in the name
  
  ds.assign(toAssign = "D$LAB_TSC",
            newobj = "var.LAB_TSC",
            datasources = connections)
  ds.assign(toAssign = "D$LAB_TRIG",
            newobj = "var.LAB_TRIG",
            datasources = connections)
  ds.assign(toAssign = "D$LAB_HDL",
            newobj = "var.LAB_HDL",
            datasources = connections)
  
  ds.ls(search.filter = "var*",
        env.to.search = 1L,
        search.GlobalEnv = TRUE,
        datasources = connections)
  
  # clear the Datashield R sessions and logout
  datashield.logout(connections)

## End(Not run)

datashield/dsBaseClient documentation built on May 16, 2023, 10:19 p.m.