tests/testthat/test_get_tandem_seq_from_tandem_id.R

In avidaR: A Computational Biologist’s Toolkit To Get Data From 'avidaDB'

test_that("get_tandem_seq_from_tandem_id", {
  
  skip_if_offline(host = "graphdb.fortunalab.org")
  
  suppressMessages({
    triplestore <- triplestore_access$new()
    
    response <- triplestore$set_access_options(
      url = "https://graphdb.fortunalab.org",
      user = "public_avida",
      password = "public_avida",
      repository = "avidaDB_test"
    )
    
    found1 <- get_tandem_seq_from_tandem_id(
      tandem_id = 87873,
      triplestore = triplestore
    )
  
    found2 <- get_tandem_seq_from_tandem_id(
      tandem_id = c(87873, 388401),
      seed_id = c(2,1),
      tandem_pos = TRUE,
      triplestore = triplestore
    )
    
    skip_if(is.null(response) || is.null(found1) || is.null(found2))
  
    expect_match(class(found1), "data.frame")
    expect_equal(nrow(found1), 1)
    expect_equal(colnames(found1), c("tandem_id", "tandem_seq"))
  
    expect_match(class(found2), "data.frame")
    expect_true(nrow(found2) > 0)
    expect_equal(colnames(found2), c("seed_id", "tandem_id", "tandem_seq", "tandem_pos"))
    expect_equal(grepl("|", found2$tandem_pos[1]), TRUE)
    
  })


})