context("2_backbone")

module_info <- tibble(
  module_id = c("A", "B"),
  basal = c(0.2, 0.8),
  burn = c(TRUE, FALSE),
  independence = c(0.4, 0.5)
)

module_network <- tibble(
  from = c("A", "A"),
  to = c("A", "B"),
  effect = c(-1L, 1L),
  strength = c(10, 1),
  hill = c(2, 3)
)

expression_patterns <- tibble(
  from = c("burn", "start"),
  to = c("start", "end"),
  module_progression = c("+A", "+B"),
  start = c(TRUE, FALSE),
  burn = c(TRUE, FALSE),
  time = c(1, 1)
)

test_that("Testing normal use case of backbone creation", {
  backbone <- backbone(
    module_info = module_info,
    module_network = module_network,
    expression_patterns = expression_patterns
  )

  expect_is(backbone, "list")
  expect_named(backbone, c("module_info", "module_network", "expression_patterns"))

  expect_is(backbone$module_info, "data.frame")
  expect_named(backbone$module_info, c("module_id", "basal", "burn", "independence", "color"))
  expect_equal(backbone$module_info$module_id, c("A", "B"))
  expect_equal(backbone$module_info$basal, c(.2, .8))
  expect_equal(backbone$module_info$burn, c(TRUE, FALSE))
  expect_equal(backbone$module_info$independence, c(.4, .5))
  expect_is(backbone$module_info$color, "character")

  expect_is(backbone$module_network, "data.frame")
  expect_equal(backbone$module_network$from, c("A", "A"))
  expect_equal(backbone$module_network$to, c("A", "B"))
  expect_equal(backbone$module_network$effect, c(-1L, 1L))
  expect_equal(backbone$module_network$strength, c(10, 1))
  expect_equal(backbone$module_network$hill, c(2, 3))

  expect_is(backbone$expression_patterns, "data.frame")
  expect_equal(backbone$expression_patterns$from, c("burn", "start"))
  expect_equal(backbone$expression_patterns$to, c("start", "end"))
  expect_equal(backbone$expression_patterns$module_progression, c("+A,+B", "+B"))
  expect_equal(backbone$expression_patterns$start, c(TRUE, FALSE))
  expect_equal(backbone$expression_patterns$burn, c(TRUE, FALSE))
  expect_equal(backbone$expression_patterns$time, c(1, 1))
})


# test_that("Test error messages", {
#   backbone <- backbone(
#     module_info = module_info,
#     module_network = module_network,
#     expression_patterns = expression_patterns
#   )
#
#   # expect_is(backbone, "list")
#   # expect_named(backbone, c("module_info", "module_network", "expression_patterns"))
#   #
#   # expect_is(backbone$module_info, "data.frame")
#   # expect_named(backbone$module_info, c("module_id", "basal", "burn", "independence", "color"))
#   # expect_equal(backbone$module_info$module_id, c("A", "B"))
#   # expect_equal(backbone$module_info$basal, c(.2, .8))
#   # expect_equal(backbone$module_info$burn, c(TRUE, FALSE))
#   # expect_equal(backbone$module_info$independence, c(.4, .5))
#   # expect_is(backbone$module_info$color, "character")
#   #
#   # expect_is(backbone$module_network, "data.frame")
#   # expect_equal(backbone$module_network$from, c("A", "A"))
#   # expect_equal(backbone$module_network$to, c("A", "B"))
#   # expect_equal(backbone$module_network$effect, c(-1L, 1L))
#   # expect_equal(backbone$module_network$strength, c(10, 1))
#   # expect_equal(backbone$module_network$hill, c(2, 3))
#   #
#   # expect_is(backbone$expression_patterns, "data.frame")
#   # expect_equal(backbone$expression_patterns$from, c("burn", "start"))
#   # expect_equal(backbone$expression_patterns$to, c("start", "end"))
#   # expect_equal(backbone$expression_patterns$module_progression, c("+A,+B", "+B"))
#   # expect_equal(backbone$expression_patterns$start, c(TRUE, FALSE))
#   # expect_equal(backbone$expression_patterns$burn, c(TRUE, FALSE))
#   # expect_equal(backbone$expression_patterns$time, c(1, 1))
# })