context("update_rates")
test_that("update_rates constant rates is silent and gives correct output", {
timeval <- 0
totaltime <- 1
gam <- 0.009
mu <- 2.0
laa <- 1.0
lac <- 2.5
K <- 3
default_pars <- create_default_pars(
island_ontogeny = 0,
sea_level = 0,
area_pars = NULL,
hyper_pars = NULL,
dist_pars = NULL,
ext_pars = NULL,
totaltime = totaltime,
pars = c(lac, mu, K, gam, laa)
)
island_ontogeny <- translate_island_ontogeny("const")
sea_level <- translate_sea_level("const")
extcutoff <- 1000.0
num_spec <- 0
num_immigrants <- 0
mainland_n <- 1
set.seed(42)
expect_silent(rates <- update_rates(
timeval = timeval,
totaltime = totaltime,
gam = gam,
laa = laa,
lac = lac,
mu = mu,
hyper_pars = default_pars$hyper_pars,
area_pars = default_pars$area_pars,
dist_pars = default_pars$dist_pars,
ext_pars = default_pars$ext_pars,
island_ontogeny = island_ontogeny,
sea_level = sea_level,
extcutoff = extcutoff,
K = K,
num_spec = num_spec,
num_immigrants = num_immigrants,
mainland_n = mainland_n))
expect_true(are_rates(rates))
expected_rates <- list(immig_rate = 0.009,
ext_rate = 0,
ana_rate = 0,
clado_rate = 0)
expect_equal(rates, expected_rates)
})
test_that("update area-dependent rates is silent and gives correct output", {
set.seed(42)
lac <- 2.5
laa <- 1.0
gam <- 0.009
mu <- 2.5
K <- 3
default_pars <- create_default_pars(
island_ontogeny = 1,
sea_level = 0,
area_pars = create_area_pars(
max_area = 1.0,
proportional_peak_t = 0.5,
peak_sharpness = 1.0,
total_island_age = 1.0,
sea_level_amplitude = 0,
sea_level_frequency = 0,
island_gradient_angle = 0),
hyper_pars = NULL,
dist_pars = NULL,
ext_pars = c(0.5, 10.0),
totaltime = totaltime,
pars = c(lac, mu, K, gam, laa)
)
expect_silent(rates <- DAISIE:::update_rates(
timeval = 0,
totaltime = 1,
gam = gam,
laa = laa,
lac = lac,
mu = mu,
hyper_pars = default_pars$hyper_pars,
area_pars = default_pars$area_pars,
dist_pars = default_pars$dist_pars,
ext_pars = default_pars$ext_pars,
island_ontogeny = translate_island_ontogeny("beta"),
sea_level = translate_sea_level("const"),
extcutoff = 1000.0,
K = K,
num_spec = 0,
num_immigrants = 0,
mainland_n = 1))
expect_true(are_rates(rates))
expected_rates <- list(immig_rate = 0,
ext_rate = 0,
ana_rate = 0,
clado_rate = 0)
expect_equal(rates, expected_rates)
})
#test_that("update area-dependent rates with sea-level is silent and gives
#correct output"
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