# Copyright (C) 2018,2019 Johannes Ranke
# Contact: jranke@uni-bremen.de
# This file is part of the R package mkin
# mkin is free software: you can redistribute it and/or modify it under the
# terms of the GNU General Public License as published by the Free Software
# Foundation, either version 3 of the License, or (at your option) any later
# version.
# This program is distributed in the hope that it will be useful, but WITHOUT
# ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
# FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
# details.
# You should have received a copy of the GNU General Public License along with
# this program. If not, see <http://www.gnu.org/licenses/>
context("Test fitting the decline of metabolites from their maximum")
test_that("Fitting from maximum mean value works", {
SFO_SFO <- mkinmod(parent = mkinsub("SFO", "m1"),
m1 = mkinsub("SFO"))
expect_warning(
expect_error(mkinfit(SFO_SFO, FOCUS_2006_D, from_max_mean = TRUE),
"only implemented for models with a single observed variable"),
"Observations with value of zero were removed")
# We can either explicitly create a model for m1, or subset the data
SFO_m1 <- mkinmod(m1 = mkinsub("SFO"))
f.1 <- expect_warning(mkinfit(SFO_m1, FOCUS_2006_D, from_max_mean = TRUE, quiet = TRUE))
expect_equivalent(endpoints(f.1)$distimes["m1", ], c(170.8, 567.5),
scale = 1, tolerance = 0.1)
f.2 <- expect_warning(mkinfit("SFO", subset(FOCUS_2006_D, name == "m1"),
from_max_mean = TRUE, quiet = TRUE))
expect_equivalent(endpoints(f.2)$distimes["m1", ], c(170.8, 567.5),
scale = 1, tolerance = 0.1)
})
