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authorJohannes Ranke <jranke@uni-bremen.de>2014-11-12 13:44:17 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2014-11-12 13:44:17 +0100
commit401570aa9e58c4a2f2e939f37f496453d97d3f33 (patch)
tree27fbf0df9896c251506e084e0971fb26cda6da9a /inst/unitTests/runit.mkinerrmin.R
parentb4d253edcf71fbf4175bc73cdb9593eea816c358 (diff)
parent3516b626be1aeb639d0735e79449424d2e987d7a (diff)
Merge branch 'master' into iore
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+# Test SFO_SFO model with FOCUS_2006_D against Schaefer 2007 paper, tolerance = 1% # {{{
+# and check chi2 error values against values obtained with mkin 0.33
+test.FOCUS_2006_D_SFO_SFO <- function()
+{
+ SFO_SFO.1 <- mkinmod(parent = list(type = "SFO", to = "m1"),
+ m1 = list(type = "SFO"), use_of_ff = "min")
+ SFO_SFO.2 <- mkinmod(parent = list(type = "SFO", to = "m1"),
+ m1 = list(type = "SFO"), use_of_ff = "max")
+
+ fit.1.e <- mkinfit(SFO_SFO.1, FOCUS_2006_D)
+ fit.1.d <- mkinfit(SFO_SFO.1, solution_type = "deSolve", FOCUS_2006_D)
+ fit.2.e <- mkinfit(SFO_SFO.2, FOCUS_2006_D)
+ fit.2.d <- mkinfit(SFO_SFO.2, solution_type = "deSolve", FOCUS_2006_D)
+
+ FOCUS_2006_D_results_schaefer07_means <- c(
+ parent_0 = 99.65, DT50_parent = 7.04, DT50_m1 = 131.34)
+
+ r.1.e <- c(fit.1.e$bparms.optim[[1]], endpoints(fit.1.e)$distimes[[1]])
+ r.1.d <- c(fit.1.d$bparms.optim[[1]], endpoints(fit.1.d)$distimes[[1]])
+ r.2.e <- c(fit.2.e$bparms.optim[[1]], endpoints(fit.2.e)$distimes[[1]])
+ r.2.d <- c(fit.2.d$bparms.optim[[1]], endpoints(fit.2.d)$distimes[[1]])
+
+ dev.1.e <- 100 * (r.1.e - FOCUS_2006_D_results_schaefer07_means)/r.1.e
+ checkIdentical(as.numeric(abs(dev.1.e)) < 1, rep(TRUE, 3))
+ dev.1.d <- 100 * (r.1.d - FOCUS_2006_D_results_schaefer07_means)/r.1.d
+ checkIdentical(as.numeric(abs(dev.1.d)) < 1, rep(TRUE, 3))
+ dev.2.e <- 100 * (r.2.e - FOCUS_2006_D_results_schaefer07_means)/r.2.e
+ checkIdentical(as.numeric(abs(dev.2.e)) < 1, rep(TRUE, 3))
+ dev.2.d <- 100 * (r.2.d - FOCUS_2006_D_results_schaefer07_means)/r.2.d
+ checkIdentical(as.numeric(abs(dev.2.d)) < 1, rep(TRUE, 3))
+
+ round(mkinerrmin(fit.2.e), 4)
+ round(mkinerrmin(fit.2.d), 4)
+
+ errmin.FOCUS_2006_D_rounded = data.frame(
+ err.min = c(0.0640, 0.0646, 0.0469),
+ n.optim = c(4, 2, 2),
+ df = c(15, 7, 8),
+ row.names = c("All data", "parent", "m1"))
+ checkEqualsNumeric(round(mkinerrmin(fit.2.e), 4),
+ errmin.FOCUS_2006_D_rounded)
+} # }}}
+
+# Test SFO_SFO model with FOCUS_2006_E against values obtained with mkin 0.33 {{{
+test.FOCUS_2006_E_SFO_SFO <- function()
+{
+ SFO_SFO.2 <- mkinmod(parent = list(type = "SFO", to = "m1"),
+ m1 = list(type = "SFO"), use_of_ff = "max")
+
+ fit.2.e <- mkinfit(SFO_SFO.2, FOCUS_2006_E)
+
+ round(mkinerrmin(fit.2.e), 4)
+ errmin.FOCUS_2006_E_rounded = data.frame(
+ err.min = c(0.1544, 0.1659, 0.1095),
+ n.optim = c(4, 2, 2),
+ df = c(13, 7, 6),
+ row.names = c("All data", "parent", "m1"))
+ checkEqualsNumeric(round(mkinerrmin(fit.2.e), 4),
+ errmin.FOCUS_2006_E_rounded)
+} # }}}
+
+

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