From d0a358a8f4fd03c95536409523e492eb15726f44 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Mon, 4 Mar 2019 10:12:43 +0100 Subject: Review tests and examples based on winbuilder results Static documentation rebuilt by pkgdown --- docs/reference/mkinfit.html | 46 ++++++++++++++++++++++----------------------- 1 file changed, 23 insertions(+), 23 deletions(-) (limited to 'docs/reference/mkinfit.html') diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 2494faf9..cd6ace43 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -441,15 +441,15 @@ fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE) summary(fit)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:07:47 2019 -#> Date of summary: Tue Feb 26 21:07:47 2019 +#> Date of fit: Mon Mar 4 10:08:05 2019 +#> Date of summary: Mon Mar 4 10:08:05 2019 #> #> Equations: #> d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent #> #> Model predictions using solution type analytical #> -#> Fitted with method Port using 64 model solutions performed in 0.161 s +#> Fitted with method Port using 64 model solutions performed in 0.159 s #> #> Weighting: none #> @@ -518,7 +518,7 @@ m1 = mkinsub("SFO"))
#> Successfully compiled differential equation model from auto-generated C code.
# Fit the model to the FOCUS example dataset D using defaults print(system.time(fit <- mkinfit(SFO_SFO, FOCUS_2006_D, solution_type = "eigen", quiet = TRUE)))
#> User System verstrichen -#> 1.111 0.000 1.112
coef(fit)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 1.026 0.000 1.035
coef(fit)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 99.59848 -3.03822 -2.98030 -5.24750
endpoints(fit)
#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -593,7 +593,7 @@ #> Model cost at call 146 : 371.2134 #> Optimisation by method Port successfully terminated. #> User System verstrichen -#> 0.826 0.000 0.827
coef(fit.deSolve)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 0.814 0.008 0.830
coef(fit.deSolve)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink #> 99.59848 -3.03822 -2.98030 -5.24750
endpoints(fit.deSolve)
#> $ff #> parent_sink parent_m1 m1_sink #> 0.485524 0.514476 1.000000 @@ -631,8 +631,8 @@ m1 = mkinsub("SFO"), use_of_ff = "max")
#> Successfully compiled differential equation model from auto-generated C code.
f.noweight <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, quiet = TRUE) summary(f.noweight)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:07:59 2019 -#> Date of summary: Tue Feb 26 21:07:59 2019 +#> Date of fit: Mon Mar 4 10:08:17 2019 +#> Date of summary: Mon Mar 4 10:08:17 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -640,7 +640,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 186 model solutions performed in 0.841 s +#> Fitted with method Port using 186 model solutions performed in 0.853 s #> #> Weighting: none #> @@ -748,8 +748,8 @@ #> 120 m1 33.31 28.78984 4.520e+00
f.irls <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, reweight.method = "obs", quiet = TRUE) summary(f.irls)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:08:02 2019 -#> Date of summary: Tue Feb 26 21:08:02 2019 +#> Date of fit: Mon Mar 4 10:08:20 2019 +#> Date of summary: Mon Mar 4 10:08:20 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -757,7 +757,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 551 model solutions performed in 2.596 s +#> Fitted with method Port using 551 model solutions performed in 2.525 s #> #> Weighting: none #> @@ -870,8 +870,8 @@ #> 120 m1 33.31 28.80898 4.501e+00 2.722
f.w.mean <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, weight = "mean", quiet = TRUE) summary(f.w.mean)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:08:03 2019 -#> Date of summary: Tue Feb 26 21:08:03 2019 +#> Date of fit: Mon Mar 4 10:08:21 2019 +#> Date of summary: Mon Mar 4 10:08:21 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -879,7 +879,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 155 model solutions performed in 0.701 s +#> Fitted with method Port using 155 model solutions performed in 0.706 s #> #> Weighting: mean #> @@ -988,8 +988,8 @@ quiet = TRUE) summary(f.w.value)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:08:03 2019 -#> Date of summary: Tue Feb 26 21:08:03 2019 +#> Date of fit: Mon Mar 4 10:08:22 2019 +#> Date of summary: Mon Mar 4 10:08:22 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -997,7 +997,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 174 model solutions performed in 0.795 s +#> Fitted with method Port using 174 model solutions performed in 0.875 s #> #> Weighting: manual #> @@ -1108,8 +1108,8 @@ f.w.man <- mkinfit(SFO_SFO.ff, dw, err = "err.man", quiet = TRUE) summary(f.w.man)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:08:05 2019 -#> Date of summary: Tue Feb 26 21:08:05 2019 +#> Date of fit: Mon Mar 4 10:08:23 2019 +#> Date of summary: Mon Mar 4 10:08:23 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1117,7 +1117,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 270 model solutions performed in 1.24 s +#> Fitted with method Port using 270 model solutions performed in 1.279 s #> #> Weighting: manual #> @@ -1226,8 +1226,8 @@ reweight.method = "obs") summary(f.w.man.irls)
#> mkin version used for fitting: 0.9.48.1 #> R version used for fitting: 3.5.2 -#> Date of fit: Tue Feb 26 21:08:08 2019 -#> Date of summary: Tue Feb 26 21:08:08 2019 +#> Date of fit: Mon Mar 4 10:08:26 2019 +#> Date of summary: Mon Mar 4 10:08:26 2019 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -1235,7 +1235,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 692 model solutions performed in 3.192 s +#> Fitted with method Port using 692 model solutions performed in 3.203 s #> #> Weighting: manual #> -- cgit v1.2.1