From 4ff86dfb0f9180f2aa099908fa6ecba630483553 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Fri, 4 Nov 2016 17:14:02 +0100 Subject: Static documentation rebuilt by pkgdown::build_site() To also include the pkgdown articles --- docs/reference/Extract.mmkin.html | 24 ++++++++++++------------ docs/reference/mccall81_245T.html | 6 +++--- docs/reference/mkinfit.html | 8 ++++---- docs/reference/mkinpredict.html | 6 +++--- docs/reference/summary.mkinfit.html | 6 +++--- docs/reference/transform_odeparms.html | 6 +++--- 6 files changed, 28 insertions(+), 28 deletions(-) (limited to 'docs/reference') diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html index ad4614fb..4b6545db 100644 --- a/docs/reference/Extract.mmkin.html +++ b/docs/reference/Extract.mmkin.html @@ -193,7 +193,7 @@ #> #> $time #> user system elapsed -#> 0.264 0.000 0.262 +#> 0.260 0.000 0.261 #> #> $mkinmod #> <mkinmod> model generated with @@ -379,7 +379,7 @@ #> } #> return(mC) #> } -#> <environment: 0x50d32d0> +#> <environment: 0x5bbb4a8> #> #> $cost_notrans #> function (P) @@ -401,7 +401,7 @@ #> scaleVar = scaleVar) #> return(mC) #> } -#> <environment: 0x50d32d0> +#> <environment: 0x5bbb4a8> #> #> $hessian_notrans #> parent_0 alpha beta @@ -467,7 +467,7 @@ #> 99.66619 #> #> $date -#> [1] "Fri Nov 4 17:08:52 2016" +#> [1] "Fri Nov 4 17:12:26 2016" #> #> attr(,"class") #> [1] "mkinfit" "modFit"
fits["SFO", "B"]
#> dataset @@ -546,7 +546,7 @@ #> #> $time #> user system elapsed -#> 0.068 0.000 0.067 +#> 0.068 0.000 0.071 #> #> $mkinmod #> <mkinmod> model generated with @@ -733,7 +733,7 @@ #> } #> return(mC) #> } -#> <environment: 0x4f17408> +#> <environment: 0x5719c08> #> #> $cost_notrans #> function (P) @@ -755,7 +755,7 @@ #> scaleVar = scaleVar) #> return(mC) #> } -#> <environment: 0x4f17408> +#> <environment: 0x5719c08> #> #> $hessian_notrans #> parent_0 k_parent_sink @@ -818,7 +818,7 @@ #> 99.17407 #> #> $date -#> [1] "Fri Nov 4 17:08:51 2016" +#> [1] "Fri Nov 4 17:12:26 2016" #> #> attr(,"class") #> [1] "mkinfit" "modFit"
fits["SFO", "B", drop = TRUE]
#> [[1]] @@ -894,7 +894,7 @@ #> #> $time #> user system elapsed -#> 0.068 0.000 0.067 +#> 0.068 0.000 0.071 #> #> $mkinmod #> <mkinmod> model generated with @@ -1081,7 +1081,7 @@ #> } #> return(mC) #> } -#> <environment: 0x4f17408> +#> <environment: 0x5719c08> #> #> $cost_notrans #> function (P) @@ -1103,7 +1103,7 @@ #> scaleVar = scaleVar) #> return(mC) #> } -#> <environment: 0x4f17408> +#> <environment: 0x5719c08> #> #> $hessian_notrans #> parent_0 k_parent_sink @@ -1166,7 +1166,7 @@ #> 99.17407 #> #> $date -#> [1] "Fri Nov 4 17:08:51 2016" +#> [1] "Fri Nov 4 17:12:26 2016" #> #> attr(,"class") #> [1] "mkinfit" "modFit" diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html index 6eb4741b..40c21d3c 100644 --- a/docs/reference/mccall81_245T.html +++ b/docs/reference/mccall81_245T.html @@ -122,8 +122,8 @@ fixed_parms = "k_phenol_sink", quiet = TRUE) summary(fit.2, data = FALSE)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 4 17:08:59 2016 -#> Date of summary: Fri Nov 4 17:08:59 2016 +#> Date of fit: Fri Nov 4 17:12:32 2016 +#> Date of summary: Fri Nov 4 17:12:32 2016 #> #> Equations: #> d_T245 = - k_T245_sink * T245 - k_T245_phenol * T245 @@ -133,7 +133,7 @@ #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 246 model solutions performed in 1.497 s +#> Fitted with method Port using 246 model solutions performed in 1.502 s #> #> Weighting: none #> diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 93185eff..32083843 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -359,15 +359,15 @@ fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE) summary(fit)
#> mkin version: 0.9.44.9000 #> R version: 3.3.2 -#> Date of fit: Fri Nov 4 17:09:01 2016 -#> Date of summary: Fri Nov 4 17:09:01 2016 +#> Date of fit: Fri Nov 4 17:12:35 2016 +#> Date of summary: Fri Nov 4 17:12:35 2016 #> #> Equations: #> d_parent = - (alpha/beta) * 1/((time/beta) + 1) * parent #> #> Model predictions using solution type analytical #> -#> Fitted with method Port using 64 model solutions performed in 0.156 s +#> Fitted with method Port using 64 model solutions performed in 0.147 s #> #> Weighting: none #> @@ -436,7 +436,7 @@ 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 elapsed -#> 1.256 1.216 0.946
coef(fit)
#> parent_0 log_k_parent_sink log_k_parent_m1 log_k_m1_sink +#> 1.208 1.256 0.935
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 diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html index 9f00dab7..e8302508 100644 --- a/docs/reference/mkinpredict.html +++ b/docs/reference/mkinpredict.html @@ -275,17 +275,17 @@ c(parent = 100, m1 = 0), seq(0, 20, by = 0.1), solution_type = "eigen")[201,]))
#> time parent m1 #> 201 20 4.978707 27.46227
#> user system elapsed -#> 0.004 0.028 0.004
system.time( +#> 0.008 0.016 0.005
system.time( print(mkinpredict(SFO_SFO, c(k_parent_m1 = 0.05, k_parent_sink = 0.1, k_m1_sink = 0.01), c(parent = 100, m1 = 0), seq(0, 20, by = 0.1), solution_type = "deSolve")[201,]))
#> time parent m1 #> 201 20 4.978707 27.46227
#> user system elapsed -#> 0.000 0.020 0.003
system.time( +#> 0.000 0.016 0.002
system.time( print(mkinpredict(SFO_SFO, c(k_parent_m1 = 0.05, k_parent_sink = 0.1, k_m1_sink = 0.01), c(parent = 100, m1 = 0), seq(0, 20, by = 0.1), solution_type = "deSolve", use_compiled = FALSE)[201,]))
#> time parent m1 #> 201 20 4.978707 27.46227
#> user system elapsed -#> 0.052 0.000 0.052
+#> 0.036 0.000 0.035