From ad42e8870803335a549784888ddda80e4662f441 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Thu, 21 Feb 2019 15:16:14 +0100 Subject: Static documentation rebuilt by pkgdown --- docs/reference/mkinfit.html | 60 ++++++++++++++++++++++----------------------- 1 file changed, 30 insertions(+), 30 deletions(-) (limited to 'docs/reference/mkinfit.html') diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 4f071574..369d7bbe 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -73,7 +73,7 @@ mkin - 0.9.47.6 + 0.9.48.1 @@ -436,17 +436,17 @@

Examples

# Use shorthand notation for parent only degradation
 fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE)
-summary(fit)
#> mkin version used for fitting:    0.9.47.6 
+summary(fit)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:56:58 2019 
-#> Date of summary: Thu Feb 21 14:56:58 2019 
+#> Date of fit:     Thu Feb 21 15:12:07 2019 
+#> Date of summary: Thu Feb 21 15:12:07 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 0.16 s
+#> Fitted with method Port using 64 model solutions performed in 0.164 s
 #> 
 #> Weighting: none
 #> 
@@ -515,7 +515,7 @@
   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 
-#>       1.036       0.000       1.036 
coef(fit)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       1.045       0.000       1.046 
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 
@@ -590,7 +590,7 @@
 #> Model cost at call  146 :  371.2134 
 #> Optimisation by method Port successfully terminated.
 #>        User      System verstrichen 
-#>       0.830       0.000       0.832 
coef(fit.deSolve)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       0.835       0.000       0.835 
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 
@@ -626,10 +626,10 @@
 
# Weighted fits, including IRLS
 SFO_SFO.ff <- mkinmod(parent = mkinsub("SFO", "m1"),
                       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:    0.9.47.6 
+summary(f.noweight)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:57:10 2019 
-#> Date of summary: Thu Feb 21 14:57:10 2019 
+#> Date of fit:     Thu Feb 21 15:12:19 2019 
+#> Date of summary: Thu Feb 21 15:12:19 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -637,7 +637,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 186 model solutions performed in 0.86 s
+#> Fitted with method Port using 186 model solutions performed in 0.853 s
 #> 
 #> Weighting: none
 #> 
@@ -743,10 +743,10 @@
 #>   100       m1    33.13  31.98163  1.148e+00
 #>   120       m1    25.15  28.78984 -3.640e+00
 #>   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:    0.9.47.6 
+summary(f.irls)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:57:13 2019 
-#> Date of summary: Thu Feb 21 14:57:13 2019 
+#> Date of fit:     Thu Feb 21 15:12:22 2019 
+#> Date of summary: Thu Feb 21 15:12:22 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -754,7 +754,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 551 model solutions performed in 2.543 s
+#> Fitted with method Port using 551 model solutions performed in 2.573 s
 #> 
 #> Weighting: none
 #> 
@@ -865,10 +865,10 @@
 #>   100       m1    33.13  31.98971  1.140e+00 2.722
 #>   120       m1    25.15  28.80898 -3.659e+00 2.722
 #>   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:    0.9.47.6 
+summary(f.w.mean)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:57:14 2019 
-#> Date of summary: Thu Feb 21 14:57:14 2019 
+#> Date of fit:     Thu Feb 21 15:12:22 2019 
+#> Date of summary: Thu Feb 21 15:12:22 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -983,10 +983,10 @@
 #>   120       m1    25.15  28.82413  -3.674128
 #>   120       m1    33.31  28.82413   4.485872
f.w.value <- mkinfit(SFO_SFO.ff, subset(FOCUS_2006_D, value != 0), err = "value",
                      quiet = TRUE)
-summary(f.w.value)
#> mkin version used for fitting:    0.9.47.6 
+summary(f.w.value)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:57:15 2019 
-#> Date of summary: Thu Feb 21 14:57:15 2019 
+#> Date of fit:     Thu Feb 21 15:12:23 2019 
+#> Date of summary: Thu Feb 21 15:12:23 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -994,7 +994,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 174 model solutions performed in 0.8 s
+#> Fitted with method Port using 174 model solutions performed in 0.802 s
 #> 
 #> Weighting: manual
 #> 
@@ -1103,10 +1103,10 @@
 errors <- c(parent = 2, m1 = 1)
 dw$err.man <- errors[FOCUS_2006_D$name]
 f.w.man <- mkinfit(SFO_SFO.ff, dw, err = "err.man", quiet = TRUE)
-summary(f.w.man)
#> mkin version used for fitting:    0.9.47.6 
+summary(f.w.man)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 14:57:16 2019 
-#> Date of summary: Thu Feb 21 14:57:16 2019 
+#> Date of fit:     Thu Feb 21 15:12:25 2019 
+#> Date of summary: Thu Feb 21 15:12:25 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -1114,7 +1114,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 270 model solutions performed in 1.248 s
+#> Fitted with method Port using 270 model solutions performed in 1.251 s
 #> 
 #> Weighting: manual
 #> 
@@ -1221,10 +1221,10 @@
 #>   120       m1    25.15  28.76062  -3.610621   2
 #>   120       m1    33.31  28.76062   4.549379   2
f.w.man.irls <- mkinfit(SFO_SFO.ff, dw, err = "err.man", quiet = TRUE,
                        reweight.method = "obs")
-summary(f.w.man.irls)
#> mkin version used for fitting:    0.9.47.6 
+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:     Thu Feb 21 14:57:19 2019 
-#> Date of summary: Thu Feb 21 14:57:19 2019 
+#> Date of fit:     Thu Feb 21 15:12:28 2019 
+#> Date of summary: Thu Feb 21 15:12:28 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -1232,7 +1232,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 692 model solutions performed in 3.287 s
+#> Fitted with method Port using 692 model solutions performed in 3.31 s
 #> 
 #> Weighting: manual
 #> 
-- 
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