From 70d158c4dd919f4f77bc12f8ace333d29d249b79 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Fri, 14 Sep 2018 16:57:17 +0200 Subject: Remove two vignettes from the package but not from docs - Rebuild static documentation - Adapt test to new approach to two component error model where the model is inadequate --- docs/reference/DFOP.solution.html | 6 +-- docs/reference/Extract.mmkin.html | 20 ++++---- docs/reference/FOCUS_2006_DFOP_ref_A_to_B.html | 6 +-- docs/reference/FOCUS_2006_FOMC_ref_A_to_F.html | 6 +-- docs/reference/FOCUS_2006_HS_ref_A_to_F.html | 6 +-- docs/reference/FOCUS_2006_SFO_ref_A_to_F.html | 6 +-- docs/reference/FOCUS_2006_datasets.html | 6 +-- docs/reference/FOMC.solution.html | 6 +-- docs/reference/HS.solution.html | 6 +-- docs/reference/IORE.solution.html | 6 +-- docs/reference/SFO.solution.html | 6 +-- docs/reference/SFORB.solution.html | 6 +-- docs/reference/add_err.html | 6 +-- docs/reference/endpoints.html | 6 +-- docs/reference/geometric_mean.html | 6 +-- docs/reference/ilr.html | 6 +-- docs/reference/index.html | 6 +-- docs/reference/max_twa_parent.html | 6 +-- docs/reference/mccall81_245T.html | 22 ++++----- docs/reference/mkin_long_to_wide.html | 6 +-- docs/reference/mkin_wide_to_long.html | 6 +-- docs/reference/mkinds.html | 6 +-- docs/reference/mkinerrmin.html | 6 +-- docs/reference/mkinfit.html | 66 +++++++++++++------------- docs/reference/mkinmod.html | 8 ++-- docs/reference/mkinparplot.html | 6 +-- docs/reference/mkinplot.html | 6 +-- docs/reference/mkinpredict.html | 8 ++-- docs/reference/mkinresplot.html | 6 +-- docs/reference/mkinsub.html | 6 +-- docs/reference/mmkin.html | 10 ++-- docs/reference/plot.mkinfit.html | 6 +-- docs/reference/plot.mmkin.html | 6 +-- docs/reference/print.mkinds.html | 6 +-- docs/reference/print.mkinmod.html | 6 +-- docs/reference/schaefer07_complex_case.html | 6 +-- docs/reference/sigma_twocomp.html | 6 +-- docs/reference/summary.mkinfit.html | 14 +++--- docs/reference/synthetic_data_for_UBA.html | 6 +-- docs/reference/test_data_from_UBA_2014.html | 6 +-- docs/reference/transform_odeparms.html | 38 +++++++-------- 41 files changed, 192 insertions(+), 192 deletions(-) (limited to 'docs/reference') diff --git a/docs/reference/DFOP.solution.html b/docs/reference/DFOP.solution.html index 2f714f2c..f3ee0099 100644 --- a/docs/reference/DFOP.solution.html +++ b/docs/reference/DFOP.solution.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html index 922479a1..9d49313c 100644 --- a/docs/reference/Extract.mmkin.html +++ b/docs/reference/Extract.mmkin.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -278,7 +278,7 @@ #> #> $time #> User System verstrichen -#> 0.164 0.000 0.164 +#> 0.169 0.000 0.169 #> #> $mkinmod #> <mkinmod> model generated with @@ -467,8 +467,8 @@ #> } #> return(mC) #> } -#> <bytecode: 0x55555bd535f0> -#> <environment: 0x55555bd1c770> +#> <bytecode: 0x55555bd4a710> +#> <environment: 0x55555bd3c748> #> #> $cost_notrans #> function (P) @@ -490,8 +490,8 @@ #> scaleVar = scaleVar) #> return(mC) #> } -#> <bytecode: 0x55555c9c70f8> -#> <environment: 0x55555bd1c770> +#> <bytecode: 0x55555c9b4488> +#> <environment: 0x55555bd3c748> #> #> $hessian_notrans #> parent_0 k_parent_sink @@ -558,10 +558,10 @@ #> 99.17407 #> #> $date -#> [1] "Fri Sep 14 11:34:38 2018" +#> [1] "Fri Sep 14 16:53:13 2018" #> #> $version -#> [1] "0.9.47.4" +#> [1] "0.9.47.5" #> #> $Rversion #> [1] "3.5.1" diff --git a/docs/reference/FOCUS_2006_DFOP_ref_A_to_B.html b/docs/reference/FOCUS_2006_DFOP_ref_A_to_B.html index bea35e09..d5354c28 100644 --- a/docs/reference/FOCUS_2006_DFOP_ref_A_to_B.html +++ b/docs/reference/FOCUS_2006_DFOP_ref_A_to_B.html @@ -65,7 +65,7 @@ in this fit." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ in this fit." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/FOCUS_2006_FOMC_ref_A_to_F.html b/docs/reference/FOCUS_2006_FOMC_ref_A_to_F.html index 9122a546..f5c36792 100644 --- a/docs/reference/FOCUS_2006_FOMC_ref_A_to_F.html +++ b/docs/reference/FOCUS_2006_FOMC_ref_A_to_F.html @@ -65,7 +65,7 @@ in this fit." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ in this fit." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/FOCUS_2006_HS_ref_A_to_F.html b/docs/reference/FOCUS_2006_HS_ref_A_to_F.html index 3d5677e8..fb2cd7de 100644 --- a/docs/reference/FOCUS_2006_HS_ref_A_to_F.html +++ b/docs/reference/FOCUS_2006_HS_ref_A_to_F.html @@ -65,7 +65,7 @@ in this fit." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ in this fit." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/FOCUS_2006_SFO_ref_A_to_F.html b/docs/reference/FOCUS_2006_SFO_ref_A_to_F.html index 524fbd79..dfccea5c 100644 --- a/docs/reference/FOCUS_2006_SFO_ref_A_to_F.html +++ b/docs/reference/FOCUS_2006_SFO_ref_A_to_F.html @@ -65,7 +65,7 @@ in this fit." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ in this fit." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/FOCUS_2006_datasets.html b/docs/reference/FOCUS_2006_datasets.html index a0bcc65d..7f89e33e 100644 --- a/docs/reference/FOCUS_2006_datasets.html +++ b/docs/reference/FOCUS_2006_datasets.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/FOMC.solution.html b/docs/reference/FOMC.solution.html index 10f33260..abda4d81 100644 --- a/docs/reference/FOMC.solution.html +++ b/docs/reference/FOMC.solution.html @@ -65,7 +65,7 @@ The form given here differs slightly from the original reference by Gustafson mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ The form given here differs slightly from the original reference by Gustafson Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/HS.solution.html b/docs/reference/HS.solution.html index cb9eb353..bb3768ba 100644 --- a/docs/reference/HS.solution.html +++ b/docs/reference/HS.solution.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/IORE.solution.html b/docs/reference/IORE.solution.html index 23f82d13..d86ee0c3 100644 --- a/docs/reference/IORE.solution.html +++ b/docs/reference/IORE.solution.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/SFO.solution.html b/docs/reference/SFO.solution.html index 087ff46f..17f1920c 100644 --- a/docs/reference/SFO.solution.html +++ b/docs/reference/SFO.solution.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/SFORB.solution.html b/docs/reference/SFORB.solution.html index 61989c40..050d19cf 100644 --- a/docs/reference/SFORB.solution.html +++ b/docs/reference/SFORB.solution.html @@ -65,7 +65,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/add_err.html b/docs/reference/add_err.html index b3324064..cea1e03c 100644 --- a/docs/reference/add_err.html +++ b/docs/reference/add_err.html @@ -63,7 +63,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -89,10 +89,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/endpoints.html b/docs/reference/endpoints.html index fdf465a5..a54fb71e 100644 --- a/docs/reference/endpoints.html +++ b/docs/reference/endpoints.html @@ -64,7 +64,7 @@ with the advantage that the SFORB model can also be used for metabolites." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -90,10 +90,10 @@ with the advantage that the SFORB model can also be used for metabolites." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/geometric_mean.html b/docs/reference/geometric_mean.html index bddbab1a..41ccbbfd 100644 --- a/docs/reference/geometric_mean.html +++ b/docs/reference/geometric_mean.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/ilr.html b/docs/reference/ilr.html index e780d26b..601ab1a2 100644 --- a/docs/reference/ilr.html +++ b/docs/reference/ilr.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/index.html b/docs/reference/index.html index 185991d6..615f6777 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -58,7 +58,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -84,10 +84,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/max_twa_parent.html b/docs/reference/max_twa_parent.html index ef7209bf..3a19c754 100644 --- a/docs/reference/max_twa_parent.html +++ b/docs/reference/max_twa_parent.html @@ -65,7 +65,7 @@ guidance." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ guidance." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html index ac2adf1e..86f3c07e 100644 --- a/docs/reference/mccall81_245T.html +++ b/docs/reference/mccall81_245T.html @@ -63,7 +63,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -89,10 +89,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -156,10 +156,10 @@ 
      SFO_SFO_SFO <- mkinmod(T245 = list(type = "SFO", to = "phenol"),
                          phenol = list(type = "SFO", to = "anisole"),
                          anisole = list(type = "SFO"))
    #> Successfully compiled differential equation model from auto-generated C code.
      
        fit.1 <- mkinfit(SFO_SFO_SFO, subset(mccall81_245T, soil == "Commerce"), quiet = TRUE)
-    summary(fit.1, data = FALSE)
    #> mkin version used for fitting:    0.9.47.4 
+    summary(fit.1, data = FALSE)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:34:50 2018 
-#> Date of summary: Fri Sep 14 11:34:50 2018 
+#> Date of fit:     Fri Sep 14 16:53:25 2018 
+#> Date of summary: Fri Sep 14 16:53:25 2018 
 #> 
 #> Equations:
 #> d_T245/dt = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -169,7 +169,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 574 model solutions performed in 3.33 s
+#> Fitted with method Port using 574 model solutions performed in 3.403 s
 #> 
 #> Weighting: none
 #> 
@@ -245,10 +245,10 @@
     fit.2 <- mkinfit(SFO_SFO_SFO, subset(mccall81_245T, soil == "Commerce"),
                    parms.ini = c(k_phenol_sink = 0),
                    fixed_parms = "k_phenol_sink", quiet = TRUE)
-    summary(fit.2, data = FALSE)
    #> mkin version used for fitting:    0.9.47.4 
+    summary(fit.2, data = FALSE)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:34:51 2018 
-#> Date of summary: Fri Sep 14 11:34:51 2018 
+#> Date of fit:     Fri Sep 14 16:53:27 2018 
+#> Date of summary: Fri Sep 14 16:53:27 2018 
 #> 
 #> Equations:
 #> d_T245/dt = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -258,7 +258,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 246 model solutions performed in 1.417 s
+#> Fitted with method Port using 246 model solutions performed in 1.46 s
 #> 
 #> Weighting: none
 #> 
diff --git a/docs/reference/mkin_long_to_wide.html b/docs/reference/mkin_long_to_wide.html
index b83287ff..ea74ff47 100644
--- a/docs/reference/mkin_long_to_wide.html
+++ b/docs/reference/mkin_long_to_wide.html
@@ -63,7 +63,7 @@
       
       
         mkin
-        0.9.47.4
+        0.9.47.5
       
     
    
 
@@ -89,10 +89,10 @@
       Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkin_wide_to_long.html b/docs/reference/mkin_wide_to_long.html index e2b4ef61..369649e3 100644 --- a/docs/reference/mkin_wide_to_long.html +++ b/docs/reference/mkin_wide_to_long.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinds.html b/docs/reference/mkinds.html index c77945b9..d356fdab 100644 --- a/docs/reference/mkinds.html +++ b/docs/reference/mkinds.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinerrmin.html b/docs/reference/mkinerrmin.html index a18b226e..4f70a274 100644 --- a/docs/reference/mkinerrmin.html +++ b/docs/reference/mkinerrmin.html @@ -62,7 +62,7 @@ chi-squared test as defined in the FOCUS kinetics report from 2006." /> mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ chi-squared test as defined in the FOCUS kinetics report from 2006." /> Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html index 13029e91..0f2bb875 100644 --- a/docs/reference/mkinfit.html +++ b/docs/reference/mkinfit.html @@ -71,7 +71,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -97,10 +97,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -432,17 +432,17 @@

    Examples

    # Use shorthand notation for parent only degradation
 fit <- mkinfit("FOMC", FOCUS_2006_C, quiet = TRUE)
-summary(fit)
    #> mkin version used for fitting:    0.9.47.4 
+summary(fit)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:34:54 2018 
-#> Date of summary: Fri Sep 14 11:34:54 2018 
+#> Date of fit:     Fri Sep 14 16:53:29 2018 
+#> Date of summary: Fri Sep 14 16:53:29 2018 
 #> 
 #> 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 0.141 s
+#> Fitted with method Port using 64 model solutions performed in 0.158 s
 #> 
 #> Weighting: none
 #> 
@@ -511,7 +511,7 @@
   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 
-#>       0.906       0.000       0.907 
    coef(fit)
    #>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       0.909       0.000       0.910 
    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 
@@ -586,7 +586,7 @@
 #> Model cost at call  146 :  371.2134 
 #> Optimisation by method Port successfully terminated.
 #>        User      System verstrichen 
-#>       0.714       0.000       0.715 
    coef(fit.deSolve)
    #>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       0.749       0.000       0.749 
    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 
@@ -622,10 +622,10 @@
 
    # 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:    0.9.47.4 
+summary(f.noweight)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:05 2018 
-#> Date of summary: Fri Sep 14 11:35:05 2018 
+#> Date of fit:     Fri Sep 14 16:53:40 2018 
+#> Date of summary: Fri Sep 14 16:53:40 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -633,7 +633,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 186 model solutions performed in 0.763 s
+#> Fitted with method Port using 186 model solutions performed in 0.79 s
 #> 
 #> Weighting: none
 #> 
@@ -739,10 +739,10 @@
 #>   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:    0.9.47.4 
+summary(f.irls)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:07 2018 
-#> Date of summary: Fri Sep 14 11:35:07 2018 
+#> Date of fit:     Fri Sep 14 16:53:43 2018 
+#> Date of summary: Fri Sep 14 16:53:43 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -750,7 +750,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 551 model solutions performed in 2.297 s
+#> Fitted with method Port using 551 model solutions performed in 2.278 s
 #> 
 #> Weighting: none
 #> 
@@ -861,10 +861,10 @@
 #>   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:    0.9.47.4 
+summary(f.w.mean)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:08 2018 
-#> Date of summary: Fri Sep 14 11:35:08 2018 
+#> Date of fit:     Fri Sep 14 16:53:43 2018 
+#> Date of summary: Fri Sep 14 16:53:43 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -872,7 +872,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 155 model solutions performed in 0.618 s
+#> Fitted with method Port using 155 model solutions performed in 0.643 s
 #> 
 #> Weighting: mean
 #> 
@@ -979,10 +979,10 @@
 #>   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:    0.9.47.4 
+summary(f.w.value)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:09 2018 
-#> Date of summary: Fri Sep 14 11:35:09 2018 
+#> Date of fit:     Fri Sep 14 16:53:44 2018 
+#> Date of summary: Fri Sep 14 16:53:44 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -990,7 +990,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 174 model solutions performed in 0.704 s
+#> Fitted with method Port using 174 model solutions performed in 0.722 s
 #> 
 #> Weighting: manual
 #> 
@@ -1099,10 +1099,10 @@
 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:    0.9.47.4 
+summary(f.w.man)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:10 2018 
-#> Date of summary: Fri Sep 14 11:35:10 2018 
+#> Date of fit:     Fri Sep 14 16:53:45 2018 
+#> Date of summary: Fri Sep 14 16:53:45 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -1110,7 +1110,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 270 model solutions performed in 1.109 s
+#> Fitted with method Port using 270 model solutions performed in 1.11 s
 #> 
 #> Weighting: manual
 #> 
@@ -1217,10 +1217,10 @@
 #>   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:    0.9.47.4 
+summary(f.w.man.irls)
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:13 2018 
-#> Date of summary: Fri Sep 14 11:35:13 2018 
+#> Date of fit:     Fri Sep 14 16:53:49 2018 
+#> Date of summary: Fri Sep 14 16:53:49 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -1228,7 +1228,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 692 model solutions performed in 2.903 s
+#> Fitted with method Port using 692 model solutions performed in 2.945 s
 #> 
 #> Weighting: manual
 #> 
diff --git a/docs/reference/mkinmod.html b/docs/reference/mkinmod.html
index 857e0c74..3633686e 100644
--- a/docs/reference/mkinmod.html
+++ b/docs/reference/mkinmod.html
@@ -66,7 +66,7 @@ For the definition of model types and their parameters, the equations given
       
       
         mkin
-        0.9.47.4
+        0.9.47.5
       
     
    
 
@@ -92,10 +92,10 @@ For the definition of model types and their parameters, the equations given
       Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -229,7 +229,7 @@ For the definition of model types and their parameters, the equations given SFO_SFO <- mkinmod( parent = mkinsub("SFO", "m1"), m1 = mkinsub("SFO"), verbose = TRUE)
    #> Compilation argument: -#> /usr/lib/R/bin/R CMD SHLIB file3c104e6e45e4.c 2> file3c104e6e45e4.c.err.txt +#> /usr/lib/R/bin/R CMD SHLIB file7b505448f8a5.c 2> file7b505448f8a5.c.err.txt #> Program source: #> 1: #include <R.h> #> 2: diff --git a/docs/reference/mkinparplot.html b/docs/reference/mkinparplot.html index adcd2a3b..6ed32315 100644 --- a/docs/reference/mkinparplot.html +++ b/docs/reference/mkinparplot.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5
    @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinplot.html b/docs/reference/mkinplot.html index 2d878175..72ff93f6 100644 --- a/docs/reference/mkinplot.html +++ b/docs/reference/mkinplot.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html index ffd6e89f..6c30d7a8 100644 --- a/docs/reference/mkinpredict.html +++ b/docs/reference/mkinpredict.html @@ -63,7 +63,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -89,10 +89,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -326,7 +326,7 @@ 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 verstrichen -#> 0.002 0.000 0.001
    system.time( +#> 0.002 0.000 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 diff --git a/docs/reference/mkinresplot.html b/docs/reference/mkinresplot.html index b4e1e747..306b7400 100644 --- a/docs/reference/mkinresplot.html +++ b/docs/reference/mkinresplot.html @@ -64,7 +64,7 @@ mkin - 0.9.47.4 + 0.9.47.5
    @@ -90,10 +90,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mkinsub.html b/docs/reference/mkinsub.html index a34f1dae..0a2bf41a 100644 --- a/docs/reference/mkinsub.html +++ b/docs/reference/mkinsub.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/mmkin.html b/docs/reference/mmkin.html index 621571c1..a656ef65 100644 --- a/docs/reference/mmkin.html +++ b/docs/reference/mmkin.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -189,8 +189,8 @@ time_1 <- system.time(fits.4 <- mmkin(models, datasets, cores = 1, quiet = TRUE)) time_default
    #> User System verstrichen -#> 0.046 0.033 6.654
    time_1
    #> User System verstrichen -#> 20.150 0.000 20.163
    +#> 0.054 0.029 6.762
    time_1
    #> User System verstrichen +#> 20.495 0.004 20.512
    endpoints(fits.0[["SFO_lin", 2]])
    #> $ff #> parent_M1 parent_sink M1_M2 M1_sink #> 0.7340480 0.2659520 0.7505686 0.2494314 diff --git a/docs/reference/plot.mkinfit.html b/docs/reference/plot.mkinfit.html index 4fec74c9..e88c2025 100644 --- a/docs/reference/plot.mkinfit.html +++ b/docs/reference/plot.mkinfit.html @@ -66,7 +66,7 @@ If the current plot device is a tikz device, mkin - 0.9.47.4 + 0.9.47.5
    @@ -92,10 +92,10 @@ If the current plot device is a tikz device, Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/plot.mmkin.html b/docs/reference/plot.mmkin.html index 478a5682..d67d87d9 100644 --- a/docs/reference/plot.mmkin.html +++ b/docs/reference/plot.mmkin.html @@ -65,7 +65,7 @@ If the current plot device is a tikz device, mkin - 0.9.47.4 + 0.9.47.5 @@ -91,10 +91,10 @@ If the current plot device is a tikz device, Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/print.mkinds.html b/docs/reference/print.mkinds.html index f59325f9..2489269c 100644 --- a/docs/reference/print.mkinds.html +++ b/docs/reference/print.mkinds.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/print.mkinmod.html b/docs/reference/print.mkinmod.html index 299fdfbb..b6cbad61 100644 --- a/docs/reference/print.mkinmod.html +++ b/docs/reference/print.mkinmod.html @@ -61,7 +61,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -87,10 +87,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/schaefer07_complex_case.html b/docs/reference/schaefer07_complex_case.html index 9fd60805..4ceba867 100644 --- a/docs/reference/schaefer07_complex_case.html +++ b/docs/reference/schaefer07_complex_case.html @@ -63,7 +63,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -89,10 +89,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/sigma_twocomp.html b/docs/reference/sigma_twocomp.html index 6db7d74c..e74707ff 100644 --- a/docs/reference/sigma_twocomp.html +++ b/docs/reference/sigma_twocomp.html @@ -66,7 +66,7 @@ This is the error model used for example by Werner et al. (1978). The model mkin - 0.9.47.4 + 0.9.47.5 @@ -92,10 +92,10 @@ This is the error model used for example by Werner et al. (1978). The model Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/summary.mkinfit.html b/docs/reference/summary.mkinfit.html index 1d0a7c52..bb701470 100644 --- a/docs/reference/summary.mkinfit.html +++ b/docs/reference/summary.mkinfit.html @@ -64,7 +64,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -90,10 +90,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -204,17 +204,17 @@

    Examples

    - 
      summary(mkinfit(mkinmod(parent = mkinsub("SFO")), FOCUS_2006_A, quiet = TRUE))
    #> mkin version used for fitting:    0.9.47.4 
+    
      summary(mkinfit(mkinmod(parent = mkinsub("SFO")), FOCUS_2006_A, quiet = TRUE))
    #> mkin version used for fitting:    0.9.47.5 
 #> R version used for fitting:       3.5.1 
-#> Date of fit:     Fri Sep 14 11:35:59 2018 
-#> Date of summary: Fri Sep 14 11:35:59 2018 
+#> Date of fit:     Fri Sep 14 16:54:36 2018 
+#> Date of summary: Fri Sep 14 16:54:36 2018 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent_sink * parent
 #> 
 #> Model predictions using solution type analytical 
 #> 
-#> Fitted with method Port using 35 model solutions performed in 0.076 s
+#> Fitted with method Port using 35 model solutions performed in 0.077 s
 #> 
 #> Weighting: none
 #> 
diff --git a/docs/reference/synthetic_data_for_UBA.html b/docs/reference/synthetic_data_for_UBA.html
index 25cfc012..384d628d 100644
--- a/docs/reference/synthetic_data_for_UBA.html
+++ b/docs/reference/synthetic_data_for_UBA.html
@@ -76,7 +76,7 @@ Compare also the code in the example section to see the degradation models." />
       
       
         mkin
-        0.9.47.4
+        0.9.47.5
       
     
    
 
@@ -102,10 +102,10 @@ Compare also the code in the example section to see the degradation models." />
       Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/test_data_from_UBA_2014.html b/docs/reference/test_data_from_UBA_2014.html index a30161a2..094e003d 100644 --- a/docs/reference/test_data_from_UBA_2014.html +++ b/docs/reference/test_data_from_UBA_2014.html @@ -62,7 +62,7 @@ mkin - 0.9.47.4 + 0.9.47.5 @@ -88,10 +88,10 @@ Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin diff --git a/docs/reference/transform_odeparms.html b/docs/reference/transform_odeparms.html index c0ca534c..38c3fe9d 100644 --- a/docs/reference/transform_odeparms.html +++ b/docs/reference/transform_odeparms.html @@ -69,7 +69,7 @@ The transformation of sets of formation fractions is fragile, as it supposes mkin - 0.9.47.4 + 0.9.47.5 @@ -95,10 +95,10 @@ The transformation of sets of formation fractions is fragile, as it supposes Example evaluation of FOCUS Laboratory Data L1 to L3
  • - Example evaluation of FOCUS Example Dataset Z + Example evaluation of FOCUS Example Dataset Z
  • - Performance benefit by using compiled model definitions in mkin + Performance benefit by using compiled model definitions in mkin
  • Calculation of time weighted average concentrations with mkin @@ -198,10 +198,10 @@ The transformation of sets of formation fractions is fragile, as it supposes parent = list(type = "SFO", to = "m1", sink = TRUE), m1 = list(type = "SFO"))
    #> Successfully compiled differential equation model from auto-generated C code.
    # Fit the model to the FOCUS example dataset D using defaults fit <- mkinfit(SFO_SFO, FOCUS_2006_D, quiet = TRUE) -summary(fit, data=FALSE) # See transformed and backtransformed parameters
    #> mkin version used for fitting: 0.9.47.4 +summary(fit, data=FALSE) # See transformed and backtransformed parameters
    #> mkin version used for fitting: 0.9.47.5 #> R version used for fitting: 3.5.1 -#> Date of fit: Fri Sep 14 11:36:07 2018 -#> Date of summary: Fri Sep 14 11:36:07 2018 +#> Date of fit: Fri Sep 14 16:54:43 2018 +#> Date of summary: Fri Sep 14 16:54:43 2018 #> #> Equations: #> d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent @@ -209,7 +209,7 @@ The transformation of sets of formation fractions is fragile, as it supposes #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 153 model solutions performed in 0.627 s +#> Fitted with method Port using 153 model solutions performed in 0.629 s #> #> Weighting: none #> @@ -274,10 +274,10 @@ The transformation of sets of formation fractions is fragile, as it supposes #> parent 7.023 23.33 #> m1 131.761 437.70
    fit.2 <- mkinfit(SFO_SFO, FOCUS_2006_D, transform_rates = FALSE, quiet = TRUE) -summary(fit.2, data=FALSE)
    #> mkin version used for fitting: 0.9.47.4 +summary(fit.2, data=FALSE)
    #> mkin version used for fitting: 0.9.47.5 #> R version used for fitting: 3.5.1 -#> Date of fit: Fri Sep 14 11:36:08 2018 -#> Date of summary: Fri Sep 14 11:36:08 2018 +#> Date of fit: Fri Sep 14 16:54:45 2018 +#> Date of summary: Fri Sep 14 16:54:45 2018 #> #> Equations: #> d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent @@ -285,7 +285,7 @@ The transformation of sets of formation fractions is fragile, as it supposes #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 350 model solutions performed in 1.437 s +#> Fitted with method Port using 350 model solutions performed in 1.426 s #> #> Weighting: none #> @@ -362,10 +362,10 @@ The transformation of sets of formation fractions is fragile, as it supposes m1 = list(type = "SFO"), use_of_ff = "max")
    #> Successfully compiled differential equation model from auto-generated C code.
    fit.ff <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, quiet = TRUE) -summary(fit.ff, data = FALSE)
    #> mkin version used for fitting: 0.9.47.4 +summary(fit.ff, data = FALSE)
    #> mkin version used for fitting: 0.9.47.5 #> R version used for fitting: 3.5.1 -#> Date of fit: Fri Sep 14 11:36:09 2018 -#> Date of summary: Fri Sep 14 11:36:09 2018 +#> Date of fit: Fri Sep 14 16:54:46 2018 +#> Date of summary: Fri Sep 14 16:54:46 2018 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -373,7 +373,7 @@ The transformation of sets of formation fractions is fragile, as it supposes #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 186 model solutions performed in 0.773 s +#> Fitted with method Port using 186 model solutions performed in 0.766 s #> #> Weighting: none #> @@ -446,10 +446,10 @@ The transformation of sets of formation fractions is fragile, as it supposes use_of_ff = "max")
    #> Successfully compiled differential equation model from auto-generated C code.
    fit.ff.2 <- mkinfit(SFO_SFO.ff.2, FOCUS_2006_D, quiet = TRUE) -summary(fit.ff.2, data = FALSE)
    #> mkin version used for fitting: 0.9.47.4 +summary(fit.ff.2, data = FALSE)
    #> mkin version used for fitting: 0.9.47.5 #> R version used for fitting: 3.5.1 -#> Date of fit: Fri Sep 14 11:36:10 2018 -#> Date of summary: Fri Sep 14 11:36:10 2018 +#> Date of fit: Fri Sep 14 16:54:46 2018 +#> Date of summary: Fri Sep 14 16:54:46 2018 #> #> Equations: #> d_parent/dt = - k_parent * parent @@ -457,7 +457,7 @@ The transformation of sets of formation fractions is fragile, as it supposes #> #> Model predictions using solution type deSolve #> -#> Fitted with method Port using 104 model solutions performed in 0.424 s +#> Fitted with method Port using 104 model solutions performed in 0.42 s #> #> Weighting: none #> -- cgit v1.2.1