From 5181a55b1619c153b690db97ee82698bf76525ff Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Thu, 21 Feb 2019 16:16:21 +0100 Subject: Static documentation rebuilt by pkgdown to get the codecov badge into the docs --- docs/articles/FOCUS_D.html | 6 ++-- docs/articles/FOCUS_L.html | 38 ++++++++++++------------ docs/articles/web_only/compiled_models.html | 10 +++---- docs/index.html | 1 + docs/reference/Extract.mmkin.html | 12 ++++---- docs/reference/mccall81_245T.html | 12 ++++---- docs/reference/mkinfit.html | 46 ++++++++++++++--------------- docs/reference/mkinmod.html | 2 +- docs/reference/mkinpredict.html | 2 +- docs/reference/mmkin.html | 4 +-- docs/reference/summary.mkinfit.html | 6 ++-- docs/reference/transform_odeparms.html | 24 +++++++-------- 12 files changed, 82 insertions(+), 81 deletions(-) diff --git a/docs/articles/FOCUS_D.html b/docs/articles/FOCUS_D.html index 4dd23fd2..33424756 100644 --- a/docs/articles/FOCUS_D.html +++ b/docs/articles/FOCUS_D.html @@ -163,8 +163,8 @@ 
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 15:13:35 2019 
-## Date of summary: Thu Feb 21 15:13:35 2019 
+## Date of fit:     Thu Feb 21 16:13:41 2019 
+## Date of summary: Thu Feb 21 16:13:41 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent
@@ -172,7 +172,7 @@
 ## 
 ## Model predictions using solution type deSolve 
 ## 
-## Fitted with method Port using 153 model solutions performed in 0.683 s
+## Fitted with method Port using 153 model solutions performed in 0.697 s
 ## 
 ## Weighting: none
 ## 
diff --git a/docs/articles/FOCUS_L.html b/docs/articles/FOCUS_L.html
index 0820b21a..b422b315 100644
--- a/docs/articles/FOCUS_L.html
+++ b/docs/articles/FOCUS_L.html
@@ -111,15 +111,15 @@
 summary(m.L1.SFO)
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:37 2019 
-## Date of summary: Thu Feb 21 15:13:37 2019 
+## Date of fit:     Thu Feb 21 16:13:43 2019 
+## Date of summary: Thu Feb 21 16:13:43 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent_sink * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted with method Port using 37 model solutions performed in 0.101 s
+## Fitted with method Port using 37 model solutions performed in 0.095 s
 ## 
 ## Weighting: none
 ## 
@@ -202,15 +202,15 @@
 
summary(m.L1.FOMC, data = FALSE)

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:39 2019 
-## Date of summary: Thu Feb 21 15:13:39 2019 
+## Date of fit:     Thu Feb 21 16:13:45 2019 
+## Date of summary: Thu Feb 21 16:13:45 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted with method Port using 611 model solutions performed in 1.545 s
+## Fitted with method Port using 611 model solutions performed in 1.509 s
 ## 
 ## Weighting: none
 ## 
@@ -297,8 +297,8 @@
 
summary(m.L2.FOMC, data = FALSE)

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:39 2019 
-## Date of summary: Thu Feb 21 15:13:39 2019 
+## Date of fit:     Thu Feb 21 16:13:45 2019 
+## Date of summary: Thu Feb 21 16:13:45 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
@@ -368,8 +368,8 @@
 
summary(m.L2.DFOP, data = FALSE)

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:40 2019 
-## Date of summary: Thu Feb 21 15:13:40 2019 
+## Date of fit:     Thu Feb 21 16:13:46 2019 
+## Date of summary: Thu Feb 21 16:13:46 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -378,7 +378,7 @@
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted with method Port using 336 model solutions performed in 0.852 s
+## Fitted with method Port using 336 model solutions performed in 0.842 s
 ## 
 ## Weighting: none
 ## 
@@ -460,8 +460,8 @@
 
summary(mm.L3[["DFOP", 1]])

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:41 2019 
-## Date of summary: Thu Feb 21 15:13:41 2019 
+## Date of fit:     Thu Feb 21 16:13:47 2019 
+## Date of summary: Thu Feb 21 16:13:48 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) *
@@ -561,15 +561,15 @@
 
summary(mm.L4[["SFO", 1]], data = FALSE)

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:42 2019 
-## Date of summary: Thu Feb 21 15:13:42 2019 
+## Date of fit:     Thu Feb 21 16:13:48 2019 
+## Date of summary: Thu Feb 21 16:13:48 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent_sink * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted with method Port using 46 model solutions performed in 0.112 s
+## Fitted with method Port using 46 model solutions performed in 0.11 s
 ## 
 ## Weighting: none
 ## 
@@ -621,15 +621,15 @@
 
summary(mm.L4[["FOMC", 1]], data = FALSE)

 
## mkin version used for fitting:    0.9.48.1 
 ## R version used for fitting:       3.5.2 
-## Date of fit:     Thu Feb 21 15:13:42 2019 
-## Date of summary: Thu Feb 21 15:13:42 2019 
+## Date of fit:     Thu Feb 21 16:13:48 2019 
+## Date of summary: Thu Feb 21 16:13:48 2019 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted with method Port using 66 model solutions performed in 0.169 s
+## Fitted with method Port using 66 model solutions performed in 0.163 s
 ## 
 ## Weighting: none
 ## 
diff --git a/docs/articles/web_only/compiled_models.html b/docs/articles/web_only/compiled_models.html
index b00fda46..8f13b969 100644
--- a/docs/articles/web_only/compiled_models.html
+++ b/docs/articles/web_only/compiled_models.html
@@ -126,9 +126,9 @@
 }

 
## Lade nötiges Paket: rbenchmark

 
##                    test replications elapsed relative user.self sys.self
-## 3     deSolve, compiled            3   2.340    1.000     2.338        0
-## 1 deSolve, not compiled            3  17.729    7.576    17.720        0
-## 2      Eigenvalue based            3   2.889    1.235     2.888        0
+## 3     deSolve, compiled            3   2.347    1.000     2.346        0
+## 1 deSolve, not compiled            3  17.693    7.539    17.684        0
+## 2      Eigenvalue based            3   2.907    1.239     2.905        0
 ##   user.child sys.child
 ## 3          0         0
 ## 1          0         0
@@ -157,8 +157,8 @@
 }

 
## Successfully compiled differential equation model from auto-generated C code.

 
##                    test replications elapsed relative user.self sys.self
-## 2     deSolve, compiled            3   4.122     1.00     4.120        0
-## 1 deSolve, not compiled            3  37.471     9.09    37.452        0
+## 2     deSolve, compiled            3   4.278    1.000     4.276        0
+## 1 deSolve, not compiled            3  37.855    8.849    37.833        0
 ##   user.child sys.child
 ## 2          0         0
 ## 1          0         0

diff --git a/docs/index.html b/docs/index.html
index d7908ca2..1fe49776 100644
--- a/docs/index.html
+++ b/docs/index.html
@@ -191,6 +191,7 @@
 
    
 
    • 
 
  • Build Status
    • 
+
  • codecov
    • 
 

 
 
diff --git a/docs/reference/Extract.mmkin.html b/docs/reference/Extract.mmkin.html
index 39228ba7..8e018e96 100644
--- a/docs/reference/Extract.mmkin.html
+++ b/docs/reference/Extract.mmkin.html
@@ -280,7 +280,7 @@
 #> 
 #> $time
 #>        User      System verstrichen 
-#>       0.197       0.000       0.197 
+#>       0.198       0.000       0.198 
 #> 
 #> $mkinmod
 #> <mkinmod> model generated with
@@ -469,8 +469,8 @@
 #>     }
 #>     return(mC)
 #> }
-#> <bytecode: 0x55555920c328>
-#> <environment: 0x555555b0eb48>
+#> <bytecode: 0x55555920cdf0>
+#> <environment: 0x5555562c5500>
 #> 
 #> $cost_notrans
 #> function (P) 
@@ -492,8 +492,8 @@
 #>         scaleVar = scaleVar)
 #>     return(mC)
 #> }
-#> <bytecode: 0x55555a39faa0>
-#> <environment: 0x555555b0eb48>
+#> <bytecode: 0x55555a399838>
+#> <environment: 0x5555562c5500>
 #> 
 #> $hessian_notrans
 #>                   parent_0 k_parent_sink
@@ -560,7 +560,7 @@
 #> 99.17407 
 #> 
 #> $date
-#> [1] "Thu Feb 21 15:11:41 2019"
+#> [1] "Thu Feb 21 16:11:47 2019"
 #> 
 #> $version
 #> [1] "0.9.48.1"
diff --git a/docs/reference/mccall81_245T.html b/docs/reference/mccall81_245T.html
index ce1c88e9..7d865dcf 100644
--- a/docs/reference/mccall81_245T.html
+++ b/docs/reference/mccall81_245T.html
@@ -160,8 +160,8 @@
                          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:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:12:02 2019 
-#> Date of summary: Thu Feb 21 15:12:02 2019 
+#> Date of fit:     Thu Feb 21 16:12:08 2019 
+#> Date of summary: Thu Feb 21 16:12:08 2019 
 #> 
 #> Equations:
 #> d_T245/dt = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -171,7 +171,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 574 model solutions performed in 3.856 s
+#> Fitted with method Port using 574 model solutions performed in 3.846 s
 #> 
 #> Weighting: none
 #> 
@@ -249,8 +249,8 @@
                    fixed_parms = "k_phenol_sink", quiet = TRUE)
     summary(fit.2, data = FALSE)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:12:04 2019 
-#> Date of summary: Thu Feb 21 15:12:04 2019 
+#> Date of fit:     Thu Feb 21 16:12:10 2019 
+#> Date of summary: Thu Feb 21 16:12:10 2019 
 #> 
 #> Equations:
 #> d_T245/dt = - k_T245_sink * T245 - k_T245_phenol * T245
@@ -260,7 +260,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 246 model solutions performed in 1.607 s
+#> Fitted with method Port using 246 model solutions performed in 1.602 s
 #> 
 #> Weighting: none
 #> 
diff --git a/docs/reference/mkinfit.html b/docs/reference/mkinfit.html
index 369d7bbe..5f57189c 100644
--- a/docs/reference/mkinfit.html
+++ b/docs/reference/mkinfit.html
@@ -438,15 +438,15 @@
 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:     Thu Feb 21 15:12:07 2019 
-#> Date of summary: Thu Feb 21 15:12:07 2019 
+#> Date of fit:     Thu Feb 21 16:12:13 2019 
+#> Date of summary: Thu Feb 21 16:12:13 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 0.164 s
+#> Fitted with method Port using 64 model solutions performed in 0.16 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 
-#>       1.045       0.000       1.046 
coef(fit)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       1.035       0.004       1.040 
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 
-#>       0.835       0.000       0.835 
coef(fit.deSolve)
#>          parent_0 log_k_parent_sink   log_k_parent_m1     log_k_m1_sink 
+#>       0.819       0.000       0.819 
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 
@@ -628,8 +628,8 @@
                       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:     Thu Feb 21 15:12:19 2019 
-#> Date of summary: Thu Feb 21 15:12:19 2019 
+#> Date of fit:     Thu Feb 21 16:12:25 2019 
+#> Date of summary: Thu Feb 21 16:12:25 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 0.853 s
+#> Fitted with method Port using 186 model solutions performed in 0.877 s
 #> 
 #> Weighting: none
 #> 
@@ -745,8 +745,8 @@
 #>   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:     Thu Feb 21 15:12:22 2019 
-#> Date of summary: Thu Feb 21 15:12:22 2019 
+#> Date of fit:     Thu Feb 21 16:12:28 2019 
+#> Date of summary: Thu Feb 21 16:12:28 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 2.573 s
+#> Fitted with method Port using 551 model solutions performed in 2.574 s
 #> 
 #> Weighting: none
 #> 
@@ -867,8 +867,8 @@
 #>   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:     Thu Feb 21 15:12:22 2019 
-#> Date of summary: Thu Feb 21 15:12:22 2019 
+#> Date of fit:     Thu Feb 21 16:12:29 2019 
+#> Date of summary: Thu Feb 21 16:12:29 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -876,7 +876,7 @@
 #> 
 #> Model predictions using solution type deSolve 
 #> 
-#> Fitted with method Port using 155 model solutions performed in 0.718 s
+#> Fitted with method Port using 155 model solutions performed in 0.756 s
 #> 
 #> Weighting: mean
 #> 
@@ -985,8 +985,8 @@
                      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:     Thu Feb 21 15:12:23 2019 
-#> Date of summary: Thu Feb 21 15:12:23 2019 
+#> Date of fit:     Thu Feb 21 16:12:30 2019 
+#> Date of summary: Thu Feb 21 16:12:30 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 0.802 s
+#> Fitted with method Port using 174 model solutions performed in 0.864 s
 #> 
 #> Weighting: manual
 #> 
@@ -1105,8 +1105,8 @@
 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:     Thu Feb 21 15:12:25 2019 
-#> Date of summary: Thu Feb 21 15:12:25 2019 
+#> Date of fit:     Thu Feb 21 16:12:31 2019 
+#> Date of summary: Thu Feb 21 16:12:31 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 1.251 s
+#> Fitted with method Port using 270 model solutions performed in 1.306 s
 #> 
 #> Weighting: manual
 #> 
@@ -1223,8 +1223,8 @@
                        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:     Thu Feb 21 15:12:28 2019 
-#> Date of summary: Thu Feb 21 15:12:28 2019 
+#> Date of fit:     Thu Feb 21 16:12:35 2019 
+#> Date of summary: Thu Feb 21 16:12:35 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 3.31 s
+#> Fitted with method Port using 692 model solutions performed in 3.309 s
 #> 
 #> Weighting: manual
 #> 
diff --git a/docs/reference/mkinmod.html b/docs/reference/mkinmod.html
index e4509e8a..79eb89d3 100644
--- a/docs/reference/mkinmod.html
+++ b/docs/reference/mkinmod.html
@@ -231,7 +231,7 @@ 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 file6490632228a0.c 2> file6490632228a0.c.err.txt 
+#>  /usr/lib/R/bin/R CMD SHLIB file23f474fcf31d.c 2> file23f474fcf31d.c.err.txt 
 #> Program source:
 #>   1: #include <R.h>
 #>   2: 
diff --git a/docs/reference/mkinpredict.html b/docs/reference/mkinpredict.html
index deb1335a..02b809a0 100644
--- a/docs/reference/mkinpredict.html
+++ b/docs/reference/mkinpredict.html
@@ -325,7 +325,7 @@
                 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 verstrichen 
-#>       0.004       0.000       0.004 
  system.time(
+#>       0.004       0.000       0.003 
  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
diff --git a/docs/reference/mmkin.html b/docs/reference/mmkin.html
index af52e38a..71c347fd 100644
--- a/docs/reference/mmkin.html
+++ b/docs/reference/mmkin.html
@@ -191,8 +191,8 @@
 time_1 <- system.time(fits.4 <- mmkin(models, datasets, cores = 1, quiet = TRUE))
 
 time_default
#>        User      System verstrichen 
-#>       0.036       0.050       7.160 
time_1
#>        User      System verstrichen 
-#>      22.888       0.000      22.902 

+#>       0.051       0.032       7.366 
time_1
#>        User      System verstrichen 
+#>      23.290       0.000      23.305 

 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/summary.mkinfit.html b/docs/reference/summary.mkinfit.html
index 80298bb4..3b55635c 100644
--- a/docs/reference/summary.mkinfit.html
+++ b/docs/reference/summary.mkinfit.html
@@ -208,15 +208,15 @@
     
Examples

     
  summary(mkinfit(mkinmod(parent = mkinsub("SFO")), FOCUS_2006_A, quiet = TRUE))
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:13:20 2019 
-#> Date of summary: Thu Feb 21 15:13:20 2019 
+#> Date of fit:     Thu Feb 21 16:13:27 2019 
+#> Date of summary: Thu Feb 21 16:13:27 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent_sink * parent
 #> 
 #> Model predictions using solution type analytical 
 #> 
-#> Fitted with method Port using 35 model solutions performed in 0.087 s
+#> Fitted with method Port using 35 model solutions performed in 0.086 s
 #> 
 #> Weighting: none
 #> 
diff --git a/docs/reference/transform_odeparms.html b/docs/reference/transform_odeparms.html
index 088ea9d0..d15b0213 100644
--- a/docs/reference/transform_odeparms.html
+++ b/docs/reference/transform_odeparms.html
@@ -202,8 +202,8 @@ The transformation of sets of formation fractions is fragile, as it supposes
 fit <- mkinfit(SFO_SFO, FOCUS_2006_D, quiet = TRUE)
 summary(fit, data=FALSE) # See transformed and backtransformed parameters
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:13:29 2019 
-#> Date of summary: Thu Feb 21 15:13:29 2019 
+#> Date of fit:     Thu Feb 21 16:13:35 2019 
+#> Date of summary: Thu Feb 21 16:13:35 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent
@@ -211,7 +211,7 @@ 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 0.84 s
+#> Fitted with method Port using 153 model solutions performed in 0.782 s
 #> 
 #> Weighting: none
 #> 
@@ -278,8 +278,8 @@ The transformation of sets of formation fractions is fragile, as it supposes
 
fit.2 <- mkinfit(SFO_SFO, FOCUS_2006_D, transform_rates = FALSE, quiet = TRUE)
 summary(fit.2, data=FALSE)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:13:30 2019 
-#> Date of summary: Thu Feb 21 15:13:30 2019 
+#> Date of fit:     Thu Feb 21 16:13:37 2019 
+#> Date of summary: Thu Feb 21 16:13:37 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent_sink * parent - k_parent_m1 * parent
@@ -287,7 +287,7 @@ 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 1.631 s
+#> Fitted with method Port using 350 model solutions performed in 1.579 s
 #> 
 #> Weighting: none
 #> 
@@ -366,8 +366,8 @@ The transformation of sets of formation fractions is fragile, as it supposes
 fit.ff <- mkinfit(SFO_SFO.ff, FOCUS_2006_D, quiet = TRUE)
 summary(fit.ff, data = FALSE)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:13:32 2019 
-#> Date of summary: Thu Feb 21 15:13:32 2019 
+#> Date of fit:     Thu Feb 21 16:13:38 2019 
+#> Date of summary: Thu Feb 21 16:13:38 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -375,7 +375,7 @@ 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 0.852 s
+#> Fitted with method Port using 186 model solutions performed in 0.859 s
 #> 
 #> Weighting: none
 #> 
@@ -450,8 +450,8 @@ The transformation of sets of formation fractions is fragile, as it supposes
 fit.ff.2 <- mkinfit(SFO_SFO.ff.2, FOCUS_2006_D, quiet = TRUE)
 summary(fit.ff.2, data = FALSE)
#> mkin version used for fitting:    0.9.48.1 
 #> R version used for fitting:       3.5.2 
-#> Date of fit:     Thu Feb 21 15:13:32 2019 
-#> Date of summary: Thu Feb 21 15:13:32 2019 
+#> Date of fit:     Thu Feb 21 16:13:39 2019 
+#> Date of summary: Thu Feb 21 16:13:39 2019 
 #> 
 #> Equations:
 #> d_parent/dt = - k_parent * parent
@@ -459,7 +459,7 @@ 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 0.473 s
+#> Fitted with method Port using 104 model solutions performed in 0.47 s
 #> 
 #> Weighting: none
 #> 
-- 
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