From 2a521ab0a4b7d981a2042353e2c60b8a877489b8 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Fri, 16 Sep 2022 10:51:48 +0200 Subject: Improve docs and update pkgdown --- docs/dev/articles/FOCUS_L.html | 36 +++++++++++------------ docs/dev/articles/web_only/benchmarks.html | 22 +++++++------- docs/dev/articles/web_only/dimethenamid_2018.html | 34 ++++++++++----------- 3 files changed, 46 insertions(+), 46 deletions(-) (limited to 'docs/dev/articles') diff --git a/docs/dev/articles/FOCUS_L.html b/docs/dev/articles/FOCUS_L.html index 610d1bdd..43ed0f69 100644 --- a/docs/dev/articles/FOCUS_L.html +++ b/docs/dev/articles/FOCUS_L.html @@ -106,7 +106,7 @@

Example evaluation of FOCUS Laboratory Data L1 to L3

Johannes Ranke

-

Last change 18 May 2022 (rebuilt 2022-08-10)

+

Last change 18 May 2022 (rebuilt 2022-09-16)

Source: vignettes/FOCUS_L.rmd @@ -134,15 +134,15 @@ summary(m.L1.SFO) 
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:18 2022 
-## Date of summary: Wed Aug 10 15:28:18 2022 
+## Date of fit:     Fri Sep 16 10:31:35 2022 
+## Date of summary: Fri Sep 16 10:31:35 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 133 model solutions performed in 0.031 s
+## Fitted using 133 model solutions performed in 0.032 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -240,15 +240,15 @@
 ## doubtful
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:18 2022 
-## Date of summary: Wed Aug 10 15:28:18 2022 
+## Date of fit:     Fri Sep 16 10:31:36 2022 
+## Date of summary: Fri Sep 16 10:31:36 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 369 model solutions performed in 0.082 s
+## Fitted using 369 model solutions performed in 0.081 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -352,15 +352,15 @@
 summary(m.L2.FOMC, data = FALSE)
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:19 2022 
-## Date of summary: Wed Aug 10 15:28:19 2022 
+## Date of fit:     Fri Sep 16 10:31:36 2022 
+## Date of summary: Fri Sep 16 10:31:36 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
 ## 
 ## Model predictions using solution type analytical 
 ## 
-## Fitted using 239 model solutions performed in 0.048 s
+## Fitted using 239 model solutions performed in 0.049 s
 ## 
 ## Error model: Constant variance 
 ## 
@@ -433,8 +433,8 @@
 summary(m.L2.DFOP, data = FALSE)
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:19 2022 
-## Date of summary: Wed Aug 10 15:28:19 2022 
+## Date of fit:     Fri Sep 16 10:31:37 2022 
+## Date of summary: Fri Sep 16 10:31:37 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 *
@@ -539,8 +539,8 @@
 summary(mm.L3[["DFOP", 1]])
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:20 2022 
-## Date of summary: Wed Aug 10 15:28:20 2022 
+## Date of fit:     Fri Sep 16 10:31:37 2022 
+## Date of summary: Fri Sep 16 10:31:38 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - ((k1 * g * exp(-k1 * time) + k2 * (1 - g) * exp(-k2 *
@@ -652,8 +652,8 @@
 summary(mm.L4[["SFO", 1]], data = FALSE)
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:21 2022 
-## Date of summary: Wed Aug 10 15:28:21 2022 
+## Date of fit:     Fri Sep 16 10:31:38 2022 
+## Date of summary: Fri Sep 16 10:31:38 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - k_parent * parent
@@ -717,8 +717,8 @@
 summary(mm.L4[["FOMC", 1]], data = FALSE)
## mkin version used for fitting:    1.1.2 
 ## R version used for fitting:       4.2.1 
-## Date of fit:     Wed Aug 10 15:28:21 2022 
-## Date of summary: Wed Aug 10 15:28:21 2022 
+## Date of fit:     Fri Sep 16 10:31:38 2022 
+## Date of summary: Fri Sep 16 10:31:38 2022 
 ## 
 ## Equations:
 ## d_parent/dt = - (alpha/beta) * 1/((time/beta) + 1) * parent
diff --git a/docs/dev/articles/web_only/benchmarks.html b/docs/dev/articles/web_only/benchmarks.html
index 3dbf2881..e5bc5a21 100644
--- a/docs/dev/articles/web_only/benchmarks.html
+++ b/docs/dev/articles/web_only/benchmarks.html
@@ -106,7 +106,7 @@
       
Benchmark timings for mkin

                         
Johannes Ranke

             
-            
Last change 14 July 2022 (rebuilt 2022-08-10)

+            
Last change 14 July 2022 (rebuilt 2022-09-16)

       
       Source: vignettes/web_only/benchmarks.rmd
       
@@ -337,8 +337,8 @@
 Ryzen 7 1700
 4.2.1
 1.1.2
-1.940
-3.619
+1.957
+3.633
 
 
 
@@ -507,9 +507,9 @@
 Ryzen 7 1700
 4.2.1
 1.1.2
-1.490
-6.035
-2.799
+1.503
+6.147
+2.803
 
 
 
@@ -729,12 +729,12 @@
 Ryzen 7 1700
 4.2.1
 1.1.2
-0.857
+0.861
 1.295
-1.483
-2.989
-1.919
-2.766
+1.507
+3.102
+1.961
+2.852
 
 
 
diff --git a/docs/dev/articles/web_only/dimethenamid_2018.html b/docs/dev/articles/web_only/dimethenamid_2018.html
index 81b15cb9..60f1ab5a 100644
--- a/docs/dev/articles/web_only/dimethenamid_2018.html
+++ b/docs/dev/articles/web_only/dimethenamid_2018.html
@@ -106,7 +106,7 @@
       
Example evaluations of the dimethenamid data from 2018

                         
Johannes Ranke

             
-            
Last change 1 July 2022, built on 10 Aug 2022

+            
Last change 1 July 2022, built on 16 Sep 2022

       
       Source: vignettes/web_only/dimethenamid_2018.rmd
       
@@ -457,24 +457,24 @@ attached base packages:
 [1] stats     graphics  grDevices utils     datasets  methods   base     
 
 other attached packages:
-[1] saemix_3.1   npde_3.2     nlme_3.1-158 mkin_1.1.2   knitr_1.39  
+[1] nlme_3.1-158 mkin_1.1.2   knitr_1.39  
 
 loaded via a namespace (and not attached):
- [1] deSolve_1.33      zoo_1.8-10        tidyselect_1.1.2  xfun_0.31        
- [5] bslib_0.4.0       purrr_0.3.4       lattice_0.20-45   colorspace_2.0-3 
- [9] vctrs_0.4.1       generics_0.1.3    htmltools_0.5.3   yaml_2.3.5       
-[13] utf8_1.2.2        rlang_1.0.4       pkgdown_2.0.6     jquerylib_0.1.4  
-[17] pillar_1.8.0      glue_1.6.2        DBI_1.1.3         lifecycle_1.0.1  
-[21] stringr_1.4.0     munsell_0.5.0     gtable_0.3.0      ragg_1.2.2       
-[25] codetools_0.2-18  memoise_2.0.1     evaluate_0.15     fastmap_1.1.0    
-[29] lmtest_0.9-40     parallel_4.2.1    fansi_1.0.3       highr_0.9        
-[33] scales_1.2.0      cachem_1.0.6      desc_1.4.1        jsonlite_1.8.0   
-[37] systemfonts_1.0.4 fs_1.5.2          textshaping_0.3.6 gridExtra_2.3    
-[41] ggplot2_3.3.6     digest_0.6.29     stringi_1.7.8     dplyr_1.0.9      
-[45] grid_4.2.1        rprojroot_2.0.3   cli_3.3.0         tools_4.2.1      
-[49] magrittr_2.0.3    sass_0.4.2        tibble_3.1.8      pkgconfig_2.0.3  
-[53] assertthat_0.2.1  rmarkdown_2.14.3  R6_2.5.1          mclust_5.4.10    
-[57] compiler_4.2.1
+ [1] deSolve_1.33 zoo_1.8-10 tidyselect_1.1.2 xfun_0.31 + [5] bslib_0.4.0 purrr_0.3.4 lattice_0.20-45 colorspace_2.0-3 + [9] vctrs_0.4.1 generics_0.1.3 htmltools_0.5.3 yaml_2.3.5 +[13] utf8_1.2.2 rlang_1.0.4 pkgdown_2.0.6 saemix_3.1 +[17] jquerylib_0.1.4 pillar_1.8.0 glue_1.6.2 DBI_1.1.3 +[21] lifecycle_1.0.1 stringr_1.4.0 munsell_0.5.0 gtable_0.3.0 +[25] ragg_1.2.2 memoise_2.0.1 evaluate_0.15 npde_3.2 +[29] fastmap_1.1.0 lmtest_0.9-40 parallel_4.2.1 fansi_1.0.3 +[33] highr_0.9 KernSmooth_2.23-20 scales_1.2.0 cachem_1.0.6 +[37] desc_1.4.1 jsonlite_1.8.0 systemfonts_1.0.4 fs_1.5.2 +[41] textshaping_0.3.6 gridExtra_2.3 ggplot2_3.3.6 digest_0.6.29 +[45] stringi_1.7.8 dplyr_1.0.9 grid_4.2.1 rprojroot_2.0.3 +[49] cli_3.3.0 tools_4.2.1 magrittr_2.0.3 sass_0.4.2 +[53] tibble_3.1.8 pkgconfig_2.0.3 assertthat_0.2.1 rmarkdown_2.14.3 +[57] mclust_5.4.10 R6_2.5.1 compiler_4.2.1

References -- cgit v1.2.1