From bc3825ae2d12c18ea3d3caf17eb23c93fef180b8 Mon Sep 17 00:00:00 2001 From: Johannes Ranke Date: Thu, 8 Oct 2020 09:31:35 +0200 Subject: Fix issues for release --- docs/dev/reference/parms.html | 43 +++++++++++++++++++++---------------------- 1 file changed, 21 insertions(+), 22 deletions(-) (limited to 'docs/dev/reference/parms.html') diff --git a/docs/dev/reference/parms.html b/docs/dev/reference/parms.html index a50ca352..bd35d3c1 100644 --- a/docs/dev/reference/parms.html +++ b/docs/dev/reference/parms.html @@ -188,23 +188,22 @@ such matrices is returned.

Examples

# mkinfit objects
 fit <- mkinfit("SFO", FOCUS_2006_C, quiet = TRUE)
-parms(fit)
#>      parent_0 k_parent_sink         sigma 
-#>    82.4921598     0.3060633     4.6730124 
parms(fit, transformed = TRUE)
#>          parent_0 log_k_parent_sink             sigma 
-#>         82.492160         -1.183963          4.673012 

+parms(fit)
#>   parent_0   k_parent      sigma 
+#> 82.4921598  0.3060633  4.6730124 
parms(fit, transformed = TRUE)
#>     parent_0 log_k_parent        sigma 
+#>    82.492160    -1.183963     4.673012 

 # mmkin objects
 ds <- lapply(experimental_data_for_UBA_2019[6:10],
  function(x) subset(x$data[c("name", "time", "value")]))
 names(ds) <- paste("Dataset", 6:10)
 # \dontrun{
-fits <- mmkin(c("SFO", "FOMC", "DFOP"), ds, quiet = TRUE, cores = 1)
-parms(fits["SFO", ])
#>                 Dataset 6    Dataset 7  Dataset 8  Dataset 9  Dataset 10
-#> parent_0      88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
-#> k_parent_sink  0.05794659  0.009647805  0.2102974  0.1232258  0.00720421
-#> sigma          5.15274487  7.040168584  3.6769645  6.4669234  6.50457673
parms(fits[, 2])
#> $SFO
-#>                  Dataset 7
-#> parent_0      82.666781678
-#> k_parent_sink  0.009647805
-#> sigma          7.040168584
+fits <- mmkin(c("SFO", "FOMC", "DFOP"), ds, quiet = TRUE, cores = 1)
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.0195
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.00408
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.0492
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.00985
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.00815
#> Warning: Shapiro-Wilk test for standardized residuals: p =  0.011
parms(fits["SFO", ])
#>            Dataset 6    Dataset 7  Dataset 8  Dataset 9  Dataset 10
+#> parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
+#> k_parent  0.05794659  0.009647805  0.2102974  0.1232258  0.00720421
+#> sigma     5.15274487  7.040168584  3.6769645  6.4669234  6.50457673
parms(fits[, 2])
#> $SFO
+#>             Dataset 7
+#> parent_0 82.666781678
+#> k_parent  0.009647805
+#> sigma     7.040168584
 #> 
 #> $FOMC
 #>           Dataset 7
@@ -221,10 +220,10 @@ such matrices is returned.

 #> g         0.526942415
 #> sigma     2.221302196
 #> 
parms(fits)
#> $SFO
-#>                 Dataset 6    Dataset 7  Dataset 8  Dataset 9  Dataset 10
-#> parent_0      88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
-#> k_parent_sink  0.05794659  0.009647805  0.2102974  0.1232258  0.00720421
-#> sigma          5.15274487  7.040168584  3.6769645  6.4669234  6.50457673
+#>            Dataset 6    Dataset 7  Dataset 8  Dataset 9  Dataset 10
+#> parent_0 88.52275400 82.666781678 86.8547308 91.7779306 82.14809450
+#> k_parent  0.05794659  0.009647805  0.2102974  0.1232258  0.00720421
+#> sigma     5.15274487  7.040168584  3.6769645  6.4669234  6.50457673
 #> 
 #> $FOMC
 #>          Dataset 6  Dataset 7 Dataset 8 Dataset 9 Dataset 10
@@ -241,15 +240,15 @@ such matrices is returned.

 #> g         0.44845068  0.526942415  0.66091965  0.65322767  0.342652880
 #> sigma     1.35690468  2.221302196  1.34169076  2.87159846  1.942067831
 #> 
parms(fits, transformed = TRUE)
#> $SFO
-#>                   Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
-#> parent_0          88.522754 82.666782 86.854731 91.777931  82.148094
-#> log_k_parent_sink -2.848234 -4.641025 -1.559232 -2.093737  -4.933090
-#> sigma              5.152745  7.040169  3.676964  6.466923   6.504577
+#>              Dataset 6 Dataset 7 Dataset 8 Dataset 9 Dataset 10
+#> parent_0     88.522754 82.666782 86.854731 91.777931  82.148094
+#> log_k_parent -2.848234 -4.641025 -1.559232 -2.093737  -4.933090
+#> sigma         5.152745  7.040169  3.676964  6.466923   6.504577
 #> 
 #> $FOMC
 #>            Dataset 6  Dataset 7  Dataset 8   Dataset 9 Dataset 10
-#> parent_0  95.5585751 92.6837649 90.7197870 98.38393896  94.848146
-#> log_alpha  0.2916741 -0.6996015  0.4941466  0.07181817  -1.271085
+#> parent_0  95.5585751 92.6837649 90.7197870 98.38393897  94.848146
+#> log_alpha  0.2916741 -0.6996015  0.4941466  0.07181816  -1.271085
 #> log_beta   2.5675088  2.6493701  1.6108523  1.48095106   1.932278
 #> sigma      1.8476712  1.9167519  1.0660627  3.14605557   1.622278
 #> 
-- 
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