Warn if standardized residuals are unlikely normal

This revealed a bug in the data returned in mkinfit$data in the case
of the d_3 algorithm, which also affected the residual plot - the
data from the direct fitting was not returned even if this was
the better method.

1 files changed, 18 insertions, 11 deletions

diff --git a/test.log b/test.log
index e026e559..a1fa7dfb 100644
--- a/test.log
+++ b/test.log
@@ -2,10 +2,10 @@ Loading mkin
 Testing mkin
 ✔ |  OK F W S | Context
 ✔ |   2       | Export dataset for reading into CAKE
-✔ |  13       | Results for FOCUS D established in expertise for UBA (Ranke 2014) [1.1 s]
+✔ |  14       | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.9 s]
 ✔ |   4       | Calculation of FOCUS chi2 error levels [0.4 s]
 ✔ |   7       | Fitting the SFORB model [3.3 s]
-✔ |   5       | Analytical solutions for coupled models [3.1 s]
+✔ |   5       | Analytical solutions for coupled models [3.2 s]
 ✔ |   5       | Calculation of Akaike weights
 ✔ |  10       | Confidence intervals and p-values [1.1 s]
 ✔ |  14       | Error model fitting [4.0 s]
@@ -15,22 +15,29 @@ Testing mkin
 ✔ |  12       | Special cases of mkinfit calls [0.6 s]
 ✔ |   8       | mkinmod model generation and printing [0.2 s]
 ✔ |   3       | Model predictions with mkinpredict [0.4 s]
-✔ |  16       | Evaluations according to 2015 NAFTA guidance [1.6 s]
-✔ |   9       | Nonlinear mixed-effects models [7.7 s]
+✔ |  16       | Evaluations according to 2015 NAFTA guidance [1.5 s]
+✔ |   9       | Nonlinear mixed-effects models [7.8 s]
 ✔ |   4       | Calculation of maximum time weighted average concentrations (TWAs) [2.4 s]
-✔ |   3       | Summary
-✔ |  14       | Plotting [1.5 s]
+✔ |   3   2   | Summary
+────────────────────────────────────────────────────────────────────────────────
+test_plots_summary_twa.R:59: warning: Summaries are reproducible
+The p-value for the Shapiro-Wilk test of normality on standardized residuals is < 0.05
+
+test_plots_summary_twa.R:72: warning: Summaries are reproducible
+The p-value for the Shapiro-Wilk test of normality on standardized residuals is < 0.05
+────────────────────────────────────────────────────────────────────────────────
+✔ |  14       | Plotting [1.4 s]
 ✔ |   4       | AIC calculation
 ✔ |   4       | Residuals extracted from mkinfit models
-✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [1.4 s]
+✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [1.5 s]
 ✔ |   1       | Summaries of old mkinfit objects
-✔ |   4       | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.3 s]
+✔ |   4       | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.1 s]
 ✔ |   9       | Hypothesis tests [6.6 s]
 
 ══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 38.5 s
+Duration: 38.3 s
 
-OK:       159
+OK:       160
 Failed:   0
-Warnings: 0
+Warnings: 2
 Skipped:  0