Add more tests and fix HS in saem

1 files changed, 40 insertions, 9 deletions

diff --git a/test.log b/test.log
index 6ba8ff03..f39791ae 100644
--- a/test.log
+++ b/test.log
@@ -7,31 +7,62 @@ Testing mkin
 ✔ |  14       | Results for FOCUS D established in expertise for UBA (Ranke 2014) [1.0 s]
 ✔ |   4       | Calculation of FOCUS chi2 error levels [0.5 s]
 ✔ |   7       | Fitting the SFORB model [3.6 s]
-✔ |   5       | Analytical solutions for coupled models [3.4 s]
+✔ |   5       | Analytical solutions for coupled models [3.2 s]
 ✔ |   5       | Calculation of Akaike weights
 ✔ |  14       | Confidence intervals and p-values [1.2 s]
 ✔ |  14       | Error model fitting [4.7 s]
 ✔ |   3       | Time step normalisation
 ✔ |   4       | Test fitting the decline of metabolites from their maximum [0.3 s]
 ✔ |   1       | Fitting the logistic model [0.2 s]
-✔ |  23       | Nonlinear mixed effects models [8.1 s]
+⠏ |   8 2     | Nonlinear mixed effects models                                                             
+LL by is "-1333.17 (df=13)"
+                           
+LL by is "-1333.17 (df=13)"
+                           
+LL by is "-1336.30 (df=13)"
+
✖ |  11 2     | Nonlinear mixed effects models [6.4 s]
+────────────────────────────────────────────────────────────────────────────────
+ERROR (test_mixed.R:11:3): Parent only models can be fitted using nonlinear mixed effects models
+Error: object 'sfo_saem_1' not found
+Backtrace:
+ 1. base::summary(sfo_saem_1) test_mixed.R:11:2
+
+FAILURE (test_mixed.R:91:3): Print methods work
+Results have changed from known value recorded in 'print_sfo_saemix_1.txt'.
+
+old[6:11] vs new[6:13]
+  "Data:"
+  "264 observations of 1 variable(s) grouped in 15 datasets"
+  ""
+  "Likelihood computed by importance sampling"
++ "                         "
++ "LL by is \"-653.97 (df=6)\""
+  "   AIC  BIC logLik"
+  "  1320 1324   -654"
+  ""
+────────────────────────────────────────────────────────────────────────────────
 ✔ |   2       | Test dataset classes mkinds and mkindsg
 ✔ |   1       | mkinfit features [0.3 s]
 ✔ |  12       | Special cases of mkinfit calls [0.8 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 [1.7 s]
+✔ |  16       | Evaluations according to 2015 NAFTA guidance [1.6 s]
 ✔ |   9       | Nonlinear mixed-effects models [7.8 s]
-✔ |  16       | Plotting [1.9 s]
+✖ |  15 1     | Plotting [1.9 s]
+────────────────────────────────────────────────────────────────────────────────
+FAILURE (test_plot.R:39:3): Plotting mkinfit and mmkin objects is reproducible
+Figures don't match: mixed-model-fit-for-nlme-object.svg
+
+────────────────────────────────────────────────────────────────────────────────
 ✔ |   4       | Residuals extracted from mkinfit models
-✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [1.5 s]
+✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [1.6 s]
 ✔ |   4       | Summary [0.1 s]
 ✔ |   1       | Summaries of old mkinfit objects
 ✔ |   4       | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.3 s]
-✔ |   9       | Hypothesis tests [7.4 s]
-✔ |   4       | Calculation of maximum time weighted average concentrations (TWAs) [2.4 s]
+✔ |   9       | Hypothesis tests [7.3 s]
+✔ |   4       | Calculation of maximum time weighted average concentrations (TWAs) [2.3 s]
 
 ══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 50.1 s
+Duration: 48.1 s
 
-[ FAIL 0 | WARN 0 | SKIP 0 | PASS 196 ]
+[ FAIL 3 | WARN 0 | SKIP 0 | PASS 183 ]