path: root/test.log

Loading mkin
Loading required package: parallel
Testing mkin
✔ |  OK F W S | Context
✔ |   5       | AIC calculation
✔ |   2       | Export dataset for reading into CAKE
✔ |  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 [3.2 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]
⠏ |   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 [1.6 s]
✔ |   9       | Nonlinear mixed-effects models [7.8 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 [1.6 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 [7.3 s]
✔ |   4       | Calculation of maximum time weighted average concentrations (TWAs) [2.3 s]

══ Results ═════════════════════════════════════════════════════════════════════
Duration: 48.1 s

[ FAIL 3 | WARN 0 | SKIP 0 | PASS 183 ]