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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 ]
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