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ℹ Loading mkin
Loading required package: parallel
ℹ Testing mkin
✔ | OK F W S | Context
✔ | 5 | AIC calculation
✔ | 5 | Analytical solutions for coupled models [3.4 s]
✔ | 5 | Calculation of Akaike weights
✔ | 2 | Export dataset for reading into CAKE
✔ | 12 | Confidence intervals and p-values [1.1 s]
✔ | 14 | Error model fitting [4.8 s]
✔ | 5 | Time step normalisation
✔ | 4 | Calculation of FOCUS chi2 error levels [0.6 s]
✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.8 s]
✔ | 4 | Test fitting the decline of metabolites from their maximum [0.3 s]
✔ | 1 | Fitting the logistic model [0.2 s]
✔ | 35 1 | Nonlinear mixed-effects models [27.8 s]
────────────────────────────────────────────────────────────────────────────────
Skip (test_mixed.R:161:3): saem results are reproducible for biphasic fits
Reason: Fitting with saemix takes around 10 minutes when using deSolve
────────────────────────────────────────────────────────────────────────────────
✔ | 2 | Test dataset classes mkinds and mkindsg
✔ | 10 | Special cases of mkinfit calls [0.4 s]
✔ | 1 | mkinfit features [0.3 s]
✔ | 8 | mkinmod model generation and printing [0.2 s]
✔ | 3 | Model predictions with mkinpredict [0.3 s]
✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5 s]
✔ | 9 | Nonlinear mixed-effects models with nlme [8.2 s]
✖ | 15 1 2 | Plotting [1.3 s]
────────────────────────────────────────────────────────────────────────────────
Warning (test_plot.R:38:5): Plotting mkinfit, mmkin and mixed model objects is reproducible
Adding new file snapshot: '_snaps/plot/mixed-model-fit-for-saem-object-with-saemix-transformations.svg'
Failure (test_plot.R:44:3): Plotting mkinfit, mmkin and mixed model objects is reproducible
Snapshot of `testcase` to 'plot/mixed-model-fit-for-nlme-object.svg' has changed
Run `testthat::snapshot_review('plot')` to review changes
Backtrace:
1. vdiffr::expect_doppelganger(...) test_plot.R:44:2
3. testthat::expect_snapshot_file(...)
Warning (test_plot.R:53:5): Plotting mkinfit, mmkin and mixed model objects is reproducible
Adding new file snapshot: '_snaps/plot/mixed-model-fit-for-saem-object-with-mkin-transformations.svg'
────────────────────────────────────────────────────────────────────────────────
✔ | 4 | Residuals extracted from mkinfit models
✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [1.5 s]
✔ | 7 | Fitting the SFORB model [3.9 s]
✔ | 1 | Summaries of old mkinfit objects
✔ | 4 | Summary [0.1 s]
✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.3 s]
✔ | 9 | Hypothesis tests [8.6 s]
✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.2 s]
══ Results ═════════════════════════════════════════════════════════════════════
Duration: 70.3 s
── Skipped tests ──────────────────────────────────────────────────────────────
• Fitting with saemix takes around 10 minutes when using deSolve (1)
[ FAIL 1 | WARN 2 | SKIP 1 | PASS 205 ]
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