diff options
| -rw-r--r-- | log/test.log | 40 |
1 files changed, 19 insertions, 21 deletions
diff --git a/log/test.log b/log/test.log index 1e5dc943..3de5a60a 100644 --- a/log/test.log +++ b/log/test.log @@ -1,22 +1,22 @@ ℹ Testing mkin ✔ | F W S OK | Context ✔ | 5 | AIC calculation -✔ | 5 | Analytical solutions for coupled models [3.3s] +✔ | 5 | Analytical solutions for coupled models [3.4s] ✔ | 5 | Calculation of Akaike weights ✔ | 3 | Export dataset for reading into CAKE -✔ | 12 | Confidence intervals and p-values [1.1s] -✔ | 1 12 | Dimethenamid data from 2018 [31.7s] +✔ | 12 | Confidence intervals and p-values [1.0s] +✔ | 1 12 | Dimethenamid data from 2018 [33.0s] ──────────────────────────────────────────────────────────────────────────────── Skip (test_dmta.R:98:3): Different backends get consistent results for SFO-SFO3+, dimethenamid data Reason: Fitting this ODE model with saemix takes about 15 minutes on my system ──────────────────────────────────────────────────────────────────────────────── -✔ | 14 | Error model fitting [4.9s] +✔ | 14 | Error model fitting [5.1s] ✔ | 5 | Time step normalisation ✔ | 4 | Calculation of FOCUS chi2 error levels [0.6s] ✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.8s] ✔ | 4 | Test fitting the decline of metabolites from their maximum [0.4s] ✔ | 1 | Fitting the logistic model [0.2s] -✔ | 7 | Batch fitting and diagnosing hierarchical kinetic models [14.0s] +✔ | 7 | Batch fitting and diagnosing hierarchical kinetic models [14.9s] ✔ | 1 12 | Nonlinear mixed-effects models [0.3s] ──────────────────────────────────────────────────────────────────────────────── Skip (test_mixed.R:74:3): saemix results are reproducible for biphasic fits @@ -27,33 +27,31 @@ Reason: Fitting with saemix takes around 10 minutes when using deSolve ✔ | 3 | mkinfit features [0.7s] ✔ | 8 | mkinmod model generation and printing [0.2s] ✔ | 3 | Model predictions with mkinpredict [0.3s] -✔ | 2 3 | Multistart method for saem.mmkin models [17.7s] +✔ | 3 | Multistart method for saem.mmkin models [19.1s] +✔ | 16 | Evaluations according to 2015 NAFTA guidance [2.0s] +✔ | 9 | Nonlinear mixed-effects models with nlme [8.5s] +✔ | 16 | Plotting [10.6s] +✔ | 4 | Residuals extracted from mkinfit models +✔ | 1 35 | saemix parent models [71.6s] ──────────────────────────────────────────────────────────────────────────────── -Warning (test_multistart.R:15:3): multistart works for saem.mmkin models -Adding new file snapshot: 'tests/testhat/_snaps/llhist-for-biphasic-saemix-fit.svg' - -Warning (test_multistart.R:16:3): multistart works for saem.mmkin models -Adding new file snapshot: 'tests/testhat/_snaps/parhist-for-biphasic-saemix-fit.svg' +Skip (test_saemix_parent.R:143:3): We can also use mkin solution methods for saem +Reason: This still takes almost 2.5 minutes although we do not solve ODEs ──────────────────────────────────────────────────────────────────────────────── -✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.8s] -✔ | 9 | Nonlinear mixed-effects models with nlme [8.4s] -✔ | 16 | Plotting [10.1s] -✔ | 4 | Residuals extracted from mkinfit models -✔ | 36 | saemix parent models [309.8s] ✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [1.4s] ✔ | 11 | Processing of residue series -✔ | 7 | Fitting the SFORB model [3.6s] +✔ | 7 | Fitting the SFORB model [3.8s] ✔ | 1 | Summaries of old mkinfit objects ✔ | 5 | Summary [0.2s] -✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.1s] -✔ | 9 | Hypothesis tests [7.8s] +✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.2s] +✔ | 9 | Hypothesis tests [8.2s] ✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.2s] ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 424.4 s +Duration: 191.7 s ── Skipped tests ────────────────────────────────────────────────────────────── • Fitting this ODE model with saemix takes about 15 minutes on my system (1) • Fitting with saemix takes around 10 minutes when using deSolve (1) +• This still takes almost 2.5 minutes although we do not solve ODEs (1) -[ FAIL 0 | WARN 2 | SKIP 2 | PASS 257 ] +[ FAIL 0 | WARN 0 | SKIP 3 | PASS 256 ] |