diff options
Diffstat (limited to 'log')
| -rw-r--r-- | log/test.log | 57 |
1 files changed, 12 insertions, 45 deletions
diff --git a/log/test.log b/log/test.log index 7152c3fe..ab7402b9 100644 --- a/log/test.log +++ b/log/test.log @@ -5,27 +5,18 @@ ✔ | 5 | Calculation of Akaike weights ✔ | 3 | Export dataset for reading into CAKE ✔ | 12 | Confidence intervals and p-values [1.0s] -✔ | 1 12 | Dimethenamid data from 2018 [31.6s] +✔ | 1 12 | Dimethenamid data from 2018 [31.2s] ──────────────────────────────────────────────────────────────────────────────── 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 [4.8s] +✔ | 14 | Error model fitting [4.9s] ✔ | 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 [0.3s] ✔ | 1 | Fitting the logistic model [0.2s] -✖ | 1 7 | Batch fitting and diagnosing hierarchical kinetic models [14.4s] -──────────────────────────────────────────────────────────────────────────────── -Failure (test_mhmkin.R:27:3): Multiple hierarchical kinetic models can be fitted and diagnosed -illparms(hfit_sfo_tc) not equal to character(0). -Attributes: < Modes: list, NULL > -Attributes: < Lengths: 1, 0 > -Attributes: < names for target but not for current > -Attributes: < current is not list-like > -target is illparms.saem.mmkin, current is character -──────────────────────────────────────────────────────────────────────────────── +✔ | 8 | Batch fitting and diagnosing hierarchical kinetic models [14.2s] ✔ | 1 12 | Nonlinear mixed-effects models [0.3s] ──────────────────────────────────────────────────────────────────────────────── Skip (test_mixed.R:74:3): saemix results are reproducible for biphasic fits @@ -36,37 +27,13 @@ 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] -✔ | 7 | Multistart method for saem.mmkin models [35.7s] -✔ | 16 | Evaluations according to 2015 NAFTA guidance [2.3s] -✔ | 9 | Nonlinear mixed-effects models with nlme [8.6s] -✔ | 16 | Plotting [10.1s] +✔ | 7 | Multistart method for saem.mmkin models [35.3s] +✔ | 16 | Evaluations according to 2015 NAFTA guidance [2.4s] +✔ | 9 | Nonlinear mixed-effects models with nlme [8.8s] +✔ | 16 | Plotting [9.9s] ✔ | 4 | Residuals extracted from mkinfit models -✖ | 3 1 34 | saemix parent models [70.9s] +✔ | 1 37 | saemix parent models [70.3s] ──────────────────────────────────────────────────────────────────────────────── -Failure (test_saemix_parent.R:12:3): Parent fits using saemix are correctly implemented -illparms(sfo_saem_1) not equal to "sd(parent_0)". -Attributes: < Modes: list, NULL > -Attributes: < Lengths: 1, 0 > -Attributes: < names for target but not for current > -Attributes: < current is not list-like > -target is illparms.saem.mmkin, current is character - -Failure (test_saemix_parent.R:14:3): Parent fits using saemix are correctly implemented -illparms(sfo_saem_1_reduced) not equal to character(0). -Attributes: < Modes: list, NULL > -Attributes: < Lengths: 1, 0 > -Attributes: < names for target but not for current > -Attributes: < current is not list-like > -target is illparms.saem.mmkin, current is character - -Failure (test_saemix_parent.R:25:3): Parent fits using saemix are correctly implemented -illparms(sfo_saem_1_mkin) not equal to "sd(parent_0)". -Attributes: < Modes: list, NULL > -Attributes: < Lengths: 1, 0 > -Attributes: < names for target but not for current > -Attributes: < current is not list-like > -target is illparms.saem.mmkin, current is character - Skip (test_saemix_parent.R:153:3): We can also use mkin solution methods for saem Reason: This still takes almost 2.5 minutes although we do not solve ODEs ──────────────────────────────────────────────────────────────────────────────── @@ -75,16 +42,16 @@ Reason: This still takes almost 2.5 minutes although we do not solve ODEs ✔ | 7 | Fitting the SFORB model [3.7s] ✔ | 1 | Summaries of old mkinfit objects ✔ | 5 | Summary [0.2s] -✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.1s] +✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.2s] ✔ | 9 | Hypothesis tests [8.0s] -✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.3s] +✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.2s] ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 204.9 s +Duration: 203.2 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 4 | WARN 0 | SKIP 3 | PASS 259 ] +[ FAIL 0 | WARN 0 | SKIP 3 | PASS 263 ] |