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Diffstat (limited to 'log/test.log')
| -rw-r--r-- | log/test.log | 60 |
1 files changed, 46 insertions, 14 deletions
diff --git a/log/test.log b/log/test.log index efa30d17..73fbfcf2 100644 --- a/log/test.log +++ b/log/test.log @@ -1,24 +1,55 @@ ℹ Testing mkin ✔ | F W S OK | Context ✔ | 5 | AIC calculation -✔ | 5 | Analytical solutions for coupled models [3.4s] +✔ | 5 | Analytical solutions for coupled models [3.3s] ✔ | 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 [31.9s] +✔ | 1 12 | Dimethenamid data from 2018 [32.2s] ──────────────────────────────────────────────────────────────────────────────── 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 [4.9s] +✔ | 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 [14.5s] -✔ | 1 12 | Nonlinear mixed-effects models [0.3s] +✖ | 1 6 | Batch fitting and diagnosing hierarchical kinetic models [14.5s] ──────────────────────────────────────────────────────────────────────────────── +Failure (test_mhmkin.R:41:3): Multiple hierarchical kinetic models can be fitted and diagnosed +Results have changed from known value recorded in 'summary_hfit_sfo_tc.txt'. + + old | new +[45] "" | "" [45] +[46] "Variance model:" | "Variance model:" [46] +[47] " est. lower upper" | " est. lower upper" [47] +[48] "a.1 0.91 0.64 1.17" - "a.1 0.90 0.64 1.17" [48] +[49] "b.1 0.05 0.04 0.06" | "b.1 0.05 0.04 0.06" [49] +[50] "" | "" [50] +[51] "Backtransformed parameters:" | "Backtransformed parameters:" [51] +──────────────────────────────────────────────────────────────────────────────── +✖ | 1 1 11 | Nonlinear mixed-effects models [0.3s] +──────────────────────────────────────────────────────────────────────────────── +Failure (test_mixed.R:8:3): Print methods work +Results have changed from known value recorded in 'print_sfo_saem_1.txt'. + +old[7:19] vs new[7:19] + "" + "Likelihood computed by importance sampling" + " AIC BIC logLik" +- " 1311 1315 -649" ++ " 1312 1316 -650" + "" + "Fitted parameters:" + " estimate lower upper" +- "parent_0 1e+02 99.13 1e+02" ++ "parent_0 1e+02 99.28 1e+02" + "k_parent 4e-02 0.03 4e-02" + "a.1 9e-01 0.75 1e+00" +and 3 more ... + Skip (test_mixed.R:68:3): saemix results are reproducible for biphasic fits Reason: Fitting with saemix takes around 10 minutes when using deSolve ──────────────────────────────────────────────────────────────────────────────── @@ -26,25 +57,26 @@ Reason: Fitting with saemix takes around 10 minutes when using deSolve ✔ | 10 | Special cases of mkinfit calls [0.4s] ✔ | 3 | mkinfit features [0.7s] ✔ | 8 | mkinmod model generation and printing [0.2s] -✔ | 3 | Model predictions with mkinpredict [0.3s] -✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.8s] -✔ | 9 | Nonlinear mixed-effects models with nlme [8.3s] -✔ | 16 | Plotting [10.0s] +✔ | 3 | Model predictions with mkinpredict [0.4s] +✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.9s] +✔ | 9 | Nonlinear mixed-effects models with nlme [8.6s] +✔ | 16 | Plotting [10.2s] ✔ | 4 | Residuals extracted from mkinfit models -✔ | 28 | saemix parent models [180.2s] +✔ | 28 | saemix parent models [181.5s] ✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [1.4s] -✔ | 7 | Fitting the SFORB model [3.6s] +✔ | 11 | Processing of residue series +✔ | 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] -✔ | 9 | Hypothesis tests [7.8s] +✔ | 9 | Hypothesis tests [8.3s] ✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.2s] ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 277.4 s +Duration: 280.7 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) -[ FAIL 0 | WARN 0 | SKIP 2 | PASS 235 ] +[ FAIL 2 | WARN 0 | SKIP 2 | PASS 244 ] |