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authorJohannes Ranke <jranke@uni-bremen.de>2022-11-04 18:12:03 +0100
committerJohannes Ranke <jranke@uni-bremen.de>2022-11-04 18:12:03 +0100
commit9d013773edc0dc30a98c6218655726d3ad944e3f (patch)
tree4776d72b2fe2e5bddd97249fcff040db668d6936 /log/test.log
parent85cb80385bb26f40d1c1a40bbda457dd29c4cc23 (diff)
Attempt at automatic setting of random effects
Based on parameters in the separate fits that fail the t-test.
Diffstat (limited to 'log/test.log')
-rw-r--r--log/test.log38
1 files changed, 19 insertions, 19 deletions
diff --git a/log/test.log b/log/test.log
index 611b66b6..95d50017 100644
--- a/log/test.log
+++ b/log/test.log
@@ -1,57 +1,57 @@
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 [1.0s]
-✔ | 1 12 | Dimethenamid data from 2018 [31.9s]
+✔ | 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 [5.6s]
✔ | 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]
+✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.9s]
+✔ | 4 | Test fitting the decline of metabolites from their maximum [0.4s]
✔ | 1 | Fitting the logistic model [0.2s]
-✔ | 8 | Batch fitting and diagnosing hierarchical kinetic models [14.5s]
+✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [26.9s]
✔ | 1 12 | Nonlinear mixed-effects models [0.3s]
────────────────────────────────────────────────────────────────────────────────
Skip (test_mixed.R:74:3): saemix results are reproducible for biphasic fits
Reason: Fitting with saemix takes around 10 minutes when using deSolve
────────────────────────────────────────────────────────────────────────────────
✔ | 3 | Test dataset classes mkinds and mkindsg
-✔ | 10 | Special cases of mkinfit calls [0.4s]
-✔ | 3 | mkinfit features [0.7s]
-✔ | 8 | mkinmod model generation and printing [0.2s]
+✔ | 10 | Special cases of mkinfit calls [0.6s]
+✔ | 3 | mkinfit features [0.8s]
+✔ | 8 | mkinmod model generation and printing [0.3s]
✔ | 3 | Model predictions with mkinpredict [0.4s]
-✔ | 7 | Multistart method for saem.mmkin models [36.2s]
-✔ | 16 | Evaluations according to 2015 NAFTA guidance [2.4s]
-✔ | 9 | Nonlinear mixed-effects models with nlme [8.8s]
-✔ | 16 | Plotting [10.0s]
+✔ | 7 | Multistart method for saem.mmkin models [44.7s]
+✔ | 16 | Evaluations according to 2015 NAFTA guidance [2.8s]
+✔ | 9 | Nonlinear mixed-effects models with nlme [9.9s]
+✔ | 16 | Plotting [10.5s]
✔ | 4 | Residuals extracted from mkinfit models
-✔ | 1 37 | saemix parent models [71.4s]
+✔ | 1 37 | saemix parent models [76.1s]
────────────────────────────────────────────────────────────────────────────────
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
────────────────────────────────────────────────────────────────────────────────
✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [1.5s]
✔ | 11 | Processing of residue series
-✔ | 7 | Fitting the SFORB model [3.7s]
+✔ | 7 | Fitting the SFORB model [3.9s]
✔ | 1 | Summaries of old mkinfit objects
✔ | 5 | Summary [0.2s]
-✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.2s]
-✔ | 9 | Hypothesis tests [8.1s]
+✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [2.3s]
+✔ | 9 | Hypothesis tests [8.4s]
✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [2.2s]
══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 206.7 s
+Duration: 237.3 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 0 | SKIP 3 | PASS 263 ]
+[ FAIL 0 | WARN 0 | SKIP 3 | PASS 265 ]

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