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authorJohannes Ranke <jranke@uni-bremen.de>2023-04-15 15:35:06 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2023-04-15 15:35:06 +0200
commitb0b710ee9f9bb9bbe9708676d0c5822465e02203 (patch)
tree537dcf86326ab2e03100a5defb11b264a4b72a17 /log/test.log
parent50ea6d11f8c79218c98ee8ae56d8bdcd42cc703a (diff)
Make predefined symbols safer
We still need to create a parallel processing cluster _after_ creating a compiled model that is moved to a user defined location, at least I did not find another way to make it work. This is not a problem with parallel processing without a cluster, which is not available on Windows.
Diffstat (limited to 'log/test.log')
-rw-r--r--log/test.log29
1 files changed, 15 insertions, 14 deletions
diff --git a/log/test.log b/log/test.log
index c89cf02e..fa808f22 100644
--- a/log/test.log
+++ b/log/test.log
@@ -4,20 +4,21 @@
✔ | 5 | Analytical solutions for coupled models [1.6s]
✔ | 5 | Calculation of Akaike weights
✔ | 3 | Export dataset for reading into CAKE
+✔ | 7 | Use of precompiled symbols in mkinpredict [3.3s]
✔ | 12 | Confidence intervals and p-values [0.4s]
-✔ | 1 12 | Dimethenamid data from 2018 [12.2s]
+✔ | 1 12 | Dimethenamid data from 2018 [13.4s]
────────────────────────────────────────────────────────────────────────────────
-Skip ('test_dmta.R:99'): Different backends get consistent results for SFO-SFO3+, dimethenamid data
+Skip ('test_dmta.R:88'): 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 [2.4s]
+✔ | 14 | Error model fitting [2.5s]
✔ | 5 | Time step normalisation
✔ | 4 | Calculation of FOCUS chi2 error levels [0.3s]
-✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.4s]
-✔ | 4 | Test fitting the decline of metabolites from their maximum [0.2s]
+✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) [0.5s]
+✔ | 4 | Test fitting the decline of metabolites from their maximum [0.3s]
✔ | 1 | Fitting the logistic model [0.1s]
-✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.5s]
-✔ | 1 11 | Nonlinear mixed-effects models [5.8s]
+✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.8s]
+✔ | 1 11 | Nonlinear mixed-effects models [6.1s]
────────────────────────────────────────────────────────────────────────────────
Skip ('test_mixed.R:78'): saemix results are reproducible for biphasic fits
Reason: Fitting with saemix takes around 10 minutes when using deSolve
@@ -27,12 +28,12 @@ Reason: Fitting with saemix takes around 10 minutes when using deSolve
✔ | 3 | mkinfit features [0.5s]
✔ | 8 | mkinmod model generation and printing
✔ | 3 | Model predictions with mkinpredict [0.1s]
-✔ | 12 | Multistart method for saem.mmkin models [22.0s]
-✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.6s]
-✔ | 9 | Nonlinear mixed-effects models with nlme [3.9s]
-✔ | 15 | Plotting [5.1s]
+✔ | 12 | Multistart method for saem.mmkin models [21.7s]
+✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s]
+✔ | 9 | Nonlinear mixed-effects models with nlme [3.8s]
+✔ | 15 | Plotting [4.7s]
✔ | 4 | Residuals extracted from mkinfit models
-✔ | 1 36 | saemix parent models [31.4s]
+✔ | 1 36 | saemix parent models [32.0s]
────────────────────────────────────────────────────────────────────────────────
Skip ('test_saemix_parent.R:143'): We can also use mkin solution methods for saem
Reason: This still takes almost 2.5 minutes although we do not solve ODEs
@@ -47,11 +48,11 @@ Reason: This still takes almost 2.5 minutes although we do not solve ODEs
✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [0.7s]
══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 115.0 s
+Duration: 120.2 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 0 | WARN 0 | SKIP 3 | PASS 270 ]
+[ FAIL 0 | WARN 0 | SKIP 3 | PASS 277 ]

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