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authorJohannes Ranke <jranke@uni-bremen.de>2023-04-06 08:06:34 +0200
committerJohannes Ranke <jranke@uni-bremen.de>2023-04-06 08:06:34 +0200
commit43d15fe2c2ecc570ad5edfba0e75ae9b22ac2080 (patch)
tree52ce43017a2f66eab29b99523766b3180800d903 /log
parentb2f437963acbe66b2ac15fc1bad0bf0c1e3d8550 (diff)
Fix a bug with moved DLLs and current deSolve
In mkinmod, dll_info was not included in the returned model object in the case that the DLL was moved to a user defined directory. This is now fixed.
Diffstat (limited to 'log')
-rw-r--r--log/check.log11
-rw-r--r--log/test.log24
2 files changed, 15 insertions, 20 deletions
diff --git a/log/check.log b/log/check.log
index cb313bc0..b7f6068c 100644
--- a/log/check.log
+++ b/log/check.log
@@ -21,8 +21,7 @@ Maintainer: ‘Johannes Ranke <johannes.ranke@jrwb.de>’
* checking whether package ‘mkin’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
-* checking for future file timestamps ... NOTE
-unable to verify current time
+* checking for future file timestamps ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
@@ -59,7 +58,7 @@ unable to verify current time
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
-* checking examples ... [10s/11s] OK
+* checking examples ... [10s/10s] OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ... SKIPPED
* checking for unstated dependencies in vignettes ... OK
@@ -71,9 +70,5 @@ unable to verify current time
* checking for detritus in the temp directory ... OK
* DONE
-Status: 1 NOTE
-See
- ‘/home/jranke/git/mkin/mkin.Rcheck/00check.log’
-for details.
-
+Status: OK
diff --git a/log/test.log b/log/test.log
index 54aa3c73..c89cf02e 100644
--- a/log/test.log
+++ b/log/test.log
@@ -4,8 +4,8 @@
✔ | 5 | Analytical solutions for coupled models [1.6s]
✔ | 5 | Calculation of Akaike weights
✔ | 3 | Export dataset for reading into CAKE
-✔ | 12 | Confidence intervals and p-values [0.3s]
-✔ | 1 12 | Dimethenamid data from 2018 [12.5s]
+✔ | 12 | Confidence intervals and p-values [0.4s]
+✔ | 1 12 | Dimethenamid data from 2018 [12.2s]
────────────────────────────────────────────────────────────────────────────────
Skip ('test_dmta.R:99'): Different backends get consistent results for SFO-SFO3+, dimethenamid data
Reason: Fitting this ODE model with saemix takes about 15 minutes on my system
@@ -13,11 +13,11 @@ Reason: Fitting this ODE model with saemix takes about 15 minutes on my system
✔ | 14 | Error model fitting [2.4s]
✔ | 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) [0.5s]
+✔ | 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]
✔ | 1 | Fitting the logistic model [0.1s]
✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.5s]
-✔ | 1 11 | Nonlinear mixed-effects models [5.7s]
+✔ | 1 11 | Nonlinear mixed-effects models [5.8s]
────────────────────────────────────────────────────────────────────────────────
Skip ('test_mixed.R:78'): saemix results are reproducible for biphasic fits
Reason: Fitting with saemix takes around 10 minutes when using deSolve
@@ -27,27 +27,27 @@ 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 [21.2s]
-✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s]
-✔ | 9 | Nonlinear mixed-effects models with nlme [3.7s]
-✔ | 15 | Plotting [4.4s]
+✔ | 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]
✔ | 4 | Residuals extracted from mkinfit models
-✔ | 1 36 | saemix parent models [30.8s]
+✔ | 1 36 | saemix parent models [31.4s]
────────────────────────────────────────────────────────────────────────────────
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
────────────────────────────────────────────────────────────────────────────────
✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [0.5s]
✔ | 11 | Processing of residue series
-✔ | 10 | Fitting the SFORB model [1.6s]
+✔ | 10 | Fitting the SFORB model [1.7s]
✔ | 1 | Summaries of old mkinfit objects
✔ | 5 | Summary
✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [0.8s]
-✔ | 9 | Hypothesis tests [2.9s]
+✔ | 9 | Hypothesis tests [3.0s]
✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [0.7s]
══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 112.6 s
+Duration: 115.0 s
── Skipped tests ──────────────────────────────────────────────────────────────
• Fitting this ODE model with saemix takes about 15 minutes on my system (1)

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