diff options
Diffstat (limited to 'log')
| -rw-r--r-- | log/build.log | 8 | ||||
| -rw-r--r-- | log/check.log | 4 | ||||
| -rw-r--r-- | log/test.log | 22 |
3 files changed, 20 insertions, 14 deletions
diff --git a/log/build.log b/log/build.log index a02e93ae..de7e4488 100644 --- a/log/build.log +++ b/log/build.log @@ -2,4 +2,10 @@ * preparing ‘mkin’: * checking DESCRIPTION meta-information ... OK * installing the package to build vignettes -* creating vignettes ...
\ No newline at end of file +* creating vignettes ... OK +* checking for LF line-endings in source and make files and shell scripts +* checking for empty or unneeded directories +Removed empty directory ‘mkin/inst/rmarkdown/templates/hierarchical_kinetics_parent’ +Removed empty directory ‘mkin/vignettes/web_only’ +* building ‘mkin_1.2.9.tar.gz’ + diff --git a/log/check.log b/log/check.log index 3eec3f96..0c54a49d 100644 --- a/log/check.log +++ b/log/check.log @@ -62,12 +62,12 @@ 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 ... [11s/12s] OK +* checking examples ... [10s/10s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... SKIPPED * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK -* checking re-building of vignette outputs ... [13s/11s] OK +* checking re-building of vignette outputs ... [13s/10s] OK * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK diff --git a/log/test.log b/log/test.log index 0bd7338d..746f0458 100644 --- a/log/test.log +++ b/log/test.log @@ -1,31 +1,31 @@ ℹ Testing mkin ✔ | F W S OK | Context ✔ | 5 | AIC calculation -✔ | 5 | Analytical solutions for coupled models [1.5s] +✔ | 5 | Analytical solutions for coupled models [1.6s] ✔ | 5 | Calculation of Akaike weights ✔ | 3 | Export dataset for reading into CAKE -✔ | 6 | Use of precompiled symbols in mkinpredict [3.1s] +✔ | 6 | Use of precompiled symbols in mkinpredict [3.3s] ✔ | 12 | Confidence intervals and p-values ✔ | 1 12 | Dimethenamid data from 2018 [13.3s] -✔ | 14 | Error model fitting [2.6s] +✔ | 14 | Error model fitting [2.7s] ✔ | 5 | Time step normalisation ✔ | 4 | Calculation of FOCUS chi2 error levels ✔ | 14 | Results for FOCUS D established in expertise for UBA (Ranke 2014) ✔ | 4 | Test fitting the decline of metabolites from their maximum ✔ | 1 | Fitting the logistic model -✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.1s] -✔ | 2 16 | Nonlinear mixed-effects models [148.9s] +✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.7s] +✔ | 2 16 | Nonlinear mixed-effects models [148.2s] ✔ | 3 | Test dataset classes mkinds and mkindsg ✔ | 10 | Special cases of mkinfit calls ✔ | 3 | mkinfit features ✔ | 8 | mkinmod model generation and printing ✔ | 3 | Model predictions with mkinpredict -✔ | 12 | Multistart method for saem.mmkin models [23.1s] -✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s] -✔ | 9 | Nonlinear mixed-effects models with nlme [3.8s] +✔ | 12 | Multistart method for saem.mmkin models [23.7s] +✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.6s] +✔ | 9 | Nonlinear mixed-effects models with nlme [4.2s] ✔ | 15 | Plotting [4.6s] ✔ | 4 | Residuals extracted from mkinfit models -✔ | 1 38 | saemix parent models [35.5s] +✔ | 1 38 | saemix parent models [35.9s] ✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper ✔ | 11 | Processing of residue series ✔ | 10 | Fitting the SFORB model [1.7s] @@ -37,14 +37,14 @@ ✔ | 2 | water-sediment ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 267.0 s +Duration: 268.8 s ── Skipped tests (4) ─────────────────────────────────────────────────────────── • Fitting this ODE model with saemix takes about 5 minutes on my new system (1): 'test_dmta.R:88:3' • Fitting with saemix takes around 10 minutes when using deSolve (1): 'test_mixed.R:80:3' -• This is seldom used, so save some time (1): 'test_mixed.R:133:3' +• This is seldom used, so save some time (1): 'test_mixed.R:135:3' • This still takes almost 2.5 minutes although we do not solve ODEs (1): 'test_saemix_parent.R:143:3' |