diff options
Diffstat (limited to 'log')
| -rw-r--r-- | log/build.log | 1 | ||||
| -rw-r--r-- | log/check.log | 25 | ||||
| -rw-r--r-- | log/test.log | 28 |
3 files changed, 24 insertions, 30 deletions
diff --git a/log/build.log b/log/build.log index c39714cb..b2206986 100644 --- a/log/build.log +++ b/log/build.log @@ -5,7 +5,6 @@ * 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_1.2.10.tar.gz’ diff --git a/log/check.log b/log/check.log index 0c54a49d..7f212453 100644 --- a/log/check.log +++ b/log/check.log @@ -1,18 +1,17 @@ * using log directory ‘/home/jranke/git/mkin/mkin.Rcheck’ -* using R version 4.4.2 (2024-10-31) +* using R version 4.5.1 (2025-06-13) * using platform: x86_64-pc-linux-gnu * R was compiled by - gcc (Debian 12.2.0-14) 12.2.0 - GNU Fortran (Debian 12.2.0-14) 12.2.0 -* running under: Debian GNU/Linux 12 (bookworm) + gcc (Debian 12.2.0-14+deb12u1) 12.2.0 + GNU Fortran (Debian 12.2.0-14+deb12u1) 12.2.0 +* running under: Debian GNU/Linux 13 (trixie) * using session charset: UTF-8 * using options ‘--no-tests --as-cran’ * checking for file ‘mkin/DESCRIPTION’ ... OK * checking extension type ... Package -* this is package ‘mkin’ version ‘1.2.9’ +* this is package ‘mkin’ version ‘1.2.10’ * package encoding: UTF-8 -* checking CRAN incoming feasibility ... Note_to_CRAN_maintainers -Maintainer: ‘Johannes Ranke <johannes.ranke@jrwb.de>’ +* checking CRAN incoming feasibility ... OK * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK @@ -24,8 +23,7 @@ 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 @@ -62,20 +60,17 @@ 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/10s] OK +* checking examples ... [12s/12s] 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/10s] OK +* checking re-building of vignette outputs ... [15s/11s] OK * checking PDF version of manual ... OK * checking HTML version of manual ... OK * checking for non-standard things in the check directory ... OK * 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 f475b7d5..e1726492 100644 --- a/log/test.log +++ b/log/test.log @@ -1,52 +1,52 @@ 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 [3.2s] +✔ | 6 | Use of precompiled symbols in mkinpredict [3.7s] ✔ | 12 | Confidence intervals and p-values ✔ | 1 | Solutions with deSolve -✔ | 1 12 | Dimethenamid data from 2018 [13.1s] -✔ | 14 | Error model fitting [2.5s] +✔ | 1 12 | Dimethenamid data from 2018 [14.0s] +✔ | 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 [19.6s] -✔ | 2 16 | Nonlinear mixed-effects models [145.0s] +✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [20.5s] +✔ | 2 20 | Nonlinear mixed-effects models [142.6s] ✔ | 3 | Test dataset classes mkinds and mkindsg ✔ | 10 | Special cases of mkinfit calls ✔ | 3 | mkinfit features ✔ | 8 | mkinmod model generation and printing ✔ | 4 | Model predictions with mkinpredict -✔ | 12 | Multistart method for saem.mmkin models [22.9s] -✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.8s] +✔ | 12 | Multistart method for saem.mmkin models [23.8s] +✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s] ✔ | 9 | Nonlinear mixed-effects models with nlme [4.0s] -✔ | 15 | Plotting [4.7s] +✔ | 15 | Plotting [4.9s] ✔ | 4 | Residuals extracted from mkinfit models -✔ | 1 38 | saemix parent models [35.9s] +✔ | 1 38 | saemix parent models [36.1s] ✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper ✔ | 11 | Processing of residue series ✔ | 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) -✔ | 9 | Hypothesis tests [2.9s] +✔ | 9 | Hypothesis tests [2.8s] ✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) ✔ | 2 | water-sediment ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 264.5 s +Duration: 265.7 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:135:3' +• This is seldom used, so save some time (1): 'test_mixed.R:155:3' • This still takes almost 2.5 minutes although we do not solve ODEs (1): 'test_saemix_parent.R:143:3' -[ FAIL 0 | WARN 0 | SKIP 4 | PASS 287 ] +[ FAIL 0 | WARN 0 | SKIP 4 | PASS 291 ] |