diff options
Diffstat (limited to 'log')
| -rw-r--r-- | log/build.log | 2 | ||||
| -rw-r--r-- | log/check.log | 21 | ||||
| -rw-r--r-- | log/test.log | 24 |
3 files changed, 23 insertions, 24 deletions
diff --git a/log/build.log b/log/build.log index e077c30c..30c5e432 100644 --- a/log/build.log +++ b/log/build.log @@ -6,5 +6,5 @@ * checking for LF line-endings in source and make files and shell scripts * checking for empty or unneeded directories Removed empty directory ‘mkin/vignettes/web_only’ -* building ‘mkin_1.2.3.tar.gz’ +* building ‘mkin_1.2.4.tar.gz’ diff --git a/log/check.log b/log/check.log index b58119ef..970fbc7a 100644 --- a/log/check.log +++ b/log/check.log @@ -1,13 +1,17 @@ * using log directory ‘/home/jranke/git/mkin/mkin.Rcheck’ -* using R version 4.2.3 (2023-03-15) +* using R version 4.3.0 Patched (2023-05-18 r84448) * using platform: x86_64-pc-linux-gnu (64-bit) +* 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) * 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 ‘1.2.3’ +* this is package ‘mkin’ version ‘1.2.4’ * package encoding: UTF-8 -* checking CRAN incoming feasibility ... Note_to_CRAN_maintainers +* checking CRAN incoming feasibility ... [2s/10s] Note_to_CRAN_maintainers Maintainer: ‘Johannes Ranke <johannes.ranke@jrwb.de>’ * checking package namespace information ... OK * checking package dependencies ... OK @@ -21,8 +25,7 @@ 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 +62,7 @@ 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/10s] OK +* checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... SKIPPED * checking for unstated dependencies in vignettes ... OK @@ -71,9 +74,5 @@ 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 8166668a..b1b4ae31 100644 --- a/log/test.log +++ b/log/test.log @@ -8,22 +8,22 @@ ✔ | 12 | Confidence intervals and p-values [0.4s] ✔ | 1 12 | Dimethenamid data from 2018 [12.5s] ──────────────────────────────────────────────────────────────────────────────── -Skip ('test_dmta.R:88'): Different backends get consistent results for SFO-SFO3+, dimethenamid data +Skip ('test_dmta.R:88:3'): 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 [2.4s] +✔ | 14 | Error model fitting [2.3s] ✔ | 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] ✔ | 1 | Fitting the logistic model [0.1s] -✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [19.1s] -✔ | 2 16 | Nonlinear mixed-effects models [148.6s] +✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [18.9s] +✔ | 2 16 | Nonlinear mixed-effects models [148.4s] ──────────────────────────────────────────────────────────────────────────────── -Skip ('test_mixed.R:78'): saemix results are reproducible for biphasic fits +Skip ('test_mixed.R:80:3'): saemix results are reproducible for biphasic fits Reason: Fitting with saemix takes around 10 minutes when using deSolve -Skip ('test_mixed.R:131'): SFO-SFO saemix specific analytical solution work +Skip ('test_mixed.R:133:3'): SFO-SFO saemix specific analytical solution work Reason: This is seldom used, so save some time ──────────────────────────────────────────────────────────────────────────────── ✔ | 3 | Test dataset classes mkinds and mkindsg @@ -31,14 +31,14 @@ Reason: This is seldom used, so save some time ✔ | 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 [23.1s] +✔ | 12 | Multistart method for saem.mmkin models [23.3s] ✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s] -✔ | 9 | Nonlinear mixed-effects models with nlme [3.9s] -✔ | 15 | Plotting [4.4s] +✔ | 9 | Nonlinear mixed-effects models with nlme [3.5s] +✔ | 15 | Plotting [4.5s] ✔ | 4 | Residuals extracted from mkinfit models -✔ | 1 36 | saemix parent models [31.1s] +✔ | 1 36 | saemix parent models [30.7s] ──────────────────────────────────────────────────────────────────────────────── -Skip ('test_saemix_parent.R:143'): We can also use mkin solution methods for saem +Skip ('test_saemix_parent.R:143:3'): 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 [0.5s] @@ -51,7 +51,7 @@ 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: 260.5 s +Duration: 259.6 s ── Skipped tests ────────────────────────────────────────────────────────────── • Fitting this ODE model with saemix takes about 15 minutes on my system (1) |