diff options
Diffstat (limited to 'log')
| -rw-r--r-- | log/build.log | 3 | ||||
| -rw-r--r-- | log/check.log | 30 | ||||
| -rw-r--r-- | log/test.log | 26 |
3 files changed, 20 insertions, 39 deletions
diff --git a/log/build.log b/log/build.log index dbe0cd5b..db5fac76 100644 --- a/log/build.log +++ b/log/build.log @@ -5,5 +5,6 @@ * creating vignettes ... OK * checking for LF line-endings in source and make files and shell scripts * checking for empty or unneeded directories -* building ‘mkin_1.2.2.tar.gz’ +Removed empty directory ‘mkin/vignettes/web_only’ +* building ‘mkin_1.3.0.tar.gz’ diff --git a/log/check.log b/log/check.log index a81475d9..967b51d0 100644 --- a/log/check.log +++ b/log/check.log @@ -5,30 +5,13 @@ * using options ‘--no-tests --as-cran’ * checking for file ‘mkin/DESCRIPTION’ ... OK * checking extension type ... Package -* this is package ‘mkin’ version ‘1.2.2’ +* this is package ‘mkin’ version ‘1.3.0’ * package encoding: UTF-8 -* checking CRAN incoming feasibility ... NOTE +* checking CRAN incoming feasibility ... Note_to_CRAN_maintainers Maintainer: ‘Johannes Ranke <johannes.ranke@jrwb.de>’ - -Size of tarball: 6636884 bytes * checking package namespace information ... OK * checking package dependencies ... OK -* checking if this is a source package ... NOTE -Found the following apparent object files/libraries: - vignettes/2022_wp_1/cyan_dlls/dfop_path_1.so - vignettes/2022_wp_1/cyan_dlls/dfop_path_2.so - vignettes/2022_wp_1/cyan_dlls/fomc_path_1.so - vignettes/2022_wp_1/cyan_dlls/fomc_path_2.so - vignettes/2022_wp_1/cyan_dlls/hs_path_1.so - vignettes/2022_wp_1/cyan_dlls/sfo_path_1.so - vignettes/2022_wp_1/cyan_dlls/sforb_path_1.so - vignettes/2022_wp_1/cyan_dlls/sforb_path_2.so - vignettes/2022_wp_1/dmta_dlls/m_dfop_path.so - vignettes/2022_wp_1/dmta_dlls/m_fomc_path.so - vignettes/2022_wp_1/dmta_dlls/m_hs_path.so - vignettes/2022_wp_1/dmta_dlls/m_sfo_path.so - vignettes/2022_wp_1/dmta_dlls/m_sforb_path.so -Object files/libraries should not be included in a source package. +* checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for executable files ... OK * checking for hidden files and directories ... OK @@ -72,6 +55,7 @@ Object files/libraries should not be included in a source package. * checking data for non-ASCII characters ... OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK +* 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 @@ -86,9 +70,5 @@ Object files/libraries should not be included in a source package. * checking for detritus in the temp directory ... OK * DONE -Status: 2 NOTEs -See - ‘/home/jranke/git/mkin/mkin.Rcheck/00check.log’ -for details. - +Status: OK diff --git a/log/test.log b/log/test.log index dc1b6c74..42ed75e4 100644 --- a/log/test.log +++ b/log/test.log @@ -1,13 +1,13 @@ ℹ Testing mkin ✔ | F W S OK | Context ✔ | 5 | AIC calculation -✔ | 5 | Analytical solutions for coupled models [1.6s] +✔ | 5 | Analytical solutions for coupled models [1.4s] ✔ | 5 | Calculation of Akaike weights ✔ | 3 | Export dataset for reading into CAKE ✔ | 12 | Confidence intervals and p-values [0.4s] -✔ | 1 12 | Dimethenamid data from 2018 [12.4s] +✔ | 1 12 | Dimethenamid data from 2018 [11.6s] ──────────────────────────────────────────────────────────────────────────────── -Skip ('test_dmta.R:98'): Different backends get consistent results for SFO-SFO3+, dimethenamid data +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 ──────────────────────────────────────────────────────────────────────────────── ✔ | 14 | Error model fitting [2.3s] @@ -16,7 +16,7 @@ Reason: Fitting this ODE model with saemix takes about 15 minutes on my system ✔ | 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] +✔ | 10 | Batch fitting and diagnosing hierarchical kinetic models [18.5s] ✔ | 1 11 | Nonlinear mixed-effects models [5.9s] ──────────────────────────────────────────────────────────────────────────────── Skip ('test_mixed.R:78'): saemix results are reproducible for biphasic fits @@ -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 [21.6s] +✔ | 12 | Multistart method for saem.mmkin models [21.1s] ✔ | 16 | Evaluations according to 2015 NAFTA guidance [1.5s] -✔ | 9 | Nonlinear mixed-effects models with nlme [3.7s] -✔ | 15 | Plotting [4.6s] +✔ | 9 | Nonlinear mixed-effects models with nlme [3.4s] +✔ | 15 | Plotting [4.4s] ✔ | 4 | Residuals extracted from mkinfit models -✔ | 1 36 | saemix parent models [30.9s] +✔ | 1 36 | saemix parent models [29.4s] ──────────────────────────────────────────────────────────────────────────────── 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 [0.6s] +✔ | 2 | Complex test case from Schaefer et al. (2007) Piacenza paper [0.5s] ✔ | 11 | Processing of residue series -✔ | 10 | Fitting the SFORB model [1.7s] +✔ | 10 | Fitting the SFORB model [1.6s] ✔ | 1 | Summaries of old mkinfit objects ✔ | 5 | Summary -✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [0.9s] -✔ | 9 | Hypothesis tests [3.3s] +✔ | 4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [0.8s] +✔ | 9 | Hypothesis tests [2.9s] ✔ | 4 | Calculation of maximum time weighted average concentrations (TWAs) [0.7s] ══ Results ═════════════════════════════════════════════════════════════════════ -Duration: 113.6 s +Duration: 108.9 s ── Skipped tests ────────────────────────────────────────────────────────────── • Fitting this ODE model with saemix takes about 15 minutes on my system (1) |