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-rw-r--r--log/build.log2
-rw-r--r--log/check.log21
-rw-r--r--log/test.log24
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)

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