Support covariates in endpoints()

2 files changed, 24 insertions, 24 deletions

diff --git a/log/check.log b/log/check.log
index b44bc1b4..f7a0d87e 100644
--- a/log/check.log
+++ b/log/check.log
@@ -7,12 +7,12 @@
 * checking extension type ... Package
 * this is package ‘mkin’ version ‘1.2.3’
 * package encoding: UTF-8
-* checking CRAN incoming feasibility ... NOTE
+* checking CRAN incoming feasibility ... Note_to_CRAN_maintainers
 Maintainer: ‘Johannes Ranke <johannes.ranke@jrwb.de>’
-
-The Date field is over a month old.
 * checking package namespace information ... OK
-* checking package dependencies ... OK
+* checking package dependencies ...Warning: unable to access index for repository https://cran.rstudio.com/src/contrib:
+  cannot open URL 'https://cran.rstudio.com/src/contrib/PACKAGES'
+ OK
 * checking if this is a source package ... OK
 * checking if there is a namespace ... OK
 * checking for executable files ... OK
@@ -23,7 +23,8 @@ The Date field is over a month old.
 * checking whether package ‘mkin’ can be installed ... OK
 * checking installed package size ... OK
 * checking package directory ... OK
-* checking for future file timestamps ... OK
+* checking for future file timestamps ... NOTE
+unable to verify current time
 * checking ‘build’ directory ... OK
 * checking DESCRIPTION meta-information ... OK
 * checking top-level files ... OK
@@ -65,7 +66,7 @@ The Date field is over a month old.
 * checking tests ... SKIPPED
 * checking for unstated dependencies in vignettes ... OK
 * checking package vignettes in ‘inst/doc’ ... OK
-* checking re-building of vignette outputs ... [12s/12s] OK
+* checking re-building of vignette outputs ... [11s/11s] OK
 * checking PDF version of manual ... OK
 * skipping checking HTML version of manual: no command ‘tidy’ found
 * checking for non-standard things in the check directory ... OK
diff --git a/log/test.log b/log/test.log
index d4fb85a2..d3939c0f 100644
--- a/log/test.log
+++ b/log/test.log
@@ -1,14 +1,13 @@
-ℹ Loading mkin
 ℹ Testing mkin
 ✔ | F W S  OK | Context
 ✔ |         5 | AIC calculation
 ✔ |         5 | Analytical solutions for coupled models [2.8s]
 ✔ |         5 | Calculation of Akaike weights
 ✔ |         3 | Export dataset for reading into CAKE
-✔ |        12 | Confidence intervals and p-values [1.0s]
-✔ |     1  12 | Dimethenamid data from 2018 [31.3s]
+✔ |        12 | Confidence intervals and p-values [0.9s]
+✔ |     1  12 | Dimethenamid data from 2018 [30.7s]
 ────────────────────────────────────────────────────────────────────────────────
-Skip ('test_dmta.R:99'): Different backends get consistent results for SFO-SFO3+, dimethenamid data
+Skip ('test_dmta.R:99:3'): 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 [6.9s]
@@ -18,9 +17,9 @@ Reason: Fitting this ODE model with saemix takes about 15 minutes on my system
 ✔ |         4 | Test fitting the decline of metabolites from their maximum [0.3s]
 ✔ |         1 | Fitting the logistic model [0.2s]
 ✔ |        10 | Batch fitting and diagnosing hierarchical kinetic models [42.7s]
-✔ |     1  11 | Nonlinear mixed-effects models [13.1s]
+✔ |     1  11 | Nonlinear mixed-effects models [13.3s]
 ────────────────────────────────────────────────────────────────────────────────
-Skip ('test_mixed.R:78'): saemix results are reproducible for biphasic fits
+Skip ('test_mixed.R:78:3'): saemix results are reproducible for biphasic fits
 Reason: Fitting with saemix takes around 10 minutes when using deSolve
 ────────────────────────────────────────────────────────────────────────────────
 ✔ |         3 | Test dataset classes mkinds and mkindsg
@@ -28,27 +27,27 @@ Reason: Fitting with saemix takes around 10 minutes when using deSolve
 ✔ |         3 | mkinfit features [0.6s]
 ✔ |         8 | mkinmod model generation and printing [0.2s]
 ✔ |         3 | Model predictions with mkinpredict [0.3s]
-✔ |        12 | Multistart method for saem.mmkin models [74.1s]
-✔ |        16 | Evaluations according to 2015 NAFTA guidance [1.9s]
-✔ |         9 | Nonlinear mixed-effects models with nlme [8.5s]
-✔ |        15 | Plotting [11.4s]
+✔ |        12 | Multistart method for saem.mmkin models [73.3s]
+✔ |        16 | Evaluations according to 2015 NAFTA guidance [2.0s]
+✔ |         9 | Nonlinear mixed-effects models with nlme [1107.1s]
+✔ |        15 | Plotting [13.3s]
 ✔ |         4 | Residuals extracted from mkinfit models
-✔ |     1  36 | saemix parent models [73.9s]
+✔ |     1  36 | saemix parent models [74.8s]
 ────────────────────────────────────────────────────────────────────────────────
-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 [1.1s]
+✔ |         2 | Complex test case from Schaefer et al. (2007) Piacenza paper [1.5s]
 ✔ |        11 | Processing of residue series
-✔ |        10 | Fitting the SFORB model [3.1s]
+✔ |        10 | Fitting the SFORB model [3.3s]
 ✔ |         1 | Summaries of old mkinfit objects
 ✔ |         5 | Summary [0.1s]
-✔ |         4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [1.7s]
-✔ |         9 | Hypothesis tests [6.0s]
-✔ |         4 | Calculation of maximum time weighted average concentrations (TWAs) [1.9s]
+✔ |         4 | Results for synthetic data established in expertise for UBA (Ranke 2014) [1.8s]
+✔ |         9 | Hypothesis tests [6.1s]
+✔ |         4 | Calculation of maximum time weighted average concentrations (TWAs) [1.8s]
 
 ══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 285.4 s
+Duration: 1386.7 s
 
 ── Skipped tests  ──────────────────────────────────────────────────────────────
 • Fitting this ODE model with saemix takes about 15 minutes on my system (1)