Add a lack-of-fit test

- Switch an example dataset in the test setup to a dataset with
replicates, adapt tests
- Skip the test for lrtest with an update specification as it does not
only fail when pkgdown generates static help pages, but also in testthat

1 files changed, 15 insertions, 11 deletions

diff --git a/test.log b/test.log
index 806c72b3..bc6d26ae 100644
--- a/test.log
+++ b/test.log
@@ -2,32 +2,36 @@ Loading mkin
 Testing mkin
 ✔ |  OK F W S | Context
 ✔ |   2       | Export dataset for reading into CAKE
-✔ |  10       | Confidence intervals and p-values [9.7 s]
-✔ |  14       | Error model fitting [36.5 s]
+✔ |  10       | Confidence intervals and p-values [10.1 s]
+✔ |  14       | Error model fitting [40.5 s]
 ✔ |   4       | Calculation of FOCUS chi2 error levels [2.2 s]
-✔ |  13       | Results for FOCUS D established in expertise for UBA (Ranke 2014) [3.3 s]
+✔ |  13       | Results for FOCUS D established in expertise for UBA (Ranke 2014) [3.4 s]
 ✔ |   6       | Test fitting the decline of metabolites from their maximum [0.7 s]
 ✔ |   1       | Fitting the logistic model [0.9 s]
 ✔ |   1       | Test dataset class mkinds used in gmkin
 ✔ |  12       | Special cases of mkinfit calls [2.4 s]
 ✔ |   9       | mkinmod model generation and printing [0.2 s]
 ✔ |   3       | Model predictions with mkinpredict [0.3 s]
-✔ |  16       | Evaluations according to 2015 NAFTA guidance [4.0 s]
+✔ |  16       | Evaluations according to 2015 NAFTA guidance [4.1 s]
 ✔ |   4       | Calculation of maximum time weighted average concentrations (TWAs) [2.3 s]
 ✔ |   3       | Summary
 ✔ |  11       | Plotting [0.6 s]
 ✔ |   4       | AIC calculation
 ✔ |   2       | Residuals extracted from mkinfit models
-✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [5.3 s]
-✔ |   4       | Fitting the SFORB model [1.7 s]
+✔ |   2       | Complex test case from Schaefer et al. (2007) Piacenza paper [5.6 s]
+✔ |   4       | Fitting the SFORB model [1.8 s]
 ✔ |   1       | Summaries of old mkinfit objects
-✔ |   4       | Results for synthetic data established in expertise for UBA (Ranke 2014) [7.1 s]
-✔ |   6       | Hypothesis tests [31.2 s]
+✔ |   4       | Results for synthetic data established in expertise for UBA (Ranke 2014) [7.5 s]
+✔ |   7     1 | Hypothesis tests [34.1 s]
+────────────────────────────────────────────────────────────────────────────────
+test_tests.R:59: skip: We can do a likelihood ratio test using an update specification
+Reason: This errors out if called by testthat while it works in a normal R session
+────────────────────────────────────────────────────────────────────────────────
 
 ══ Results ═════════════════════════════════════════════════════════════════════
-Duration: 108.3 s
+Duration: 116.9 s
 
-OK:       132
+OK:       133
 Failed:   0
 Warnings: 0
-Skipped:  0
+Skipped:  1