Merge remote-tracking branch 'refs/remotes/origin/main'

.Rbuildignore

@@ -35,3 +35,5 @@
 ^vignettes/web_only/.*$
 ^.*\.Rproj$
 ^\.Rproj\.user$
+^codecov\.yml$
+^\.github$

.github/.gitignore

@@ -0,0 +1 @@
+*.html

.gitignore

@@ -1,5 +1,4 @@
 docs/articles/*_cache/
-coverage/
 install.log
 inst/rmarkdown/templates/hierarchical_kinetics/skeleton/skeleton_cache
 inst/rmarkdown/templates/hierarchical_kinetics/skeleton/skeleton_files

.travis.yml

@@ -24,6 +24,3 @@ script:
 
 after_failure:
   - ./run.sh dump_logs
-
-after_success:
-  - travis_wait 40 ./run.sh coverage

DESCRIPTION

@@ -36,4 +36,4 @@ VignetteBuilder: knitr
 BugReports: https://github.com/jranke/mkin/issues/
 URL: https://pkgdown.jrwb.de/mkin/
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.3.1
+RoxygenNote: 7.3.2

GNUmakefile

@@ -125,8 +125,7 @@ pd_all: roxygen
 	git add -A
 
 coverage:
-	mkdir -p docs/dev/coverage
-	"$(RBIN)/Rscript" -e "covr::report(file = 'coverage/coverage.html')"
+	"$(RBIN)/Rscript" -e "covr::report(file = 'docs/coverage/coverage.html')"
 
 r-forge:
 	git archive main > $(HOME)/git/mkin/mkin.tar;\

NEWS.md

@@ -4,11 +4,11 @@
 
 - 'R/create_deg_func.R: Make sure that no reversible reactions are specified in the case of two observed variables, as this is not supported
 
-# mkin 1.2.8
+# mkin 1.2.8 (unreleased)
 
 - 'R/{mhmkin,status}.R': Deal with 'saem' fits that fail when updating an 'mhmkin' object
 
-# mkin 1.2.7
+# mkin 1.2.7 (unreleased)
 
 - 'R/illparms.R': Fix a bug that prevented an ill-defined random effect to be found if there was only one random effect in the model. Also add a test for this.
 

README.md

@@ -1,9 +1,10 @@
 # mkin
 
+<!-- badges: start -->
 [![](https://www.r-pkg.org/badges/version/mkin)](https://cran.r-project.org/package=mkin)
 [![mkin status badge](https://jranke.r-universe.dev/badges/mkin)](https://jranke.r-universe.dev/ui/#package:mkin)
 [![Build Status](https://app.travis-ci.com/jranke/mkin.svg?token=Sq9VuYWyRz2FbBLxu6DK&branch=main)](https://app.travis-ci.com/jranke/mkin)
-[![codecov](https://codecov.io/github/jranke/mkin/branch/main/graphs/badge.svg)](https://app.codecov.io/gh/jranke/mkin)
+<!-- badges: end -->
 
 The [R](https://www.r-project.org) package **mkin** provides calculation routines for the analysis of
 chemical degradation data, including <b>m</b>ulticompartment <b>kin</b>etics as

_pkgdown.yml

@@ -67,6 +67,7 @@ reference:
       - multistart
       - llhist
       - parplot
+      - check_failed
   - title: Datasets and known results
     contents:
       - ds_mixed
@@ -178,5 +179,7 @@ navbar:
         href: articles/twa.html
       - text: Example evaluation of NAFTA SOP Attachment examples
         href: articles/web_only/NAFTA_examples.html
+    - text: Test coverage
+      href: coverage/coverage.html
     - text: News
       href: news/index.html

codecov.yml

@@ -0,0 +1,14 @@
+comment: false
+
+coverage:
+  status:
+    project:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true
+    patch:
+      default:
+        target: auto
+        threshold: 1%
+        informational: true