unit tests

.github/workflows/check-old.yaml

@@ -52,7 +52,7 @@ jobs:
           - {os: ubuntu-22.04,   r: '3.2', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest"}
           - {os: ubuntu-22.04,   r: '3.1', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest"}
           - {os: ubuntu-22.04,   r: '3.0', allowfail: false, rspm: "https://packagemanager.rstudio.com/cran/__linux__/jammy/latest"}
-          
+
     env:
       R_REMOTES_NO_ERRORS_FROM_WARNINGS: true
       RSPM: ${{ matrix.config.rspm }}
@@ -105,7 +105,7 @@ jobs:
           rm DESCRIPTION
           mv DESCRIPTION2 DESCRIPTION
         shell: bash
-        
+
       - name: Run R CMD check
         if: always()
         env:
@@ -129,7 +129,7 @@ jobs:
           R CMD check --as-cran --no-manual --run-donttest --run-dontrun AMR_*.tar.gz
         shell: bash
 
-      - name: Show unit tests output
+      - name: Show tinytest output
         if: always()
         run: |
           cd ../AMR.Rcheck

.github/workflows/check-recent.yaml

@@ -56,12 +56,12 @@ jobs:
           - {os: macOS-latest,   r: 'devel', allowfail: false}
           - {os: windows-latest, r: 'devel', allowfail: false}
           - {os: ubuntu-latest,  r: 'devel', allowfail: false}
-          
+
           # current 'release' version:
           - {os: macOS-latest,   r: '4.2', allowfail: false}
           - {os: windows-latest, r: '4.2', allowfail: false}
           - {os: ubuntu-latest,  r: '4.2', allowfail: false}
-          
+
           # older versions (see also check-old.yaml for even older versions):
           - {os: ubuntu-latest, r: '4.1', allowfail: false}
           - {os: ubuntu-latest, r: '4.0', allowfail: false}
@@ -96,3 +96,10 @@ jobs:
           # during 'R CMD check', R_LIBS_USER will be overwritten, so:
           R_LIBS_USER_GH_ACTIONS: ${{ env.R_LIBS_USER }}
           R_RUN_TINYTEST: true
+
+      - name: Show tinytest output
+        if: always()
+        run: |
+          cd ../AMR.Rcheck
+          find . -name 'tinytest.Rout*' -exec cat '{}' \; ||>
+        shell: bash

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: AMR
-Version: 1.8.2.9080
+Version: 1.8.2.9081
 Date: 2023-01-05
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)

NEWS.md

@@ -1,4 +1,4 @@
-# AMR 1.8.2.9080
+# AMR 1.8.2.9081
 
 *(this beta version will eventually become v2.0! We're happy to reach a new major milestone soon!)*
 

man/g.test.Rd

@@ -21,7 +21,7 @@ g.test(x, y = NULL, p = rep(1/length(x), length(x)), rescale.p = FALSE)
 \item{y}{a numeric vector; ignored if \code{x} is a matrix.  If
     \code{x} is a factor, \code{y} should be a factor of the same length.}
 
-\item{p}{a vector of probabilities of the same length of \code{x}.
+\item{p}{a vector of probabilities of the same length as \code{x}.
     An error is given if any entry of \code{p} is negative.}
 
 \item{rescale.p}{a logical scalar; if TRUE then \code{p} is rescaled