.github/workflows/check-current-testthat.yaml

@@ -98,4 +98,10 @@ jobs:
       - name: Show files
         if: matrix.config.os == 'ubuntu-latest'
         run: |
-          ls -lh /home/runner/work/AMR/AMR/check/**/tests*/testthat/_snaps
+          ls /home/runner/work/AMR/AMR/
+          ls /home/runner/work/AMR/AMR/check
+          ls /home/runner/work/AMR/AMR/check/**
+          ls /home/runner/work/AMR/AMR/check/**/tests*
+          ls /home/runner/work/AMR/AMR/check/**/tests*/testthat/
+          ls /home/runner/work/AMR/AMR/check/**/tests*/testthat/_snaps
+

.github/workflows/publish-to-pypi.yml

@@ -85,13 +85,12 @@ jobs:
           
           # Delete all existing files from the working tree (safely)
           git rm -rf . || true
-          mv .git PythonPackage/AMR/
-          ls -lh PythonPackage/AMR/
           find . -mindepth 1 ! -name 'PythonPackage' -exec rm -rf {} +
       
+          # Copy over only PythonPackage/AMR contents from main
+          git checkout main -- PythonPackage/AMR
           mv PythonPackage/AMR/* .
           rm -rf PythonPackage
-          ls -lh
           
           # Commit and push if changes exist
           git add .

DESCRIPTION

@@ -1,5 +1,5 @@
 Package: AMR
-Version: 2.1.1.9210
+Version: 2.1.1.9208
 Date: 2025-03-15
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)

NEWS.md

@@ -1,4 +1,4 @@
-# AMR 2.1.1.9210
+# AMR 2.1.1.9208
 
 *(this beta version will eventually become v3.0. We're happy to reach a new major milestone soon, which will be all about the new One Health support! Install this beta using [the instructions here](https://msberends.github.io/AMR/#latest-development-version).)*
 

data-raw/gpt_training_text_v2.1.1.9208.txt

@@ -1,6 +1,6 @@
 This knowledge base contains all context you must know about the AMR package for R. You are a GPT trained to be an assistant for the AMR package in R. You are an incredible R specialist, especially trained in this package and in the tidyverse.
 
-First and foremost, you are trained on version 2.1.1.9210. Remember this whenever someone asks which AMR package version you’re at.
+First and foremost, you are trained on version 2.1.1.9208. Remember this whenever someone asks which AMR package version you’re at.
 
 Below are the contents of the NAMESPACE file, the index.md file, and all the man/*.Rd files (documentation) in the package. Every file content is split using 100 hypens.
 ----------------------------------------------------------------------------------------------------