From d717bd3f87400f5cc9d9a5a3f64e1abf6a79de2a Mon Sep 17 00:00:00 2001
From: Matthijs Berends <m.s.berends@umcg.nl>
Date: Sat, 15 Mar 2025 16:19:03 +0100
Subject: [PATCH] (v2.1.1.9207) fix PythonPackage

---
 .github/prehooks/commit-msg                                   | 1 -
 .github/prehooks/pre-commit                                   | 1 -
 DESCRIPTION                                                   | 2 +-
 NEWS.md                                                       | 2 +-
 data-raw/_generate_GPT_knowledge_input.sh                     | 2 +-
 ...text_v2.1.1.9206.txt => gpt_training_text_v2.1.1.9207.txt} | 4 ++--
 6 files changed, 5 insertions(+), 7 deletions(-)
 rename data-raw/{gpt_training_text_v2.1.1.9206.txt => gpt_training_text_v2.1.1.9207.txt} (99%)

diff --git a/.github/prehooks/commit-msg b/.github/prehooks/commit-msg
index 1dc04bf3b..6f4ce0753 100755
--- a/.github/prehooks/commit-msg
+++ b/.github/prehooks/commit-msg
@@ -60,7 +60,6 @@ else
 fi
 
 git add data-raw/*
-git add PythonPackage/*
 git add -u
 
 exit 0
diff --git a/.github/prehooks/pre-commit b/.github/prehooks/pre-commit
index 6b23238c3..0999c4948 100755
--- a/.github/prehooks/pre-commit
+++ b/.github/prehooks/pre-commit
@@ -114,7 +114,6 @@ echo "${currentversion}" > .git/commit_version.tmp
 # Generate GPT knowledge info for our Assistant (https://chatgpt.com/g/g-M4UNLwFi5-amr-for-r-assistant)
 bash data-raw/_generate_GPT_knowledge_input.sh "${currentversion}"
 git add data-raw/*
-git add PythonPackage/*
 git add -u
 
 exit 0
diff --git a/DESCRIPTION b/DESCRIPTION
index f3ea2aa47..4880923e7 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,5 +1,5 @@
 Package: AMR
-Version: 2.1.1.9206
+Version: 2.1.1.9207
 Date: 2025-03-15
 Title: Antimicrobial Resistance Data Analysis
 Description: Functions to simplify and standardise antimicrobial resistance (AMR)
diff --git a/NEWS.md b/NEWS.md
index 823ef7351..2af8a18e1 100644
--- a/NEWS.md
+++ b/NEWS.md
@@ -1,4 +1,4 @@
-# AMR 2.1.1.9206
+# AMR 2.1.1.9207
 
 *(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).)*
 
diff --git a/data-raw/_generate_GPT_knowledge_input.sh b/data-raw/_generate_GPT_knowledge_input.sh
index fe5d86726..d6beed2f0 100644
--- a/data-raw/_generate_GPT_knowledge_input.sh
+++ b/data-raw/_generate_GPT_knowledge_input.sh
@@ -17,7 +17,7 @@ echo "This knowledge base contains all context you must know about the AMR packa
 echo "" >> "$output_file"
 echo "First and foremost, you are trained on version ${version}. Remember this whenever someone asks which AMR package version you’re at." >> "$output_file"
 echo "" >> "$output_file"
-echo "Below are the contents of the `NAMESPACE` file, the `index.md` file, and all the `man/*.Rd` files (documentation) in the package. Every file content is split using 100 hypens." >> "$output_file"
+echo "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." >> "$output_file"
 echo "----------------------------------------------------------------------------------------------------" >> "$output_file"
 echo "" >> "$output_file"
 
diff --git a/data-raw/gpt_training_text_v2.1.1.9206.txt b/data-raw/gpt_training_text_v2.1.1.9207.txt
similarity index 99%
rename from data-raw/gpt_training_text_v2.1.1.9206.txt
rename to data-raw/gpt_training_text_v2.1.1.9207.txt
index f5636d7ed..2367ea199 100644
--- a/data-raw/gpt_training_text_v2.1.1.9206.txt
+++ b/data-raw/gpt_training_text_v2.1.1.9207.txt
@@ -1,8 +1,8 @@
 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 2.1.1.9206. Remember this whenever someone asks which AMR package version you’re at.
+First and foremost, you are trained on version 2.1.1.9207. Remember this whenever someone asks which AMR package version you’re at.
 
-Below are the contents of the  file, the  file, and all the  files (documentation) in the package. Every file content is split using 100 hypens.
+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.
 ----------------------------------------------------------------------------------------------------
 
 ----------------------------------------------------------------------------------------------------