#!/bin/bash

# ==================================================================== #
# TITLE:                                                               #
# AMR: An R Package for Working with Antimicrobial Resistance Data     #
#                                                                      #
# SOURCE CODE:                                                         #
# https://github.com/msberends/AMR                                     #
#                                                                      #
# PLEASE CITE THIS SOFTWARE AS:                                        #
# Berends MS, Luz CF, Friedrich AW, et al. (2022).                     #
# AMR: An R Package for Working with Antimicrobial Resistance Data.    #
# Journal of Statistical Software, 104(3), 1-31.                       #
# https://doi.org/10.18637/jss.v104.i03                                #
#                                                                      #
# Developed at the University of Groningen and the University Medical  #
# Center Groningen in The Netherlands, in collaboration with many      #
# colleagues from around the world, see our website.                   #
#                                                                      #
# This R package is free software; you can freely use and distribute   #
# it for both personal and commercial purposes under the terms of the  #
# GNU General Public License version 2.0 (GNU GPL-2), as published by  #
# the Free Software Foundation.                                        #
# We created this package for both routine data analysis and academic  #
# research and it was publicly released in the hope that it will be    #
# useful, but it comes WITHOUT ANY WARRANTY OR LIABILITY.              #
#                                                                      #
# Visit our website for the full manual and a complete tutorial about  #
# how to conduct AMR data analysis: https://msberends.github.io/AMR/   #
# ==================================================================== #

# Path to the commit message file
COMMIT_MSG_FILE="$1"

# Read the original commit message
COMMIT_MSG=$(cat "$COMMIT_MSG_FILE")

# Check if commit should skip checks
if [[ "$COMMIT_MSG" =~ no-?checks?|no-?verify ]]; then
  echo "Not modifying commit message with 'pre-commit':"
  echo "Commit message contains 'no-check' or 'no-verify'."
  echo ""
  exit 0
fi

# Read the version number from the temporary file
if [ -f ".git/commit_version.tmp" ]; then
  currentversion=$(cat .git/commit_version.tmp)
  rm -f .git/commit_version.tmp
else
  echo "Version number file not found."
  currentversion=""
fi

# Prepend the version number to the commit message if available
if [ -n "$currentversion" ]; then
  echo "(v${currentversion}) ${COMMIT_MSG}" > "$COMMIT_MSG_FILE"
else
  echo "No version number to prepend to commit message."
fi

git add data-raw/*
git add PythonPackage/*
git add -u

exit 0