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# ==================================================================== #
# TITLE #
# Antimicrobial Resistance (AMR) Data Analysis for R #
# #
# SOURCE #
# https://github.com/msberends/AMR #
# #
# LICENCE #
# (c) 2018-2021 Berends MS, Luz CF et al. #
# Developed at the University of Groningen, the Netherlands, in #
# collaboration with non-profit organisations Certe Medical #
# Diagnostics & Advice, and University Medical Center Groningen. #
# #
# 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/ #
# ==================================================================== #
########################################################################
# `git_premaster.sh` takes 3 parameters: #
# 1. Commit message (character) [mandatory] #
# 2. Lazy website generation (logical), with TRUE only changed #
# files will be processed [defaults to TRUE] #
# 3. Version number to be used in DESCRIPTION and NEWS.md #
# [defaults to current tag and last commit number + 9000] #
# #
# To push new commits to the premaster branch, run: #
# bash git_premaster.sh "commit message" #
# This creates auto version numbering in DESCRIPTION and NEWS.md. #
# #
# After successful test checks, merge it to the master branch with: #
# bash git_merge.sh #
# #
# To prerelease a new version number, run: #
# bash git_premaster.sh "v1.x.x" FALSE "1.x.x" #
# #
# To only update the website, run: #
# bash git_siteonly.sh #
# (which is short for 'bash git_premaster.sh "website update" FALSE') #
########################################################################
# stash current changes
# git stash --quiet
# go to master
git checkout master --quiet
echo "• changed branch to master"
# import everything from premaster
git merge premaster --quiet
# and send it to git
git push --quiet
echo "• pushed changes to master"
# return to premaster
git checkout premaster --quiet
echo "• changed branch back to premaster"
git status --short
echo
read -p "Use R-hub to simulate all CRAN checks (y/N)? " choice
case "$choice" in
y|Y|j|J ) ;;
* ) exit 1;;
esac
Rscript -e "rhub::check(devtools::build(), platform = rhub::platforms()[!is.na(rhub::platforms()$`cran-name`), 'name'])"
echo
# and get stashed changes back
# git stash apply --quiet