champCalculator: CHAMP calculator

# Building a Prod-Ready, Robust Shiny Application.
# 
# README: each step of the dev files is optional, and you don't have to 
# fill every dev scripts before getting started. 
# 01_start.R should be filled at start. 
# 02_dev.R should be used to keep track of your development during the project.
# 03_deploy.R should be used once you need to deploy your app.
# 
# 
###################################
#### CURRENT FILE: DEV SCRIPT #####
###################################

# Engineering

## Dependencies ----
## Add one line by package you want to add as dependency
usethis::use_package( "dplyr" )
usethis::use_package( "readr" )
usethis::use_package( "readxl" )
usethis::use_package( "purrr" )
usethis::use_package( "openxlsx" )
usethis::use_package( "shiny" )
usethis::use_package( "shinyFiles" )
usethis::use_package( "shinythemes" )
usethis::use_package( "shinyBS" )
usethis::use_package( "tibble" )
usethis::use_package( "rlang" )
usethis::use_package( "assertthat" )

attachment::att_from_rscripts()

## Add modules ----
## Create a module infrastructure in R/
golem::add_module( name = "use_table" )
golem::add_module( name = "single_patient" )

## Add helper functions ----
## Creates fct_* and utils_*
golem::add_fct( "calculate_champ" ) 
golem::add_utils( "wrangle_variable" )

## External resources
## Creates .js and .css files at inst/app/www
# golem::add_js_file( "script" )
# golem::add_js_handler( "handlers" )
# golem::add_css_file( "custom" )

## Add internal datasets ----
## If you have data in your package
usethis::use_data_raw(name = "coeffs", open = FALSE ) 
usethis::use_data_raw(name = "var_names", open = FALSE ) 

## Tests ----
## Add one line by test you want to create
usethis::use_test( "app" )

# Documentation

## Vignette ----
usethis::use_vignette("champCalculator")
devtools::build_vignettes()

## Code Coverage----
## Set the code coverage service ("codecov" or "coveralls")
usethis::use_coverage()

# Create a summary readme for the testthat subdirectory
covrpage::covrpage()

## CI ----
## Use this part of the script if you need to set up a CI
## service for your application
## 
## (You'll need GitHub there)
usethis::use_github()

# # GitHub Actions
# usethis::use_github_action() 
# # Chose one of the three
# # See https://usethis.r-lib.org/reference/use_github_action.html
# usethis::use_github_action_check_release() 
# usethis::use_github_action_check_standard() 
# usethis::use_github_action_check_full() 

# You're now set! ----
# go to dev/03_deploy.R
rstudioapi::navigateToFile("dev/03_deploy.R")