Makefile

#!make

# ------------------------------------------------------------------------------
# Makefile -- BioHub
# ------------------------------------------------------------------------------

-include .env

# Apply the contents of the .env to the terminal, so that the docker-compose file can use them in its builds
export $(shell sed 's/=.*//' .env)

## ------------------------------------------------------------------------------
## Alias Commands
## - Performs logical groups of commands for your convenience
## ------------------------------------------------------------------------------

# Running the docker build
# 1. Run `make env`
# 2. Edit the `.env` file as needed to update variables and secrets
# 3. Run `make web`

env: | setup ## Copies the default ./env_config/env.docker to ./.env

postgres: | close build-postgres run-postgres ## Performs all commands necessary to run the postgres project (db) in docker
backend: | close build-backend run-backend ## Performs all commands necessary to run all backend projects (db, api) in docker
web: | close build-web run-web ## Performs all commands necessary to run all backend+web projects (db, api, app) in docker

db-setup: | build-db-setup run-db-setup ## Performs all commands necessary to run the database migrations and seeding
db-migrate: | build-db-migrate run-db-migrate ## Performs all commands necessary to run the database migrations
db-rollback: | build-db-rollback run-db-rollback ## Performs all commands necessary to rollback the latest database migrations

clamav: | build-clamav run-clamav ## Performs all commands necessary to run clamav

fix: | lint-fix format-fix ## Performs both lint-fix and format-fix commands

## ------------------------------------------------------------------------------
## Setup/Cleanup Commands
## ------------------------------------------------------------------------------

setup: ## Prepares the environment variables used by all project docker containers
	@echo "==============================================="
	@echo "Make: setup - copying env.docker to .env"
	@echo "==============================================="
	@cp -i env_config/env.docker .env

close: ## Closes all project containers
	@echo "==============================================="
	@echo "Make: close - closing Docker containers"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml down

clean: ## Closes and cleans (removes) all project containers
	@echo "==============================================="
	@echo "Make: clean - closing and cleaning Docker containers"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml down -v --rmi all --remove-orphans

prune: ## Deletes ALL docker artifacts (even those not associated to this project)
	@echo -n "Delete ALL docker artifacts? [y/n] " && read ans && [ $${ans:-n} = y ]
	@echo "==============================================="
	@echo "Make: prune - deleting all docker artifacts"
	@echo "==============================================="
	@docker system prune --all --volumes -f
	@docker volume prune --all -f

## ------------------------------------------------------------------------------
## Build/Run Postgres DB Commands
## - Builds all of the BioHub postgres db projects (db, db_setup)
## ------------------------------------------------------------------------------

build-postgres: ## Builds the postgres db containers
	@echo "==============================================="
	@echo "Make: build-postgres - building postgres db  images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db db_setup

run-postgres: ## Runs the postgres db containers
	@echo "==============================================="
	@echo "Make: run-postgres - running postgres db  images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up -d db db_setup

## ------------------------------------------------------------------------------
## Build/Run Backend Commands
## - Builds all of the BioHub backend projects (db, db_setup, api)
## ------------------------------------------------------------------------------

build-backend: ## Builds all backend containers
	@echo "==============================================="
	@echo "Make: build-backend - building backend images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db db_setup api
	# @docker-compose -f docker-compose.yml build db db_setup api

run-backend: ## Runs all backend containers
	@echo "==============================================="
	@echo "Make: run-backend - running backend images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up -d db db_setup api
	# @docker-compose -f docker-compose.yml up -d db db_setup api

## ------------------------------------------------------------------------------
## Build/Run Backend+Web Commands (backend + web frontend)
## - Builds all of the BioHub backend+web projects (db, db_setup, api, app)
## ------------------------------------------------------------------------------

build-web: ## Builds all backend+web containers
	@echo "==============================================="
	@echo "Make: build-web - building web images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db db_setup api app
	# @docker-compose -f docker-compose.yml build db db_setup api app

run-web: ## Runs all backend+web containers
	@echo "==============================================="
	@echo "Make: run-web - running web images"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up -d db db_setup api app
	# @docker-compose -f docker-compose.yml up -d db db_setup api app

## ------------------------------------------------------------------------------
## Commands to shell into the target container
## ------------------------------------------------------------------------------

db-container: ## Executes into database container.
	@echo "==============================================="
	@echo "Make: Shelling into database container"
	@echo "==============================================="
	@export PGPASSWORD=$(DB_ADMIN_PASS)
	@docker-compose exec db psql -U $(DB_ADMIN) -d $(DB_DATABASE)

app-container: ## Executes into the app container.
	@echo "==============================================="
	@echo "Shelling into app container"
	@echo "==============================================="
	@docker-compose exec app bash

api-container: ## Executes into the api container.
	@echo "==============================================="
	@echo "Shelling into api container"
	@echo "==============================================="
	@docker-compose exec api bash

queue-container: ## Executes into the queue container.
	@echo "==============================================="
	@echo "Shelling into queue container"
	@echo "==============================================="
	@docker-compose exec queue bash

## ------------------------------------------------------------------------------
## Database migration commands
## ------------------------------------------------------------------------------

build-db-setup: ## Build the db knex setup (migrations + seeding) image
	@echo "==============================================="
	@echo "Make: build-db-setup - building db knex setup image"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db_setup

run-db-setup: ## Run the database migrations and seeding
	@echo "==============================================="
	@echo "Make: run-db-setup - running database migrations and seeding"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up db_setup

build-db-migrate: ## Build the db knex migrations image
	@echo "==============================================="
	@echo "Make: build-db-migrate - bnuilding db knex migrate image"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db_migrate

run-db-migrate: ## Run the database migrations
	@echo "==============================================="
	@echo "Make: run-db-migrate - running database migrations"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up db_migrate

build-db-rollback: ## Build the db knex rollback image
	@echo "==============================================="
	@echo "Make: build-db-rollback - building db knex rollback image"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build db_rollback

run-db-rollback: ## Rollback the latest database migrations
	@echo "==============================================="
	@echo "Make: run-db-rollback - rolling back the latest database migrations"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up db_rollback

## ------------------------------------------------------------------------------
## clamav commands
## ------------------------------------------------------------------------------

build-clamav: ## Build the clamav image
	@echo "==============================================="
	@echo "Make: build-clamav - building clamav image"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml build clamav

run-clamav: ## Run clamav
	@echo "==============================================="
	@echo "Make: run-clamav - running clamav"
	@echo "==============================================="
	@docker-compose -f docker-compose.yml up -d clamav

## ------------------------------------------------------------------------------
## Run `npm` commands for all projects
## ------------------------------------------------------------------------------

install: ## Runs `npm install` for all projects
	@echo "==============================================="
	@echo "Running /api install"
	@echo "==============================================="
	@cd api && npm install && cd ..
	@echo "==============================================="
	@echo "Running /app install"
	@echo "==============================================="
	@cd app && npm install && cd ..
	@echo "==============================================="
	@echo "Running /database install"
	@echo "==============================================="
	@cd database && npm install && cd ..

test: ## Runs `npm test` for api, and app projects
	@echo "==============================================="
	@echo "Running /api tests"
	@echo "==============================================="
	@cd api && npm test && cd ..
	@echo "==============================================="
	@echo "Running /app tests"
	@echo "==============================================="
	@cd app && npm test && cd ..

cypress: ## Runs `npm run test:e2e` for api, and app projects
	@echo "==============================================="
	@echo "Running cypress tests"
	@echo "==============================================="
	@cd testing/e2e && npm run test:e2e && cd ../..

lint: ## Runs `npm lint` for all projects
	@echo "==============================================="
	@echo "Running /api lint"
	@echo "==============================================="
	@cd api && npm run lint && cd ..
	@echo "==============================================="
	@echo "Running /app lint"
	@echo "==============================================="
	@cd app && npm run lint && cd ..
	@echo "==============================================="
	@echo "Running /database lint"
	@echo "==============================================="
	@cd database && npm run lint && cd ..

lint-fix: ## Runs `npm run lint-fix ` for all projects
	@echo "==============================================="
	@echo "Running /api lint-fix"
	@echo "==============================================="
	@cd api && npm run lint-fix && cd ..
	@echo "==============================================="
	@echo "Running /app lint-fix"
	@echo "==============================================="
	@cd app && npm run lint-fix && cd ..
	@echo "==============================================="
	@echo "Running /database lint-fix"
	@echo "==============================================="
	@cd database && npm run lint-fix && cd ..

format: ## Runs `npm run format` for all projects
	@echo "==============================================="
	@echo "Running /api format"
	@echo "==============================================="
	@cd api && npm run format && cd ..
	@echo "==============================================="
	@echo "Running /app format"
	@echo "==============================================="
	@cd app && npm run format && cd ..
	@echo "==============================================="
	@echo "Running /database format"
	@echo "==============================================="
	@cd database && npm run format && cd ..

format-fix: ## Runs `npm run format-fix` for all projects
	@echo "==============================================="
	@echo "Running /api format-fix"
	@echo "==============================================="
	@cd api && npm run format-fix && cd ..
	@echo "==============================================="
	@echo "Running /app format-fix"
	@echo "==============================================="
	@cd app && npm run format-fix && cd ..
	@echo "==============================================="
	@echo "Running /database format-fix"
	@echo "==============================================="
	@cd database && npm run format-fix && cd ..

## ------------------------------------------------------------------------------
## Run `npm` commands for all projects ./.pipeline
## ------------------------------------------------------------------------------
pipeline-install: ## Runs `npm install` for all projects
	@echo "==============================================="
	@echo "Running /api/.pipeline install"
	@echo "==============================================="
	@cd api/.pipeline && npm install && cd ../..
	@echo "==============================================="
	@echo "Running /app/.pipeline install"
	@echo "==============================================="
	@cd app/.pipeline && npm install && cd ../..
	@echo "==============================================="
	@echo "Running /database/.pipeline install"
	@echo "==============================================="
	@cd database/.pipeline && npm install && cd ../..

## ------------------------------------------------------------------------------
## Run `docker logs <container> -f` commands for all projects
## - You can include additional parameters by appaending an `args` param
## - Ex: `make log-app args="--tail 0"`
## ------------------------------------------------------------------------------
log-app: ## Runs `docker logs <container> -f` for the app container
	@echo "==============================================="
	@echo "Running docker logs for the app container"
	@echo "==============================================="
	@docker logs $(DOCKER_PROJECT_NAME)-app-$(DOCKER_NAMESPACE)-container -f $(args)

log-api: ## Runs `docker logs <container> -f` for the api container
	@echo "==============================================="
	@echo "Running docker logs for the api container"
	@echo "==============================================="
	@docker logs $(DOCKER_PROJECT_NAME)-api-$(DOCKER_NAMESPACE)-container -f $(args)

log-queue: ## Runs `docker logs <container> -f` for the queue container
	@echo "==============================================="
	@echo "Running docker logs for the queue container"
	@echo "==============================================="
	@docker logs $(DOCKER_PROJECT_NAME)-queue-$(DOCKER_NAMESPACE)-container -f $(args)

log-db: ## Runs `docker logs <container> -f` for the database container
	@echo "==============================================="
	@echo "Running docker logs for the db container"
	@echo "==============================================="
	@docker logs $(DOCKER_PROJECT_NAME)-db-$(DOCKER_NAMESPACE)-container -f $(args)

log-db-setup: ## Runs `docker logs <container> -f` for the database setup container
	@echo "==============================================="
	@echo "Running docker logs for the db-setup container"
	@echo "==============================================="
	@docker logs $(DOCKER_PROJECT_NAME)-db-setup-$(DOCKER_NAMESPACE)-container -f $(args)

## ------------------------------------------------------------------------------
## Help
## ------------------------------------------------------------------------------

help:	## Display this help screen.
	@grep -h -E '^[0-9a-zA-Z_-]+:.*?##.*$$|^##.*$$' $(MAKEFILE_LIST) | awk 'BEGIN {FS = ":.*?## "}; {printf "\033[33m%-20s\033[0m %s\n", $$1, $$2}' | awk 'BEGIN {FS = "## "}; {printf "\033[36m%-1s\033[0m %s\n", $$2, $$1}'