Fix directory check

custom.Makefile

@@ -114,20 +114,20 @@ jhu_up: jhu_generate-secrets
 	fi
 	@echo "docker-compose.yml does not exist, creating starter site"
 	$(MAKE) starter-init ENVIRONMENT=starter_dev
-	if [ -z "$$(ls -A $(QUOTED_CURDIR)/codebase)" ]; then \
+	if [ ! -z "$$(ls -A $(QUOTED_CURDIR)/codebase)" ]; then \
 		echo "codebase/ directory is empty, cloning it"; \
 		docker container run --rm -v $(CURDIR)/codebase:/home/root $(REPOSITORY)/nginx:$(TAG) with-contenv bash -lc 'git clone -b main https://github.com/jhu-idc/idc-codebase /home/root;'; \
 	fi
 	$(MAKE) set-codebase-owner
 	$(MAKE) set-files-owner SRC=$(CURDIR)/codebase ENVIRONMENT=starter_dev
 	docker-compose up -d --remove-orphans
-	docker-compose exec -T drupal with-contenv bash -lc 'git config --global --add safe.directory /var/www/drupal/web/modules/contrib/islandora_fits'
 	# The rest of this should be moved into another function.
 	@echo "Wait for the /var/www/drupal directory to be available"
-	while ! docker compose exec -T drupal with-contenv bash -lc 'test -d /var/www/drupal'; do \
+	while ! docker compose exec -T drupal with-contenv bash -lc 'test -f /var/www/drupal/composer.json'; do \
 		echo "Waiting for /var/www/drupal directory to be available..."; \
 		sleep 2; \
 	done
+	docker-compose exec -T drupal with-contenv bash -lc 'git config --global --add safe.directory /var/www/drupal/web/modules/contrib/islandora_fits'
 	docker-compose exec -T drupal with-contenv bash -lc 'rm -rf vendor/ web/modules/contrib/* web/themes/contrib/*'
 	docker compose exec -T drupal with-contenv bash -lc 'chown -R nginx:nginx /var/www/drupal/ && su nginx -s /bin/bash -c "composer install"'
 	$(MAKE) set-codebase-owner