refactoring

Makefile

@@ -0,0 +1,107 @@
+MAKEFLAGS += --warn-undefined-variables
+SHELL := bash
+.SHELLFLAGS := -eu -o pipefail -c
+.DEFAULT_GOAL := help
+.DELETE_ON_ERROR:
+.SUFFIXES:
+.SECONDARY:
+
+RUN = poetry run
+# get values from about.yaml file
+SCHEMA_NAME = linkml_model
+SOURCE_SCHEMA_PATH = $(shell sh ./utils/get-value.sh source_schema_path)
+SRC = .
+DEST = target
+PYMODEL = linkml_model/
+DOCDIR = stage/docs
+
+# basename of a YAML file in model/
+.PHONY: all clean
+
+help: status
+	@echo ""
+	@echo "make all -- makes site locally"
+	@echo "make install -- install dependencies"
+	@echo "make setup -- initial setup"
+	@echo "make test -- runs tests"
+	@echo "make testdoc -- builds docs and runs local test server"
+	@echo "make deploy -- deploys site"
+	@echo "make update -- updates linkml version"
+	@echo "make help -- show this help"
+	@echo ""
+
+status: check-config
+	@echo "Project: $(SCHEMA_NAME)"
+	@echo "Source: $(SOURCE_SCHEMA_PATH)"
+
+setup: install gen-project gendoc git-init-add
+
+install:
+	poetry install
+.PHONY: install
+
+all: gen-project gendoc
+%.yaml: gen-project
+deploy: all mkd-gh-deploy
+
+# generates all project files
+gen-project: $(PYMODEL)
+	$(RUN) gen-project -d $(DEST) $(SOURCE_SCHEMA_PATH) && mv $(DEST)/*.py $(PYMODEL)
+
+test:
+	$(RUN) gen-project -d tmp $(SOURCE_SCHEMA_PATH) 
+
+check-config:
+	@(grep my-datamodel about.yaml > /dev/null && printf "\n**Project not configured**:\n\n  - Remember to edit 'about.yaml'\n\n" || exit 0)
+
+convert-examples-to-%:
+	$(patsubst %, $(RUN) linkml-convert  % -s $(SOURCE_SCHEMA_PATH) -C Person, $(shell find src/data/examples -name "*.yaml")) 
+
+examples/%.yaml: src/data/examples/%.yaml
+	$(RUN) linkml-convert -s $(SOURCE_SCHEMA_PATH) -C Person $< -o $@
+examples/%.json: src/data/examples/%.yaml
+	$(RUN) linkml-convert -s $(SOURCE_SCHEMA_PATH) -C Person $< -o $@
+examples/%.ttl: src/data/examples/%.yaml
+	$(RUN) linkml-convert -P EXAMPLE=http://example.org/ -s $(SOURCE_SCHEMA_PATH) -C Person $< -o $@
+
+upgrade:
+	poetry add -D linkml@latest
+
+# Test documentation locally
+serve: mkd-serve
+
+# Python datamodel
+$(PYMODEL):
+	mkdir -p $@
+
+
+$(DOCDIR):
+	mkdir -p $@
+
+gendoc: $(DOCDIR)
+	cp linkml_model/model/docs/*md $(DOCDIR) ; \
+	$(RUN) gen-doc --genmeta --sort-by rank -d $(DOCDIR) $(SOURCE_SCHEMA_PATH)
+
+testdoc: gendoc serve
+
+MKDOCS = $(RUN) mkdocs
+mkd-%:
+	$(MKDOCS) $*
+
+PROJECT_FOLDERS = sqlschema shex shacl protobuf prefixmap owl jsonschema jsonld graphql excel
+git-init-add: git-init git-add git-commit git-status
+git-init:
+	git init
+git-add:
+	git add .gitignore .github Makefile LICENSE *.md examples utils about.yaml mkdocs.yml poetry.lock project.Makefile pyproject.toml src/linkml/*yaml src/*/datamodel/*py src/data
+	git add $(patsubst %, project/%, $(PROJECT_FOLDERS))
+git-commit:
+	git commit -m 'Initial commit' -a
+git-status:
+	git status
+
+clean:
+	rm -rf $(DEST)
+	rm -rf tmp
+
+include project.Makefile

about.yaml

@@ -1,3 +1,3 @@
 name: linkml-model
 description: LinkML metamodel
-source_schema_path: linkml_model/model/meta.yaml
+source_schema_path: linkml_model/model/schema/meta.yaml