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https://github.com/chanzuckerberg/cellxgene.git
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9089fc98f2
* Switch logic from `--annotations` to `--disable-annotations * Rename `--annotations-file` --> `--annotations-input-file` and remove `experimental` * update docs * update makefile * update tests * Disable annotations on standard client smoke test * Update docs/posts/annotations.md Co-Authored-By: Matt Weiden <538456+mweiden@users.noreply.github.com> * Update docs/posts/annotations.md * Renaming * Docs * Update tests * Pesky typo -_- Co-authored-by: Matt Weiden <538456+mweiden@users.noreply.github.com>
96 lines
2.1 KiB
Makefile
96 lines
2.1 KiB
Makefile
include ../common.mk
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DATASET := $(if $(DATASET),$(DATASET),../example-dataset/pbmc3k.h5ad)
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ANNOTATIONS := $(if $(ANNOTATIONS),$(ANNOTATIONS),../server/test/test_datasets/pbmc3k-annotations.csv)
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ANNOTATIONS_FILENAME := $(shell basename $(ANNOTATIONS))
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# Packaging
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.PHONY: clean
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clean:
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rm -rf node_modules
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.PHONY: ci
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ci:
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npm ci client
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.PHONY: install
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install:
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npm install client
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.PHONY: build
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build:
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npm run build
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# Development convenience methods
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.PHONY: server-requirements
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server-requirements:
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virtualenv -p python3 ../venv
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source ../venv/bin/activate && \
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pip install -r ../server/requirements-dev.txt && \
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yes | pip uninstall cellxgene || true && \
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pip install -e ..
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.PHONY: start-frontend
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start-frontend:
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node server/development.js
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.PHONY: start-server
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start-server:
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cellxgene launch -p $(CXG_SERVER_PORT) $(CXG_OPTIONS) $(DATASET)
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.PHONY: backend-dev
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backend-dev: server-requirements
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source ../venv/bin/activate && $(MAKE) start-server
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.PHONY: backend-dev-anno-ontology
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backend-dev-anno-ontology: server-requirements
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CXG_OPTIONS='--experimental-annotations-ontology' \
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$(MAKE) backend-dev
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.PHONY: test
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test:
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node node_modules/jest/bin/jest.js
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.PHONY: e2e
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e2e:
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node node_modules/jest/bin/jest.js \
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--verbose false \
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--config __tests__/e2e/e2eJestConfig.json \
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e2e/e2e.test.js
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.PHONY: e2e-annotations
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e2e-annotations:
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node node_modules/jest/bin/jest.js \
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--verbose false \
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--config __tests__/e2e/e2eJestConfig.json \
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e2e/e2eAnnotations.test.js
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.PHONY: smoke-test
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smoke-test:
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start_server_and_test \
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'CXG_OPTIONS="--disable-annotations" $(MAKE) start-server' \
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$(CXG_SERVER_PORT) \
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'$(MAKE) e2e'
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.PHONY: smoke-test-annotations
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smoke-test-annotations:
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$(eval TMP_DIR := $(shell mktemp -d /tmp/cellxgene_XXXXXX))
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cp $(ANNOTATIONS) $(TMP_DIR)/ && \
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start_server_and_test \
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'CXG_OPTIONS="--annotations-file $(TMP_DIR)/$(ANNOTATIONS_FILENAME)" $(MAKE) start-server' \
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$(CXG_SERVER_PORT) \
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'$(MAKE) e2e-annotations'
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rm -rf $(TMP_DIR)
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.PHONY: unit-test
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unit-test:
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node node_modules/jest/bin/jest.js \
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--testPathIgnorePatterns e2e
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# pass remaining commands through to npm run
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%:
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npm run $(*)
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