Map blueprint ontology to CL names #24

	# This is a workflow to run the cell-type-consensus module
	#
	# Analysis modules are run based on three triggers:
	# - Manual trigger
	# - On pull requests where code in the module has changed
	# - As a reusable workflow called from a separate workflow which periodically runs all modules
	#
	# At initialization, only the manual trigger is active

	name: Run cell-type-consensus analysis module
	env:
	MODULE_PATH: analyses/cell-type-consensus
	AWS_DEFAULT_REGION: us-east-2

	concurrency:
	# only one run per branch at a time
	group: "run_cell-type-consensus_${{ github.ref }}"
	cancel-in-progress: true

	on:
	workflow_dispatch:
	workflow_call:
	pull_request:
	branches:
	- main
	paths:
	- analyses/cell-type-consensus/**
	- "!analyses/cell-type-consensus/Dockerfile"
	- "!analyses/cell-type-consensus/.dockerignore"
	- .github/workflows/run_cell-type-consensus.yml

	jobs:
	run-module:
	if: github.repository_owner == 'AlexsLemonade'
	runs-on: ubuntu-latest
	container: public.ecr.aws/openscpca/cell-type-consensus:latest

	steps:
	- name: Install aws-cli
	run: \|
	curl "https://awscli.amazonaws.com/awscli-exe-linux-x86_64.zip" -o "awscliv2.zip"
	unzip -q awscliv2.zip
	./aws/install

	- name: Checkout repo
	uses: actions/checkout@v4

	# Update this step as needed to download the desired data
	- name: Download test data
	run: ./download-data.py --test-data --format SCE

	- name: Run analysis module
	run: \|
	cd ${MODULE_PATH}
	# run module script(s) here
	./assign-consensus-celltypes.sh

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