Remove reevaluate-gene-essentiality workflow; add /run gene-essential… #2

	name: Model file checks

	on: [push]

	jobs:
	# Verify model/Human-GEM.yml reads and writes losslessly (the committed file is
	# canonical) both with cobrapy alone and with the RAVEN toolbox, so users of
	# either toolchain can rely on it.
	round-trip:
	runs-on: ubuntu-latest
	strategy:
	fail-fast: false
	matrix:
	include:
	- tool: cobra
	deps: cobra
	- tool: raven-toolbox
	deps: -r code/test/requirements.txt
	steps:
	- name: Checkout
	uses: actions/checkout@v7

	- name: Set up Python 3
	uses: actions/setup-python@v6
	with:
	python-version: "3.11"

	- name: Install dependencies
	run: pip install ${{ matrix.deps }}

	- name: Round-trip with ${{ matrix.tool }}
	run: python code/test/testYamlConversion.py --tool ${{ matrix.tool }}

	# YAML syntax of the model files, and consistency of the model with its
	# annotation .tsv files. Uses cobrapy only (no RAVEN toolbox needed).
	lint-and-annotation:
	runs-on: ubuntu-latest
	steps:
	- name: Checkout
	uses: actions/checkout@v7

	- name: YAML lint
	uses: metabolicatlas/action-yamllint@v3
	with:
	file_or_dir: model/
	config_data: "{extends: default, rules: {line-length: disable}}"

	- name: Set up Python 3
	uses: actions/setup-python@v6
	with:
	python-version: "3.11"

	- name: Install dependencies
	run: pip install cobra pandas

	- name: Model / annotation-file consistency
	run: python code/test/sanityCheck.py

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