rebuild #51

	name: Rebuild clade-I

	on:
	repository_dispatch:
	types:
	- rebuild
	- rebuild_clade-i

	workflow_dispatch:
	inputs:
	trial_name:
	description: "If set, result will be at nextstrain.org/staging/trial/${trial_name}/${auspice_name}"
	required: false

	jobs:
	set_config_overrides:
	runs-on: ubuntu-latest
	steps:
	- id: config
	name: Set config overrides
	env:
	TRIAL_NAME: ${{ inputs.trial_name }}
	run: \|
	config=""
	if [[ "$TRIAL_NAME" ]]; then
	config+="--config"
	config+=" deploy_url='s3://nextstrain-staging/'"
	config+=" auspice_prefix='"$TRIAL_NAME"'"
	fi

	echo "config=$config" >> "$GITHUB_OUTPUT"
	outputs:
	config_overrides: ${{ steps.config.outputs.config }}

	rebuild_clade_i:
	needs: [set_config_overrides]
	permissions:
	id-token: write
	uses: nextstrain/.github/.github/workflows/pathogen-repo-build.yaml@master
	secrets: inherit
	with:
	# We can migrate to AWS Batch when/if we need to for more resources,
	# but at the time of writing the clade-I build is small & quick
	runtime: docker
	env: \|
	CONFIG_OVERRIDES: ${{ needs.set_config_overrides.outputs.config_overrides }}
	GITHUB_RUN_ID: ${{ github.run_id }}
	SLACK_CHANNELS: ${{ inputs.trial_name && vars.TEST_SLACK_CHANNEL \|\| vars.SLACK_CHANNELS }}
	BUILD_DIR: phylogenetic
	BUILD_NAME: clade-i
	run: \|
	nextstrain build \
	--env GITHUB_RUN_ID \
	--env SLACK_TOKEN \
	--env SLACK_CHANNELS \
	. \
	notify_on_deploy \
	--configfiles $BUILD_DIR/defaults/$BUILD_NAME/config.yaml $BUILD_DIR/build-configs/nextstrain-automation/config.yaml \
	$CONFIG_OVERRIDES --directory $BUILD_DIR --snakefile $BUILD_DIR/Snakefile

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