Bump versions and update software versions #199

	name: Immcantation
	# This workflow runs the pipeline with the minimal test dataset to check that it completes without any syntax errors
	on:
	pull_request:
	branches-ignore:
	- "master"

	env:
	NXF_ANSI_LOG: false

	concurrency:
	group: "${{ github.workflow }}-${{ github.event.pull_request.number \|\| github.ref }}"
	cancel-in-progress: true

	jobs:
	test_container:
	name: Run workflow with immcantation devel test_container
	if: ${{ github.event_name != 'push' \|\| (github.event_name == 'push' && github.repository == 'nf-core/airrflow') }}
	runs-on: ubuntu-latest
	strategy:
	matrix:
	NXF_VER:
	- "23.04.0"
	- "latest-everything"
	profile:
	[
	"test_assembled_immcantation_devel_hs",
	"test_assembled_immcantation_devel_mm",
	"test_raw_immcantation_devel",
	]
	fail-fast: false
	steps:
	- name: Check out pipeline code
	uses: actions/checkout@v3

	- name: Install Nextflow
	uses: nf-core/setup-nextflow@v1
	with:
	version: "${{ matrix.NXF_VER }}"

	- name: Run pipeline with test data
	run: \|
	nextflow run ${GITHUB_WORKSPACE} -profile ${{ matrix.profile }},docker --outdir ./results

	- name: Upload logs on failure
	if: failure()
	uses: actions/upload-artifact@v2
	with:
	name: logs-${{ matrix.profile }}
	path: \|
	/home/runner/.nextflow.log
	/home/runner/work
	!/home/runner/work/conda
	!/home/runner/work/singularity

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