Remove directory creation at startup #342

	name: Install

	on: [push, pull_request]

	jobs:

	skip_duplicate:
	permissions:
	actions: write
	contents: read
	runs-on: ubuntu-latest
	outputs:
	should_skip: ${{ steps.skip_check.outputs.should_skip }}
	steps:
	- id: skip_check
	uses: fkirc/skip-duplicate-actions@v5.3.0
	with:
	cancel_others: 'true'
	concurrent_skipping: 'same_content_newer'

	Install:
	needs: skip_duplicate
	if: ${{ needs.skip_duplicate.outputs.should_skip != 'true' }}
	runs-on: ubuntu-latest
	steps:
	- name: Checkout repository
	uses: actions/checkout@v3
	- name: Setup mamba
	uses: conda-incubator/setup-miniconda@v3
	with:
	mamba-version: "*"
	channels: conda-forge,bioconda,defaults
	auto-activate-base: true
	activate-environment: ""
	- name: Install Snakemake 7.32
	run: \|
	pip install 'snakemake==7.32.4' 'pulp<2.8'
	- name: Create environments
	run: \|
	snakemake --snakefile workflow/Snakefile --directory .test --configfile config/config.yaml .test/targets.yaml --conda-create-envs-only --use-conda -c1

	Dry_run:
	needs: skip_duplicate
	if: ${{ needs.skip_duplicate.outputs.should_skip != 'true' }}
	runs-on: ubuntu-latest
	steps:
	- name: Checkout repository
	uses: actions/checkout@v3
	- name: Setup mamba
	uses: conda-incubator/setup-miniconda@v3
	with:
	mamba-version: "*"
	channels: conda-forge,bioconda,defaults
	auto-activate-base: true
	activate-environment: ""
	- name: Install Snakemake 7.32
	run: \|
	pip install 'snakemake==7.32.4' 'pulp<2.8'
	- name: Dry run
	run: \|
	snakemake --snakefile workflow/Snakefile --directory .test --configfile config/config.yaml .test/targets.yaml --dry-run

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