removed std salmon index from scRNAseq alevin #535

	name: osx

	on: [pull_request, push]

	defaults:
	run:
	shell: bash -l {0}

	jobs:
	createEnvs_OSX:
	strategy:
	fail-fast: false
	matrix:
	envs: [
	'CONDA_SHARED_ENV',
	'CONDA_CREATE_INDEX_ENV',
	'CONDA_RNASEQ_ENV',
	'CONDA_RMATS_ENV',
	'CONDA_scRNASEQ_ENV',
	'CONDA_seurat3_ENV',
	'CONDA_loompy_ENV',
	'CONDA_alevinqc_ENV',
	'CONDA_eisaR_ENV',
	'CONDA_DNA_MAPPING_ENV',
	'CONDA_CHIPSEQ_ENV',
	'CONDA_ATAC_ENV',
	'CONDA_HIC_ENV',
	'CONDA_WGBS_ENV',
	'CONDA_DSS_ENV',
	'CONDA_RMD_ENV',
	'CONDA_PREPROCESSING_ENV',
	'CONDA_NONCODING_RNASEQ_ENV',
	'CONDA_SAMBAMBA_ENV',
	'CONDA_pysam_ENV'
	]
	runs-on: macos-latest
	steps:
	- uses: actions/checkout@v3
	- uses: mamba-org/setup-micromamba@main
	with:
	environment-file: .github/snakePipesEnvCI.yml
	condarc: \|
	channels:
	- conda-forge
	- bioconda
	- defaults
	channel_priority: 'strict'
	cache-downloads: true
	- name: install snakePipes_OSX
	run: \|
	micromamba run -n snakePipes_CI python -m pip install . --no-deps --ignore-installed -vvv
	- name: createEnvsOSX
	run: \|
	micromamba activate snakePipes_CI
	snakePipes createEnvs --force --autodetectCondaEnvDir --only ${{matrix.envs}}

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