Avoid `overwrite existing files` error with BUSCO when resuming #32

	name: Testing illumina / singularity from PR
	on:
	pull_request:
	branches: [ master, dev ]
	types: [ opened, synchronize, reopened ]

	jobs:
	run_nextflow:
	name: Run pipeline for the upcoming PR
	runs-on: ubuntu-latest

	steps:

	- name: Check out pipeline code
	uses: actions/checkout@v2

	- name: Install Singularity
	uses: eWaterCycle/setup-singularity@v7
	with:
	singularity-version: 3.8.3

	- name: Install Nextflow
	env:
	CAPSULE_LOG: none
	run: \|
	wget -qO- get.nextflow.io \| bash
	sudo mv nextflow /usr/local/bin/

	- name: Clean environment
	run: \|
	sudo rm -rf /usr/local/lib/android # will release about 10 GB if you don't need Android
	sudo rm -rf /usr/share/dotnet # will release about 20GB if you don't need .NET

	- name: Run tests for illumina
	run: \|
	nextflow run main.nf -profile singularity,test,sreads
	rm -r work .nextflow*

	- name: View results
	run: \|
	sudo apt-get install -y tree
	tree sreads_test

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