Added retrys to all CI (f8c4cebf) · Commits · Chaos / Cutandrun

.github/workflows/ci.yml

+15 −9

Original line number	Diff line number	Diff line
		@@ -49,9 +49,11 @@ jobs:
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.fa.gz
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.tar.gz

		- name: Run pipeline
		run: \|
		nextflow run ${GITHUB_WORKSPACE} -profile docker,test_local_zip
		- name: Run Pipeline
		uses: Wandalen/wretry.action@v1.0.11
		with:
		command: nextflow run ${GITHUB_WORKSPACE} -profile docker,test_local_zip
		attempt_limit: 2

		##############################
		### LARGE INTEGRATION TEST ###
		@@ -89,9 +91,11 @@ jobs:
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.fa.gz
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.tar.gz

		- name: Run pipeline with test data
		run: \|
		nextflow run ${GITHUB_WORKSPACE} -profile docker,test_full_small_local_zip
		- name: Run Pipeline
		uses: Wandalen/wretry.action@v1.0.11
		with:
		command: nextflow run ${GITHUB_WORKSPACE} -profile docker,test_full_small_local_zip
		attempt_limit: 2

		#####################################
		### EDGE VERSION INTEGRATION TEST ###
		@@ -127,9 +131,11 @@ jobs:
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.fa.gz
		wget -q https://raw.githubusercontent.com/nf-core/test-datasets/cutandrun/reference/genomes/e_coli_U00096_3.tar.gz

		- name: Run pipeline with test data
		run: \|
		nextflow run ${GITHUB_WORKSPACE} -profile docker,test_local_zip
		- name: Run Pipeline
		uses: Wandalen/wretry.action@v1.0.11
		with:
		command: nextflow run ${GITHUB_WORKSPACE} -profile docker,test_local_zip
		attempt_limit: 2

		##############################
		### UNIT TESTS ###

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