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chore(deps): update github actions #2884

chore(deps): update github actions

chore(deps): update github actions #2884

Workflow file for this run

name: Run nf-test
on:
push:
branches:
# https://docs.renovatebot.com/key-concepts/automerge/#branch-vs-pr-automerging
- "renovate/**" # branches Renovate creates
pull_request:
branches: [master]
merge_group:
types: [checks_requested]
branches: [master]
workflow_dispatch:
inputs:
runners:
description: "Runners to test on"
type: choice
options:
- "ubuntu-latest"
- "self-hosted"
default: "self-hosted"
# Cancel if a newer run is started
concurrency:
group: ${{ github.workflow }}-${{ github.event.pull_request.number || github.ref }}
cancel-in-progress: true
env:
GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
# renovate: datasource=github-releases depName=askimed/nf-test versioning=semver
NFT_VER: "0.9.2"
NXF_ANSI_LOG: false
NXF_SINGULARITY_CACHEDIR: ${{ github.workspace }}/.singularity
NXF_SINGULARITY_LIBRARYDIR: ${{ github.workspace }}/.singularity
# renovate: datasource=github-releases depName=nextflow/nextflow versioning=semver
NXF_VER: "24.10.1"
jobs:
nf-test:
runs-on: ${{ github.event.inputs.runners || 'self-hosted' }}
# NOTE I think this is the cleanest way to get them organized
# process | conda | 1
# process | conda | 2
# process | conda | 3
# process | docker_self_hosted | 1
# ...
# workflow | singularity | 3
name: "${{ matrix.profile }} | ${{ matrix.shard }}"
# TODO
# needs: get-number-of-shards
# if: ${{ fromJSON(needs.get-number-of-shards.outputs.shards) != fromJSON('["1", "0"]') }}
strategy:
fail-fast: false
matrix:
# NOTE We could split these, but there's probably going to be more process tests than workflow tests, so we're just going to combine them all and bump up the shards for now
# NOTE The name of the test would be name: "${{ matrix.filter }} | ${{ matrix.profile }} | ${{ matrix.shard }}"
# filter: [process, workflow]
profile: [conda, docker_self_hosted, singularity]
shard: [1, 2, 3, 4, 5]
env:
# FIXME Bumping them up to make the transition smooth, then we can throttle them back
TOTAL_SHARDS: 5
SENTIEON_LICENSE_MESSAGE: ${{ secrets.SENTIEON_LICENSE_MESSAGE }}
SENTIEON_ENCRYPTION_KEY: ${{ secrets.SENTIEON_ENCRYPTION_KEY }}
steps:
- name: Clean Workspace # Purge the workspace in case it's running on a self-hosted runner
run: |
ls -la ./
rm -rf ./* || true
rm -rf ./.??* || true
ls -la ./
- uses: actions/checkout@11bd71901bbe5b1630ceea73d27597364c9af683 # v4
with:
fetch-depth: 0
- name: Run nf-test Action
uses: ./.github/actions/nf-test-action
with:
profile: ${{ matrix.profile }}
shard: ${{ matrix.shard }}
total_shards: ${{ env.TOTAL_SHARDS }}