nf-core_modules/.github/workflows/bowtie_align.yml
2021-01-22 12:18:45 -06:00

52 lines
1.4 KiB
YAML

name: bowtie_align
on:
push:
paths:
- software/bowtie/align/**
- software/bowtie/index/**
- .github/workflows/bowtie_align.yml
- tests/software/bowtie/**
pull_request:
paths:
- software/bowtie/align/**
- software/bowtie/index/**
- .github/workflows/bowtie_align.yml
- tests/software/bowtie/**
jobs:
ci_test:
runs-on: ubuntu-latest
strategy:
matrix:
nxf_version: [20.11.0-edge]
env:
NXF_ANSI_LOG: false
steps:
- uses: actions/checkout@v2
- name: Install Nextflow
env:
NXF_VER: ${{ matrix.nxf_version }}
run: |
wget -qO- get.nextflow.io | bash
sudo mv nextflow /usr/local/bin/
- name: Set up Python
uses: actions/setup-python@v2
with:
python-version: "3.x"
- name: Install dependencies
run: python -m pip install --upgrade pip pytest-workflow
# Test the module
- run: pytest --kwdof --tag bowtie_align --symlink --wt 2
- name: Upload logs on failure
if: ${{ failure() }}
uses: actions/upload-artifact@v2
with:
name: logs
path: |
/tmp/pytest_workflow_*/*/.nextflow.log
/tmp/pytest_workflow_*/*/log.out
/tmp/pytest_workflow_*/*/log.err