nf-core_modules/.github/workflows/samtools_index.yml

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name: samtools_index
on:
push:
paths:
- software/samtools/index/**
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- .github/workflows/samtools_index.yml
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- tests/software/samtools/**
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pull_request:
paths:
- software/samtools/index/**
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- .github/workflows/samtools_index.yml
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- tests/software/samtools/**
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jobs:
ci_test:
runs-on: ubuntu-latest
env:
NXF_ANSI_LOG: false
steps:
- uses: actions/checkout@v2
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- name: Install Nextflow
run: |
export NXF_VER="20.07.1"
wget -qO- get.nextflow.io | bash
sudo mv nextflow /usr/local/bin/
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- 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
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# Test the module
- run: pytest --tag samtools_index --symlink --wt 2