v1.4.7 #60
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| # This is a basic workflow to help you get started with Actions | |
| name: CI | |
| # Controls when the action will run. Triggers the workflow on push or pull request | |
| # events but only for the master branch | |
| on: | |
| push: | |
| branches: [ master ] | |
| pull_request: | |
| branches: [ master ] | |
| # A workflow run is made up of one or more jobs that can run sequentially or in parallel | |
| jobs: | |
| # This workflow contains a single job called "build" | |
| build: | |
| # The type of runner that the job will run on | |
| runs-on: ubuntu-latest | |
| # Steps represent a sequence of tasks that will be executed as part of the job | |
| steps: | |
| - name: Install dependencies | |
| # set up conda | |
| uses: s-weigand/[email protected] | |
| with: | |
| conda-channels: bioconda | |
| # install dependencies | |
| - run: conda install biopython | |
| - run: conda install xopen | |
| - run: conda install hmmer | |
| - run: conda install blast | |
| - name: Install TEsorter | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| uses: actions/checkout@v2 | |
| # install TEsorter | |
| - run: python setup.py install | |
| - name: run test TEsorter | |
| # run test | |
| run: TEsorter-test | |
| - name: test diff on outputs | |
| # run bash diff command on the protein output file avoiding headers that can be sliglty different according to blast version used | |
| run: diff -I '^>' rice6.9.5.liban.rexdb.cls.pep TEsorter/test/rice6.9.5.liban.rexdb.cls.pep |