Latest-3D #216
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| # This is a basic workflow to help you get started with Actions | |
| name: Latest-3D | |
| # Controls when the workflow will run | |
| on: | |
| # Triggers the workflow on push or pull request events but only for the main branch | |
| schedule: | |
| - cron: '30 15 * * 5' | |
| # push: | |
| # branches: [ main ] | |
| # pull_request: | |
| # branches: [ main ] | |
| # Allows you to run this workflow manually from the Actions tab | |
| workflow_dispatch: | |
| # 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: | |
| # Checks-out your repository under $GITHUB_WORKSPACE, so your job can access it | |
| - uses: actions/checkout@v2 | |
| # Runs a single command using the runners shell | |
| - name: Run a one-line script | |
| run: echo Hello, world! | |
| # Setup Miniconda | |
| - name: Setup Miniconda | |
| uses: conda-incubator/setup-miniconda@v2.1.1 | |
| with: | |
| auto-update-conda: true | |
| # Install and run MAKEDB | |
| - name: Install BioPython & run 3dStructureWorkflow.py | |
| shell: bash -l {0} | |
| run: | | |
| conda install biopython | |
| conda install -c bioconda blast | |
| python static/pyScripts/3dStructureWorkflow.py | |
| # run the test.py to get the latest SIFT and PDB FASTA files | |
| #- name: execute test.py script | |
| # run: python test.py | |
| # Install and run MAKEDB | |
| #- name: Install BLAST and run makeblastdb | |
| # shell: bash -l {0} | |
| # run: | | |
| # conda install -c bioconda blast | |
| # mkdir blastdb | |
| # makeblastdb -in data/fasta/all_pdbs.fasta -dbtype 'prot' -out data/fasta/blastdb/all_pdbs | |
| # commit | |
| - name: commit files | |
| run: | | |
| git config --local user.email "action@github.com" | |
| git config --local user.name "GitHub Action" | |
| git add -A | |
| git commit -m "update data" -a | |
| # push | |
| - name: push changes | |
| uses: ad-m/github-push-action@v0.6.0 | |
| with: | |
| github_token: ${{ secrets.GITHUB_TOKEN }} | |
| branch: main |