execute_nightly_tests.yml

# This workflow builds AUGUSTUS and executes the 
# longrunning test cases
name: Execute AUGUSTUS longrunning test cases

on:
  schedule:
    # execute workflow daily at 23:30
    - cron:  '30 23 * * *'

env:
  TOOLDIR: /data/tools
  PERL5LIB: /data/eval
  DB_USER: ${{ secrets.TEST_DB_USER }}
  DB_PASSWD: ${{ secrets.TEST_DB_PASSWD }}

jobs:
  check_latest_commit_in_db:
    runs-on: [self-hosted, linux, default]

    outputs:
      commit: ${{ steps.step3.outputs.hash }}

    steps:
    - name: Check out repository
      id: step1
      uses: actions/checkout@v2

    - name: Get latest commit in DB
      id: step2
      run: |
        echo 'LATEST_COMMIT_IN_DB<<EOF' >> $GITHUB_ENV
        ./check_latest_commit_influx.py --dbname testresults --dbhost localhost --dbport 8086 --dbuser $DB_USER --dbpasswd $DB_PASSWD >> $GITHUB_ENV
        echo 'EOF' >> $GITHUB_ENV
      working-directory: tests/longrunning/

    - name: Set output
      id: step3
      run: echo '::set-output name=hash::${{ env.LATEST_COMMIT_IN_DB }}'

  longrunning_test:
    runs-on: [self-hosted, linux, default]
    needs: check_latest_commit_in_db

    # Only execute test cases if the last commit in db is different from the last commit on default branch
    if: ${{ needs.check_latest_commit_in_db.outputs.commit != github.sha }}

    # Maximum number of minutes to let a job run before GitHub automatically cancels it. Default: 360
    timeout-minutes: 600

    steps:
    - name: Check out repository
      uses: actions/checkout@v2

    # Install required python packages
    - name: Install python wget
      run: pip3 install wget

    - name: Install gitpython
      run: pip3 install gitpython

    - name: Install profiling tools
      run: pip3 install psutil memory_profiler

    - name: Build AUGUSTUS
      run: make all

    - name: Execute single genome test cases
      run: ./test_single.py --evalDir /data/eval/ --jobs 8 --pathToGitRepo ../../../.git
      working-directory: tests/longrunning/single_genome/

    - name: Extract desired accuracy values (single genome test case)
      run: ./extract_accuracy_values.py --path single_genome/output/eval
      working-directory: tests/longrunning/

    - name: Write to influxdb (single genome test case)
      run: ./write_to_influx.py --dbname testresults --dbhost localhost --dbport 8086 --dbuser $DB_USER --dbpasswd $DB_PASSWD --pathToDataDir single_genome/output/ --mode single
      working-directory: tests/longrunning/

    - name: Execute cgp test case
      run: ./executeTestCGP.py --chunks 27 30 47 54 57 80 86 101 118 --eval --augustusDir ../../../ --dataDir data --evalDir /data/eval --jobs 8 --pathToGitRepo ../../../.git
      working-directory: tests/longrunning/cgp/

    - name: Extract desired accuracy values (cgp test case)
      run: ./extract_accuracy_values.py --path cgp/data/cgp12way/ACCURACY
      working-directory: tests/longrunning/

    - name: Write to influxdb (cgp test case)
      run: ./write_to_influx.py --dbname testresults --dbhost localhost --dbport 8086 --dbuser $DB_USER --dbpasswd $DB_PASSWD --pathToDataDir cgp/data/cgp12way/ --mode cgp
      working-directory: tests/longrunning/