Just commute galaxy_commit_id to "release_24.1" #268
Workflow file for this run
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| name: Test Playbook | |
| on: | |
| push: | |
| branches-ignore: | |
| - readthedocs | |
| - master | |
| env: | |
| GALAXY_USER: [email protected] | |
| GALAXY_USER_PASSWD: artbio2024 | |
| BIOBLEND_GALAXY_URL: "http://127.0.0.1:80" | |
| BIOBLEND_TEST_JOB_TIMEOUT: "240" | |
| jobs: | |
| Ubuntu_20-04: | |
| name: GalaxyXpand in ubuntu 20.04 | |
| runs-on: ubuntu-20.04 | |
| steps: | |
| - name: Remove PostgreSQL on VM | |
| run: | | |
| export RUNNER_ALLOW_RUNASROOT="1" | |
| sudo apt-get --purge remove postgresql | |
| dpkg -l | grep postgres | |
| sudo apt-get --purge remove pgdg-keyring postgresql* | |
| sudo rm -rf /var/lib/postgresql/ # directory data postgresql | |
| sudo rm -rf /var/log/postgresql/ # directory log postgresql | |
| sudo rm -rf /etc/postgresql/ # directory base postgresql | |
| sudo deluser postgres | |
| sudo apt-get -qq update -y | |
| - name: Remove ansible and Set up pip, ansible and bioblend in ubuntu 20.04 | |
| run: | | |
| sudo apt -qq remove ansible | |
| sudo apt install python3-pip -y | |
| python3 -m pip install -U pip setuptools | |
| - name: Install ansible 3.0 and bioblend in ubuntu 20.04 | |
| run: | | |
| python3 -m pip install ansible==3.0 | |
| python3 -m pip install --ignore-installed https://github.com/galaxyproject/bioblend/archive/refs/tags/v1.3.0.zip pytest | |
| - name: Display pip python and ansible settings | |
| run: | | |
| which python | |
| python --version | |
| which python3 | |
| python3 --version | |
| ansible --version | |
| pip show pytest | |
| pip show bioblend | |
| pip3 --version || true | |
| which pytest | |
| which bioblend-galaxy-tests | |
| whoami | |
| - uses: actions/[email protected] | |
| - name: Install ansible roles | |
| run: ansible-galaxy install -r requirements.yml -p roles/ | |
| - name: ansible installs galaxy | |
| run: | | |
| sudo apt-get -qq update -y | |
| sudo apt-get -qq --purge remove nginx* | |
| ansible-playbook --extra-vars RUNNER_ALLOW_RUNASROOT="1" \ | |
| -e ansible_user="runner" \ | |
| -e allow_world_readable_tmpfiles="true" \ | |
| --skip-tags galaxy_build_client \ | |
| playbook.yml | |
| - name: Sleep for 60 secs and check galaxyctl status | |
| run: | | |
| sudo systemctl restart nginx.service | |
| sudo galaxyctl status | |
| sudo galaxyctl graceful | |
| echo "waiting 60 sec" && sleep 60 | |
| sudo galaxyctl status | |
| - name: check Galaxy API is alive | |
| run: | | |
| curl http://127.0.0.1/api/version | |
| - name: ansible installs galaxy tools | |
| run: ansible-playbook --extra-vars RUNNER_ALLOW_RUNASROOT="1" -e ansible_user="runner" install_tools.yml | |
| - name: retrieve api key and reference it in glob env variable | |
| run: | | |
| BIOBLEND_GALAXY_API_KEY=`cat ./apikey.txt` | |
| echo "BIOBLEND_GALAXY_API_KEY=$BIOBLEND_GALAXY_API_KEY" >> $GITHUB_ENV | |
| - name: Bioblend tests | |
| run: | | |
| cd /home/runner/.local/lib/python3.8/site-packages/bioblend/_tests | |
| bioblend-galaxy-tests --color=yes -v TestGalaxyHistories.py TestGalaxyTools.py --no-summary || true | |
| # -k "not test_other_users_histories" |