[deployer exec root-homes]: wait for the pod to be ready before exec-ing into it #5839
Workflow file for this run
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| name: Deploy and test hubs | |
| on: | |
| push: | |
| branches: | |
| - main | |
| paths: | |
| # Include changes to the deployer script's folder, but exclude some parts | |
| - deployer/** | |
| - "!deployer/README.md" | |
| - "!deployer/health_check_tests/**" | |
| - "!deployer/commands/generate/billing/**" | |
| - "!deployer/commands/generate/dedicated_cluster/**" | |
| - "!deployer/commands/generate/hub_asset/**" | |
| - "!deployer/commands/generate/resource_allocation/**" | |
| - requirements.txt | |
| - .github/actions/setup-deploy/** | |
| - helm-charts/** | |
| - config/clusters/** | |
| # Exclude the template configuration files | |
| - "!config/clusters/templates/**" | |
| - "!terraform/aws/projects/template.tfvars" | |
| - "!terraform/gcp/projects/cluster.tfvars.template" | |
| - "!eksctl/template.jsonnet" | |
| pull_request: | |
| branches: | |
| - main | |
| paths: | |
| # Include changes to the deployer script's folder, but exclude some parts | |
| - deployer/** | |
| - "!deployer/README.md" | |
| - "!deployer/health_check_tests/**" | |
| - "!deployer/commands/generate/billing/**" | |
| - "!deployer/commands/generate/dedicated_cluster/**" | |
| - "!deployer/commands/generate/hub_asset/**" | |
| - "!deployer/commands/generate/resource_allocation/**" | |
| - requirements.txt | |
| - .github/actions/setup-deploy/** | |
| - helm-charts/** | |
| - config/clusters/** | |
| # Exclude the template configuration files | |
| - "!config/clusters/templates/**" | |
| - "!terraform/aws/projects/template.tfvars" | |
| - "!terraform/gcp/projects/cluster.tfvars.template" | |
| - "!eksctl/template.jsonnet" | |
| # Queue triggered executions of this workflow stemming from pushes to avoid | |
| # deployment conflicts. | |
| # | |
| # By using a different concurrency groups for pull requests and pushes, we | |
| # reduce the risk of cancelling a queued but not started workflow as discussed | |
| # in https://github.com/2i2c-org/infrastructure/issues/3214. | |
| # | |
| # github.head_ref is used to create PR unique concurrency groups, and for | |
| # workflow executions not triggered by a PR we get a dedicated group. | |
| # | |
| # ref: https://docs.github.com/en/actions/using-jobs/using-concurrency | |
| # | |
| concurrency: | |
| group: ${{ github.workflow }}-${{ github.head_ref || 'not-a-pr' }} | |
| cancel-in-progress: false | |
| # This environment variable triggers the deployer to colourise print statements in the | |
| # GitHug Actions logs for easy reading | |
| env: | |
| TERM: xterm | |
| # This may not be required any more, and it may depend on the kubectl version | |
| # we use etc as well. For now, we have it added to avoid issues. | |
| USE_GKE_GCLOUD_AUTH_PLUGIN: "True" | |
| jobs: | |
| # This job runs in Pull Requests and on pushes to the default branch. It identifies | |
| # which files have been added or modified by recent GitHub activity and parsed a list | |
| # to the `deployer generate helm-upgrade-job`s command of the deployer. This command generates | |
| # two lists of dictionaries, which can be read by GitHub Actions as matrix jobs. The | |
| # first set of jobs describes which clusters need their support chart and/or staging | |
| # hub upgraded; and the second set of jobs describe which production hubs require | |
| # upgrading. These two lists are set as job outputs via GITHUB_OUTPUT to be consumed | |
| # by the later jobs. They are also pretty-printed in a human-readable format to the | |
| # logs, and converted into Markdown tables for posting into GitHub comments. | |
| generate-jobs: | |
| runs-on: ubuntu-latest | |
| outputs: | |
| support-and-staging-matrix-jobs: ${{ steps.generate-jobs.outputs.support-and-staging-matrix-jobs }} | |
| prod-hub-matrix-jobs: ${{ steps.generate-jobs.outputs.prod-hub-matrix-jobs }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - uses: actions/setup-python@v5 | |
| with: | |
| python-version: "3.11" | |
| # There will almost never be a cache hit on the cache key when this job is | |
| # run, as it is the first of all jobs in this workflow. An exception is if | |
| # this job is re-attempted as part of the same workflow run after | |
| # succeeding previously. | |
| - name: Save pip's install cache on job completion | |
| uses: actions/cache@v4 | |
| with: | |
| path: ~/.cache/pip | |
| # key determines if we define or reuse an existing cache or not. Our | |
| # key ensure we cache within a workflow run and its attempts, but not | |
| # between workflow runs. | |
| key: "${{ github.run_id }}" | |
| - name: Install deployer script's Python dependencies | |
| run: | | |
| pip install --editable . | |
| pip list | |
| - name: Get merged/open PR labels | |
| uses: actions/github-script@v7 | |
| id: pr-labels | |
| with: | |
| # Both pull_request and push can have triggered this job to run. A | |
| # context with PR info (including its labels) is available when this | |
| # job is triggered via pull_request, but not when triggered via push - | |
| # a push can be triggered by other things than merged PRs. Due to | |
| # this, we check if a pushed commit is matching some PRs merge commit, | |
| # and if so gets its labels. | |
| script: | | |
| let labels = null; | |
| if (context.eventName === 'pull_request') { | |
| labels = context.payload.pull_request.labels; | |
| } | |
| else if (context.eventName === 'push') { | |
| // api ref: https://octokit.github.io/rest.js/v20#pulls-list | |
| const resp = await github.rest.pulls.list( | |
| { | |
| owner: context.repo.owner, | |
| repo: context.repo.repo, | |
| state: 'closed', | |
| sort: 'updated', | |
| direction: 'desc', | |
| per_page: 100, | |
| } | |
| ); | |
| const merged_pr = resp.data.find(pr => pr.merge_commit_sha === context.sha); | |
| labels = merged_pr?.labels; | |
| } | |
| label_names = (labels || []).map(l => l.name); | |
| return label_names | |
| - name: Identify files that have been added or modified | |
| # Action repo: https://github.com/dorny/paths-filter | |
| uses: dorny/paths-filter@v3 | |
| id: changed-files | |
| with: | |
| token: "" | |
| list-files: csv | |
| filters: | | |
| changed: | |
| - added|modified: deployer/** | |
| - added|modified: requirements.txt | |
| - added|modified: .github/actions/setup-deploy/** | |
| - added|modified: helm-charts/basehub/** | |
| - added|modified: helm-charts/daskhub/** | |
| - added|modified: helm-charts/support/** | |
| - added|modified: config/clusters/** | |
| # This step will create a comment-body.txt file containing the jobs to be run in a | |
| # Markdown table format to be posted on a Pull Request, if this job is triggered | |
| # by one | |
| - name: Generate matrix jobs | |
| id: generate-jobs | |
| run: | | |
| deployer generate helm-upgrade-jobs "${{ steps.changed-files.outputs.changed_files }}" '${{ steps.pr-labels.outputs.result }}' | |
| # The comment-deployment-plan-pr.yaml workflow won't have the correct context to | |
| # know the PR number, so we save it to a file to pass to that workflow | |
| - name: Save Pull Request number to a file | |
| if: github.event_name == 'pull_request' | |
| run: | | |
| echo "${{ github.event.number }}" > pr-number.txt | |
| # Upload the pr-number.txt and comment-body.txt files as artifacts for the | |
| # comment-deployment-plan-pr.yaml workflow to access | |
| - name: Upload artifacts | |
| if: > | |
| github.event_name == 'pull_request' && | |
| (steps.generate-jobs.outputs.support-and-staging-matrix-jobs != '[]' || | |
| steps.generate-jobs.outputs.prod-hub-matrix-jobs != '[]') | |
| uses: actions/upload-artifact@v4 | |
| with: | |
| name: pr | |
| path: | | |
| pr-number.txt | |
| comment-body.txt | |
| # https://github.com/ravsamhq/notify-slack-action | |
| # Needs to be added per job | |
| # When https://github.com/integrations/slack/issues/1563 gets implemented, | |
| # we can use that instead | |
| - name: Report Status | |
| if: always() | |
| uses: ravsamhq/notify-slack-action@v2 | |
| with: | |
| # Warning: there are multiple "Report Status" steps in this file (one per job). | |
| # Make sure they are all updated | |
| notify_when: "failure" | |
| status: ${{ job.status }} # required | |
| # Message should look like: "Hey @author! Deploy and test hubs failed for "Add new hub - 9305e08". | |
| message_format: '{emoji} Hey @${{ github.event.head_commit.author.name }}! *{workflow}* {status_message} for "${{ github.event.head_commit.message }} - <{commit_url}|{commit_sha}>". Checkout the run at {run_url}.' | |
| footer: "<{run_url}|Failing Run>" | |
| env: | |
| SLACK_WEBHOOK_URL: ${{ secrets.SLACK_GHA_FAILURES_WEBHOOK_URL }} | |
| # This job upgrades the support chart, staging hub, and dask-staging hub (if present) | |
| # for clusters in parallel, if those upgrades are required. This job needs the | |
| # `generate-jobs` job to have completed and set an output to the | |
| # `support-and-staging-matrix-jobs` variable name. It's inputs are a list of | |
| # dictionaries with the keys cluster_name, provider, upgrade_support, and | |
| # upgrade_staging for each cluster that requires it. | |
| upgrade-support-and-staging: | |
| runs-on: ubuntu-latest | |
| needs: [generate-jobs] | |
| # We declare outputs indicating the job failed status of a specific job | |
| # variation. We are currently required to do this in a hardcoded fashion, | |
| # see this post for feature requests for this to be improved: | |
| # https://github.community/t/bug-jobs-output-should-return-a-list-for-a-matrix-job/128626/32?u=consideratio | |
| # | |
| # Warning: names can include alphanumerics, '-', and '_', but not '.', so | |
| # we replace '.' for '-' in cluster names. | |
| # | |
| # If you are adding a new cluster, please remember to list it here! | |
| outputs: | |
| failure_2i2c-aws-us: "${{ steps.declare-failure.outputs.failure_2i2c-aws-us }}" | |
| failure_2i2c-uk: "${{ steps.declare-failure.outputs.failure_2i2c-uk }}" | |
| failure_2i2c: "${{ steps.declare-failure.outputs.failure_2i2c }}" | |
| failure_awi-ciroh: "${{ steps.declare-failure.outputs.failure_awi-ciroh }}" | |
| failure_catalystproject-africa: "${{ steps.declare-failure.outputs.failure_catalystproject-africa }}" | |
| failure_catalystproject-latam: "${{ steps.declare-failure.outputs.failure_catalystproject-latam }}" | |
| failure_cloudbank: "${{ steps.declare-failure.outputs.failure_cloudbank }}" | |
| failure_dubois: "${{ steps.declare-failure.outputs.failure_dubois }}" | |
| failure_earthscope: "${{ steps.declare-failure.outputs.failure_earthscope }}" | |
| failure_gridsst: "${{ steps.declare-failure.outputs.failure_gridsst }}" | |
| failure_hhmi: "${{ steps.declare-failure.outputs.failure_hhmi }}" | |
| failure_jupyter-health: "${{ steps.declare-failure.outputs.failure_jupyter-health }}" | |
| failure_jupyter-meets-the-earth: "${{ steps.declare-failure.outputs.failure_jupyter-meets-the-earth }}" | |
| failure_kitware: "${{ steps.declare-failure.outputs.failure_kitware }}" | |
| failure_leap: "${{ steps.declare-failure.outputs.failure_leap }}" | |
| failure_maap: "${{ steps.declare-failure.outputs.failure_maap }}" | |
| failure_nasa-cryo: "${{ steps.declare-failure.outputs.failure_nasa-cryo }}" | |
| failure_nasa-ghg: "${{ steps.declare-failure.outputs.failure_nasa-ghg }}" | |
| failure_nasa-veda: "${{ steps.declare-failure.outputs.failure_nasa-veda }}" | |
| failure_nmfs-openscapes: "${{ steps.declare-failure.outputs.failure_nmfs-openscapes }}" | |
| failure_openscapes: "${{ steps.declare-failure.outputs.failure_openscapes }}" | |
| failure_opensci: "${{ steps.declare-failure.outputs.failure_opensci }}" | |
| failure_pangeo-hubs: "${{ steps.declare-failure.outputs.failure_pangeo-hubs }}" | |
| failure_projectpythia: "${{ steps.declare-failure.outputs.failure_projectpythia }}" | |
| failure_queensu: "${{ steps.declare-failure.outputs.failure_queensu }}" | |
| failure_smithsonian: "${{ steps.declare-failure.outputs.failure_smithsonian }}" | |
| failure_strudel: "${{ steps.declare-failure.outputs.failure_strudel }}" | |
| failure_ubc-eoas: "${{ steps.declare-failure.outputs.failure_ubc-eoas }}" | |
| failure_utoronto: "${{ steps.declare-failure.outputs.failure_utoronto }}" | |
| failure_victor: "${{ steps.declare-failure.outputs.failure_victor }}" | |
| if: | | |
| (github.event_name == 'push' && contains(github.ref, 'main')) && | |
| needs.generate-jobs.result == 'success' && | |
| needs.generate-jobs.outputs.support-and-staging-matrix-jobs != '[]' | |
| strategy: | |
| # Don't stop other deployments if one fails | |
| fail-fast: false | |
| matrix: | |
| jobs: ${{ fromJson(needs.generate-jobs.outputs.support-and-staging-matrix-jobs) }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup deploy for ${{ matrix.jobs.cluster_name }} | |
| uses: ./.github/actions/setup-deploy | |
| with: | |
| provider: ${{ matrix.jobs.provider }} | |
| GCP_KMS_DECRYPTOR_KEY: ${{ secrets.GCP_KMS_DECRYPTOR_KEY }} | |
| - name: Upgrade support chart on cluster ${{ matrix.jobs.cluster_name }} | |
| if: matrix.jobs.upgrade_support | |
| run: | | |
| deployer deploy-support ${{ matrix.jobs.cluster_name }} | |
| - name: Upgrade staging hub on cluster ${{ matrix.jobs.cluster_name }} | |
| if: matrix.jobs.upgrade_staging | |
| run: | | |
| deployer deploy ${{ matrix.jobs.cluster_name }} staging | |
| # Retry action: https://github.com/marketplace/actions/retry-step | |
| - name: Run health check for staging hub on cluster ${{ matrix.jobs.cluster_name }} | |
| if: matrix.jobs.upgrade_staging | |
| uses: nick-fields/retry@v3 | |
| with: | |
| timeout_minutes: 10 | |
| max_attempts: 2 | |
| command: | | |
| deployer run-hub-health-check ${{ matrix.jobs.cluster_name }} staging | |
| - name: Upgrade dask-staging hub on cluster ${{ matrix.jobs.cluster_name }} if it exists | |
| if: matrix.jobs.upgrade_staging && matrix.jobs.cluster_name == '2i2c' | |
| run: | | |
| deployer deploy ${{ matrix.jobs.cluster_name }} dask-staging | |
| # Retry action: https://github.com/marketplace/actions/retry-step | |
| - name: Run health check for dask-staging hub on cluster ${{ matrix.jobs.cluster_name }} if it exists | |
| if: matrix.jobs.upgrade_staging && matrix.jobs.cluster_name == '2i2c' | |
| uses: nick-fields/retry@v3 | |
| with: | |
| timeout_minutes: 10 | |
| max_attempts: 2 | |
| command: | | |
| deployer run-hub-health-check ${{ matrix.jobs.cluster_name }} dask-staging | |
| - name: Declare failure status | |
| id: declare-failure | |
| if: always() | |
| shell: python | |
| run: | | |
| import os | |
| name = "${{ matrix.jobs.cluster_name }}".replace(".", "-") | |
| failure = "${{ job.status == 'failure' }}" | |
| output_file = os.getenv("GITHUB_OUTPUT") | |
| with open(output_file, "a") as f: | |
| f.write(f"failure_{name}={failure}") | |
| # https://github.com/ravsamhq/notify-slack-action | |
| # Needs to be added per job | |
| # FIXME: when https://github.com/integrations/slack/issues/1563 gets implemented, | |
| # we can use that instead | |
| - name: Report Status | |
| if: always() | |
| uses: ravsamhq/notify-slack-action@v2 | |
| # Warning: there are multiple "Report Status" steps in this file (one per job). | |
| # Make sure they are all updated | |
| with: | |
| notify_when: "failure" | |
| status: ${{ job.status }} # required | |
| # Message should look like: "Hey @author! Deploy and test hubs failed for "Add new hub - 9305e08". | |
| message_format: '{emoji} Hey @${{ github.event.head_commit.author.name }}! *{workflow}* {status_message} for "${{ github.event.head_commit.message }} - <{commit_url}|{commit_sha}>". Checkout the run at {run_url}.' | |
| footer: "<{run_url}|Failing Run>" | |
| env: | |
| SLACK_WEBHOOK_URL: ${{ secrets.SLACK_GHA_FAILURES_WEBHOOK_URL }} | |
| # This jobs reduces the initially planned prod-hub-matrix-jobs deployments by | |
| # filtering out any deployment to a cluster with a failed support-and-staging | |
| # job. | |
| filter-generate-jobs: | |
| runs-on: ubuntu-latest | |
| needs: [generate-jobs, upgrade-support-and-staging] | |
| if: | | |
| !cancelled() && | |
| (github.event_name == 'push' && contains(github.ref, 'main')) && | |
| needs.generate-jobs.result == 'success' && | |
| needs.generate-jobs.outputs.prod-hub-matrix-jobs != '[]' | |
| outputs: | |
| prod-hub-matrix-jobs: ${{ steps.filter-jobs.outputs.prod-hub-matrix-jobs }} | |
| steps: | |
| # This Python script filters out any prod hub deployment job from running | |
| # later based on if its part of a cluster where support/staging upgrade | |
| # just failed. Data is injected to the script before its executed via | |
| # string literals as rendered GitHub workflow expressions. | |
| - name: Filter prod deploy jobs to run based on failures in support/staging | |
| id: filter-jobs | |
| shell: python | |
| run: | | |
| import os | |
| import json | |
| jobs = json.loads(r"""${{ needs.generate-jobs.outputs.prod-hub-matrix-jobs }}""") | |
| outputs = json.loads(r"""${{ toJson(needs.upgrade-support-and-staging.outputs) }}""") | |
| try: | |
| filtered_jobs = [ | |
| job | |
| for job in jobs | |
| if outputs[f"failure_{job['cluster_name'].replace('.', '-')}"] != "true" | |
| ] | |
| except KeyError: | |
| print(f"The {cluster_name} cluster wasn't found in the `upgrade-support-and-staging.outputs` list. Please add it before continuing!") | |
| output_file = os.getenv("GITHUB_OUTPUT") | |
| with open(output_file, "a") as f: | |
| f.write(f"prod-hub-matrix-jobs={json.dumps(filtered_jobs)}") | |
| # https://github.com/ravsamhq/notify-slack-action | |
| # Needs to be added per job | |
| # When https://github.com/integrations/slack/issues/1563 gets implemented, | |
| # we can use that instead | |
| - name: Report Status | |
| if: always() | |
| uses: ravsamhq/notify-slack-action@v2 | |
| with: | |
| # Warning: there are multiple "Report Status" steps in this file (one per job). | |
| # Make sure they are all updated | |
| notify_when: "failure" | |
| status: ${{ job.status }} # required | |
| # Message should look like: "Hey @author! Deploy and test hubs failed for "Add new hub - 9305e08". | |
| message_format: '{emoji} Hey @${{ github.event.head_commit.author.name }}! *{workflow}* {status_message} for "${{ github.event.head_commit.message }} - <{commit_url}|{commit_sha}>". Checkout the run at {run_url}.' | |
| footer: "<{run_url}|Failing Run>" | |
| env: | |
| SLACK_WEBHOOK_URL: ${{ secrets.SLACK_GHA_FAILURES_WEBHOOK_URL }} | |
| # This job upgrades production hubs on clusters in parallel, if required. This | |
| # job needs both the `filter-generate-jobs` to have completed to provide its | |
| # output `filtered-prod-hub-matrix-jobs`. It is a list of dictionaries with | |
| # the keys cluster_name, provider, and hub_name for each production hub that | |
| # requires an upgrade and didn't have a failed support-and-staging-upgrade job | |
| # run as part of this workflow. | |
| upgrade-prod-hubs: | |
| runs-on: ubuntu-latest | |
| needs: [filter-generate-jobs] | |
| if: | | |
| !cancelled() && | |
| (github.event_name == 'push' && contains(github.ref, 'main')) && | |
| needs.filter-generate-jobs.result == 'success' && | |
| needs.filter-generate-jobs.outputs.prod-hub-matrix-jobs != '[]' | |
| strategy: | |
| # Don't stop other deployments if one fails | |
| fail-fast: false | |
| matrix: | |
| jobs: ${{ fromJson(needs.filter-generate-jobs.outputs.prod-hub-matrix-jobs) }} | |
| steps: | |
| - uses: actions/checkout@v4 | |
| - name: Setup deploy for ${{ matrix.jobs.cluster_name }} cluster | |
| uses: ./.github/actions/setup-deploy | |
| with: | |
| provider: ${{ matrix.jobs.provider }} | |
| GCP_KMS_DECRYPTOR_KEY: ${{ secrets.GCP_KMS_DECRYPTOR_KEY }} | |
| - name: Upgrade ${{ matrix.jobs.hub_name }} hub on cluster ${{ matrix.jobs.cluster_name }} | |
| run: | | |
| deployer deploy ${{ matrix.jobs.cluster_name }} ${{ matrix.jobs.hub_name }} | |
| # Retry action: https://github.com/marketplace/actions/retry-step | |
| - name: Run health check against ${{ matrix.jobs.hub_name }} hub on cluster ${{ matrix.jobs.cluster_name}} | |
| uses: nick-fields/retry@v3 | |
| with: | |
| timeout_minutes: 10 | |
| max_attempts: 3 | |
| command: | | |
| deployer run-hub-health-check ${{ matrix.jobs.cluster_name }} ${{ matrix.jobs.hub_name }} | |
| # https://github.com/ravsamhq/notify-slack-action | |
| # Needs to be added per job | |
| # When https://github.com/integrations/slack/issues/1563 gets implemented, | |
| # we can use that instead | |
| - name: Report Status | |
| if: always() | |
| uses: ravsamhq/notify-slack-action@v2 | |
| with: | |
| # Warning: there are multiple "Report Status" steps in this file (one per job). | |
| # Make sure they are all updated | |
| notify_when: "failure" | |
| status: ${{ job.status }} # required | |
| # Message should look like: "Hey @author! Deploy and test hubs failed for "Add new hub - 9305e08". | |
| message_format: '{emoji} Hey @${{ github.event.head_commit.author.name }}! *{workflow}* {status_message} for "${{ github.event.head_commit.message }} - <{commit_url}|{commit_sha}>". Checkout the run at {run_url}.' | |
| footer: "<{run_url}|Failing Run>" | |
| env: | |
| SLACK_WEBHOOK_URL: ${{ secrets.SLACK_GHA_FAILURES_WEBHOOK_URL }} |