Improve typing of resolveFunction

Add Copilot instructions for FFs, and update documentation more generally

.github/copilot-instructions.md

@@ -11,9 +11,12 @@ The CodeQL Action is used in GitHub Actions workflows to run CodeQL scans using
 
 ## Review instructions
 
-- When wording review comments, be helpful and friendly. Assume that the PR author has written the code with the best of intentions. Word your comments constructively as suggestions for improvements. Do not word suggestions as commands.
+- Prioritise identifying critical issues, such as logic bugs, over comments on documentation or typos.
+- When wording review comments, be helpful and friendly. Assume that the PR author has written the code with the best of intentions. Never word suggestions as commands or using the imperative. Examples of what you should never write: "Preserve that non-fatal behaviour here" or "Please preserve that non-fatal behaviour here".
+- When writing feedback, assume that the PR author is competent and is able to understand whether the point you are making is valid or not, why you are raising it, and how to best address it. While you can suggest how to address a point you are making, don't phrase it as a requirement or assume that it is the only solution.
+- Always word your comments constructively as suggestions for improvements, for example: "It would make sense to ..." or "Could you add ...?" or "Would it make sense to ...?"
 - If you want to comment on a change that you believe will fail a CI check, do not present the CI failure you expect as a fact. Instead, write that you think a change "may" lead to a failure in CI. Suggest that, if such a failure manifests, the changes you are commenting on may be the place responsible for the failure and are worth looking at.
-- If a suggestion you make is suitable for a follow-up, such as a refactoring that doesn't change the behaviour or fixing a typo in a comment, mention that it can be addressed in a later PR rather than blocking this one.
+- If a suggestion you make is suitable for a follow-up, such as a refactoring that doesn't change the behaviour or fixing a typo in a comment, mention that it can be addressed in a later PR rather than blocking this one or prefix your comment with "Minor: ".
 - If a change is a net improvement, for example because it improves on an existing limitation of existing code, do not complain about pre-existing problems that remain. You may comment on them, but you should make it clear that the thing you are commenting on is not new by writing e.g. "Not new in this PR, but [..]" followed by your description of the issue and a suggestion that it could be improved at the same time with e.g. "Consider whether this is worth addressing as part of this PR as well."
 
 ## Generated code
@@ -22,6 +25,16 @@ The main codebase of the CodeQL Action is written in TypeScript and compiled to
 
 GitHub Actions workflows in the `.github/workflows` directory whose filenames start with two underscores (e.g. `__all-platform-bundle.yml`) are automatically generated using the `pr-checks/sync.sh` script from template files in the `pr-checks/checks` directory. Therefore, you do not need to review files in the `.github/workflows` directory that start with two underscores. However, you should review changes to the `pr-checks` directory as well as workflows in the `.github/workflows` directory that do not start with underscores.
 
+## Feature flags
+
+Some functionality in the code may be gated behind feature flags, which are controlled server-side. If the functionality that is gated behind them is user-facing, then this should be documented in a change note at the time that the gated functionality is added. See `CHANGELOG.md` for existing notes that mention "experimental" for examples. These typically include information about when users may expect to see the feature rolled out.
+
+When a feature flag that gates some functionality is removed, this does not need to be documented in a change note since the feature is already rolled out and the notes for the release which introduced the feature already describe it. The only exception is functionality which will start having an effect on GHES as a result of the feature flag removal:
+
+- Most functionality gated behind feature flags does not affect GHES.
+- We can make functionality available on GHES by setting `defaultValue` to `true` first and waiting for this to have had an effect on GHES. No change note is needed if a feature flag is removed where `defaultValue` was `true`.
+- When removing a feature flag where `defaultValue` was `false` and the functionality starts to affect GHES, a change note may be appropriate.
+
 ## Release process
 
 Changes that are merged to the `main` branch are not used in production straight away. Instead, changes from `main` must first be released using the release process, which has to be manually triggered by a staff member. Therefore, it is possible for further changes to be made to the code after some changes have been merged to `main` but before they are released. Once the release process automation is started, a series of PRs are automatically generated:

.github/workflows/__all-platform-bundle.yml

@@ -0,0 +1,99 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - All-platform bundle
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: all-platform-bundle-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  all-platform-bundle:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest-xlarge
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
+    name: All-platform bundle
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'true'
+          setup-kotlin: 'true'
+      - id: init
+        uses: ./../action/init
+        with:
+          # Swift is not supported on Ubuntu so we manually exclude it from the list here
+          languages: cpp,csharp,go,java,javascript,python,ruby
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__analysis-kinds.yml

@@ -0,0 +1,147 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Analysis kinds
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: analysis-kinds-${{github.ref}}
+jobs:
+  analysis-kinds:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+            analysis-kinds: code-scanning
+          - os: ubuntu-latest
+            version: linked
+            analysis-kinds: code-quality
+          - os: ubuntu-latest
+            version: linked
+            analysis-kinds: code-scanning,code-quality
+          - os: ubuntu-latest
+            version: linked
+            analysis-kinds: risk-assessment
+          - os: ubuntu-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning
+          - os: ubuntu-latest
+            version: nightly-latest
+            analysis-kinds: code-quality
+          - os: ubuntu-latest
+            version: nightly-latest
+            analysis-kinds: code-scanning,code-quality
+          - os: ubuntu-latest
+            version: nightly-latest
+            analysis-kinds: risk-assessment
+    name: Analysis kinds
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          analysis-kinds: ${{ matrix.analysis-kinds }}
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+          post-processed-sarif-path: '${{ runner.temp }}/post-processed'
+
+      - name: Upload SARIF files
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: |
+            analysis-kinds-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}
+          path: '${{ runner.temp }}/results/*.sarif'
+          retention-days: 7
+
+      - name: Upload post-processed SARIF
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: |
+            post-processed-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}
+          path: '${{ runner.temp }}/post-processed'
+          retention-days: 7
+          if-no-files-found: error
+
+      - name: Check quality query does not appear in security SARIF
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/javascript.sarif'
+          EXPECT_PRESENT: 'false'
+        with:
+          script: ${{ env.CHECK_SCRIPT }}
+      - name: Check quality query appears in quality SARIF
+        if: contains(matrix.analysis-kinds, 'code-quality')
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/javascript.quality.sarif'
+          EXPECT_PRESENT: 'true'
+        with:
+          script: ${{ env.CHECK_SCRIPT }}
+    env:
+      CODEQL_ACTION_RISK_ASSESSMENT_ID: 1
+      CHECK_SCRIPT: |
+        const fs = require('fs');
+
+        const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+        const expectPresent = JSON.parse(process.env['EXPECT_PRESENT']);
+        const run = sarif.runs[0];
+        const extensions = run.tool.extensions;
+
+        if (extensions === undefined) {
+          core.setFailed('`extensions` property not found in the SARIF run property bag.');
+        }
+
+        // ID of a query we want to check the presence for
+        const targetId = 'js/regex/always-matches';
+        const found = extensions.find(extension => extension.rules && extension.rules.find(rule => rule.id === targetId));
+
+        if (found && expectPresent) {
+          console.log(`Found rule with id '${targetId}'.`);
+        } else if (!found && !expectPresent) {
+          console.log(`Rule with id '${targetId}' was not found.`);
+        } else {
+          core.setFailed(`${ found ? "Found" : "Didn't find" } rule ${targetId}`);
+        }
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__analyze-ref-input.yml

@@ -0,0 +1,97 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: "PR Check - Analyze: 'ref' and 'sha' from inputs"
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: analyze-ref-input-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  analyze-ref-input:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: "Analyze: 'ref' and 'sha' from inputs"
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: cpp,csharp,java,javascript,python
+          config-file: ${{ github.repository }}/tests/multi-language-repo/.github/codeql/custom-queries.yml@${{ github.sha }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__autobuild-action.yml

@@ -0,0 +1,96 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - autobuild-action
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: autobuild-action-${{github.ref}}-${{inputs.dotnet-version}}
+jobs:
+  autobuild-action:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+    name: autobuild-action
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: csharp
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        env:
+          # Explicitly disable the CLR tracer.
+          COR_ENABLE_PROFILING: ''
+          COR_PROFILER: ''
+          COR_PROFILER_PATH_64: ''
+          CORECLR_ENABLE_PROFILING: ''
+          CORECLR_PROFILER: ''
+          CORECLR_PROFILER_PATH_64: ''
+      - uses: ./../action/analyze
+      - name: Check database
+        run: |
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d csharp ]]; then
+            echo "Did not find a C# database"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__autobuild-direct-tracing-with-working-dir.yml

@@ -0,0 +1,101 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Autobuild direct tracing (custom working directory)
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      java-version:
+        type: string
+        description: The version of Java to install
+        required: false
+        default: '17'
+  workflow_call:
+    inputs:
+      java-version:
+        type: string
+        description: The version of Java to install
+        required: false
+        default: '17'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: autobuild-direct-tracing-with-working-dir-${{github.ref}}-${{inputs.java-version}}
+jobs:
+  autobuild-direct-tracing-with-working-dir:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
+    name: Autobuild direct tracing (custom working directory)
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Java
+        uses: actions/setup-java@de7274f081f381c8f8158605e0321c36c376e2e6 # v6.0.1
+        with:
+          java-version: ${{ inputs.java-version || '17' }}
+          distribution: temurin
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Test setup
+        run: |
+          # Make sure that Gradle build succeeds in autobuild-dir ...
+          cp -a ../action/tests/java-repo autobuild-dir
+          # ... and fails if attempted in the current directory
+          echo > build.gradle
+      - uses: ./../action/init
+        with:
+          build-mode: autobuild
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check that indirect tracing is disabled
+        run: |
+          if [[ ! -z "${CODEQL_RUNNER}" ]]; then
+            echo "Expected indirect tracing to be disabled, but the" \
+              "CODEQL_RUNNER environment variable is set."
+            exit 1
+          fi
+      - uses: ./../action/autobuild
+        with:
+          working-directory: autobuild-dir
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_AUTOBUILD_BUILD_MODE_DIRECT_TRACING: true
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__autobuild-working-dir.yml

@@ -0,0 +1,78 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Autobuild working directory
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: autobuild-working-dir-${{github.ref}}
+jobs:
+  autobuild-working-dir:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Autobuild working directory
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Test setup
+        run: |
+          # Make sure that Gradle build succeeds in autobuild-dir ...
+          cp -a ../action/tests/java-repo autobuild-dir
+          # ... and fails if attempted in the current directory
+          echo > build.gradle
+      - uses: ./../action/init
+        with:
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        with:
+          working-directory: autobuild-dir
+      - uses: ./../action/analyze
+      - name: Check database
+        run: |
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d java ]]; then
+            echo "Did not find a Java database"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__build-mode-autobuild.yml

@@ -0,0 +1,118 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Build mode autobuild
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      java-version:
+        type: string
+        description: The version of Java to install
+        required: false
+        default: '17'
+  workflow_call:
+    inputs:
+      java-version:
+        type: string
+        description: The version of Java to install
+        required: false
+        default: '17'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: build-mode-autobuild-${{github.ref}}-${{inputs.java-version}}
+jobs:
+  build-mode-autobuild:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
+    name: Build mode autobuild
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Java
+        uses: actions/setup-java@de7274f081f381c8f8158605e0321c36c376e2e6 # v6.0.1
+        with:
+          java-version: ${{ inputs.java-version || '17' }}
+          distribution: temurin
+      - name: Install yq
+        if: runner.os == 'Windows'
+        env:
+          YQ_PATH: ${{ runner.temp }}/yq
+          YQ_VERSION: v4.50.1
+        run: |-
+          gh release download --repo mikefarah/yq --pattern "yq_windows_amd64.exe" "$YQ_VERSION" -O "$YQ_PATH/yq.exe"
+          echo "$YQ_PATH" >> "$GITHUB_PATH"
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Set up Java test repo configuration
+        run: |
+          mv * .github ../action/tests/multi-language-repo/
+          mv ../action/tests/multi-language-repo/.github/workflows .github
+          mv ../action/tests/java-repo/* .
+
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: autobuild
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Validate database build mode
+        run: |
+          metadata_path="$RUNNER_TEMP/customDbLocation/java/codeql-database.yml"
+          build_mode=$(yq eval '.buildMode' "$metadata_path")
+          if [[ "$build_mode" != "autobuild" ]]; then
+            echo "Expected build mode to be 'autobuild' but was $build_mode"
+            exit 1
+          fi
+
+      - name: Check that indirect tracing is disabled
+        run: |
+          if [[ ! -z "${CODEQL_RUNNER}" ]]; then
+            echo "Expected indirect tracing to be disabled, but the" \
+              "CODEQL_RUNNER environment variable is set."
+            exit 1
+          fi
+
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__build-mode-manual.yml

@@ -0,0 +1,107 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Build mode manual
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: build-mode-manual-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  build-mode-manual:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Build mode manual
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: manual
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Validate database build mode
+        run: |
+          metadata_path="$RUNNER_TEMP/customDbLocation/java/codeql-database.yml"
+          build_mode=$(yq eval '.buildMode' "$metadata_path")
+          if [[ "$build_mode" != "manual" ]]; then
+            echo "Expected build mode to be 'manual' but was $build_mode"
+            exit 1
+          fi
+
+      - name: Build code
+        run: ./build.sh
+
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__build-mode-none.yml

@@ -0,0 +1,81 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Build mode none
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: build-mode-none-${{github.ref}}
+jobs:
+  build-mode-none:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Build mode none
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: none
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Validate database build mode
+        run: |
+          metadata_path="$RUNNER_TEMP/customDbLocation/java/codeql-database.yml"
+          build_mode=$(yq eval '.buildMode' "$metadata_path")
+          if [[ "$build_mode" != "none" ]]; then
+            echo "Expected build mode to be 'none' but was $build_mode"
+            exit 1
+          fi
+
+      # The latest nightly supports omitting the autobuild Action when the build mode is specified.
+      - uses: ./../action/autobuild
+        if: matrix.version != 'nightly-latest'
+
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__build-mode-rollback.yml

@@ -0,0 +1,82 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Build mode rollback
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: build-mode-rollback-${{github.ref}}
+jobs:
+  build-mode-rollback:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Build mode rollback
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Set up Java test repo configuration
+        run: |
+          mv * .github ../action/tests/multi-language-repo/
+          mv ../action/tests/multi-language-repo/.github/workflows .github
+          mv ../action/tests/java-repo/* .
+
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: none
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Validate database build mode
+        run: |
+          metadata_path="$RUNNER_TEMP/customDbLocation/java/codeql-database.yml"
+          build_mode=$(yq eval '.buildMode' "$metadata_path")
+          if [[ "$build_mode" != "autobuild" ]]; then
+            echo "Expected build mode to be 'autobuild' but was $build_mode"
+            exit 1
+          fi
+
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_DISABLE_JAVA_BUILDLESS: true
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__bundle-from-nightly.yml

@@ -0,0 +1,67 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Bundle: From nightly'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: bundle-from-nightly-${{github.ref}}
+jobs:
+  bundle-from-nightly:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: 'Bundle: From nightly'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - id: init
+        uses: ./../action/init
+        env:
+          CODEQL_ACTION_FORCE_NIGHTLY: true
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: javascript
+      - name: Fail if the CodeQL version is not a nightly
+        if: ${{ !contains(steps.init.outputs.codeql-version, '+') }}
+        run: exit 1
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__bundle-from-toolcache.yml

@@ -0,0 +1,83 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Bundle: From toolcache'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: bundle-from-toolcache-${{github.ref}}
+jobs:
+  bundle-from-toolcache:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: toolcache
+    name: 'Bundle: From toolcache'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Install @actions/tool-cache
+        run: npm install @actions/tool-cache@3
+      - name: Check toolcache contains CodeQL
+        continue-on-error: true
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        with:
+          script: |
+            const toolcache = require('@actions/tool-cache');
+            const allCodeqlVersions = toolcache.findAllVersions('CodeQL');
+            if (allCodeqlVersions.length === 0) {
+              throw new Error(`CodeQL could not be found in the toolcache`);
+            }
+      - id: setup-codeql
+        uses: ./../action/setup-codeql
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check CodeQL is installed within the toolcache
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        with:
+          script: |
+            const toolcache = require('@actions/tool-cache');
+            const allCodeqlVersions = toolcache.findAllVersions('CodeQL');
+            console.log(`Found CodeQL versions: ${allCodeqlVersions}`);
+            if (allCodeqlVersions.length === 0) {
+              throw new Error('CodeQL not found in toolcache');
+            }
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__bundle-toolcache.yml

@@ -0,0 +1,104 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Bundle: Caching checks'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: bundle-toolcache-${{github.ref}}
+jobs:
+  bundle-toolcache:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+    name: 'Bundle: Caching checks'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Remove CodeQL from toolcache
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        with:
+          script: |
+            const fs = require('fs');
+            const path = require('path');
+            const codeqlPath = path.join(process.env['RUNNER_TOOL_CACHE'], 'CodeQL');
+            fs.rmdirSync(codeqlPath, { recursive: true });
+      - name: Install @actions/tool-cache
+        run: npm install @actions/tool-cache@3
+      - name: Check toolcache does not contain CodeQL
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        with:
+          script: |
+            const toolcache = require('@actions/tool-cache');
+            const allCodeqlVersions = toolcache.findAllVersions('CodeQL');
+            if (allCodeqlVersions.length !== 0) {
+              throw new Error(`CodeQL should not be found in the toolcache, but found ${allCodeqlVersions}`);
+            }
+            console.log('No versions of CodeQL found in the toolcache');
+      - id: init
+        uses: ./../action/init
+        with:
+          # Request multiple languages so this check uses the combined bundle.
+          languages: javascript,python
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          output: ${{ runner.temp }}/results
+          upload-database: false
+      - name: Check CodeQL is installed within the toolcache
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        with:
+          script: |
+            const toolcache = require('@actions/tool-cache');
+            const allCodeqlVersions = toolcache.findAllVersions('CodeQL');
+            console.log(`Found CodeQL versions: ${allCodeqlVersions}`);
+            if (allCodeqlVersions.length === 0) {
+              throw new Error('CodeQL not found in toolcache');
+            }
+            if (allCodeqlVersions.length > 1) {
+              throw new Error('Multiple CodeQL versions found in toolcache');
+            }
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__cleanup-db-cluster-dir.yml

@@ -0,0 +1,77 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Clean up database cluster directory
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: cleanup-db-cluster-dir-${{github.ref}}
+jobs:
+  cleanup-db-cluster-dir:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Clean up database cluster directory
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Add a file to the database cluster directory
+        run: |
+          mkdir -p "${{ runner.temp }}/customDbLocation/javascript"
+          touch "${{ runner.temp }}/customDbLocation/javascript/a-file-to-clean-up.txt"
+
+      - uses: ./../action/init
+        id: init
+        with:
+          build-mode: none
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Validate file cleaned up
+        run: |
+          if [[ -f "${{ runner.temp }}/customDbLocation/javascript/a-file-to-clean-up.txt" ]]; then
+            echo "File was not cleaned up"
+            exit 1
+          fi
+          echo "File was cleaned up"
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__config-export.yml

@@ -0,0 +1,100 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Config export
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: config-export-${{github.ref}}
+jobs:
+  config-export:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Config export
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          queries: security-extended
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+      - name: Upload SARIF
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: config-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
+          path: '${{ runner.temp }}/results/javascript.sarif'
+          retention-days: 7
+      - name: Check config properties appear in SARIF
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/javascript.sarif'
+        with:
+          script: |
+            const fs = require('fs');
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+            const configSummary = run.properties.codeqlConfigSummary;
+
+            if (configSummary === undefined) {
+              core.setFailed('`codeqlConfigSummary` property not found in the SARIF run property bag.');
+            }
+            if (configSummary.disableDefaultQueries !== false) {
+              core.setFailed('`disableDefaultQueries` property incorrect: expected false, got ' +
+                `${JSON.stringify(configSummary.disableDefaultQueries)}.`);
+            }
+            const expectedQueries = [{ type: 'builtinSuite', uses: 'security-extended' }];
+            // Use JSON.stringify to deep-equal the arrays.
+            if (JSON.stringify(configSummary.queries) !== JSON.stringify(expectedQueries)) {
+              core.setFailed(`\`queries\` property incorrect: expected ${JSON.stringify(expectedQueries)}, got ` +
+                `${JSON.stringify(configSummary.queries)}.`);
+            }
+            core.info('Finished config export tests.');
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__config-input.yml

@@ -0,0 +1,94 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Config input
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: config-input-${{github.ref}}
+jobs:
+  config-input:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Config input
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Node.js
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
+        with:
+          node-version: 20.x
+          cache: npm
+      - name: Install newer npm
+        run: npm install -g npm@11.19.1
+      - name: Install dependencies
+        run: npm ci
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Copy queries into workspace
+        run: |
+          cp -a ../action/queries .
+
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: javascript
+          build-mode: none
+          config: |
+            disable-default-queries: true
+            queries:
+              - name: Run custom query
+                uses: ./queries/default-setup-environment-variables.ql
+            paths-ignore:
+              - tests
+              - lib
+
+      - uses: ./../action/analyze
+        with:
+          output: ${{ runner.temp }}/results
+
+      - name: Check SARIF
+        uses: ./../action/.github/actions/check-sarif
+        with:
+          sarif-file: ${{ runner.temp }}/results/javascript.sarif
+          queries-run: javascript/codeql-action/default-setup-env-vars
+          queries-not-run: javascript/codeql-action/default-setup-context-properties
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__cpp-deptrace-disabled.yml

@@ -0,0 +1,79 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - C/C++: disabling autoinstalling dependencies (Linux)'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: cpp-deptrace-disabled-${{github.ref}}
+jobs:
+  cpp-deptrace-disabled:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'C/C++: disabling autoinstalling dependencies (Linux)'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Test setup
+        run: |
+          cp -a ../action/tests/cpp-autobuild autobuild-dir
+      - uses: ./../action/init
+        with:
+          languages: cpp
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        with:
+          working-directory: autobuild-dir
+        env:
+          CODEQL_EXTRACTOR_CPP_AUTOINSTALL_DEPENDENCIES: false
+      - run: |
+          if ls /usr/bin/errno; then
+            echo "C/C++ autobuild installed errno, but it should not have since auto-install dependencies is disabled."
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__cpp-deptrace-enabled-on-macos.yml

@@ -0,0 +1,79 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - C/C++: autoinstalling dependencies is skipped (macOS)'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: cpp-deptrace-enabled-on-macos-${{github.ref}}
+jobs:
+  cpp-deptrace-enabled-on-macos:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest
+            version: linked
+          - os: macos-latest
+            version: nightly-latest
+    name: 'C/C++: autoinstalling dependencies is skipped (macOS)'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Test setup
+        run: |
+          cp -a ../action/tests/cpp-autobuild autobuild-dir
+      - uses: ./../action/init
+        with:
+          languages: cpp
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        with:
+          working-directory: autobuild-dir
+        env:
+          CODEQL_EXTRACTOR_CPP_AUTOINSTALL_DEPENDENCIES: true
+      - run: |
+          if ! ls /usr/bin/errno; then
+            echo "As expected, CODEQL_EXTRACTOR_CPP_AUTOINSTALL_DEPENDENCIES is a no-op on macOS"
+          else
+            echo "CODEQL_EXTRACTOR_CPP_AUTOINSTALL_DEPENDENCIES should not have had any effect on macOS"
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__cpp-deptrace-enabled.yml

@@ -0,0 +1,79 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - C/C++: autoinstalling dependencies (Linux)'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: cpp-deptrace-enabled-${{github.ref}}
+jobs:
+  cpp-deptrace-enabled:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'C/C++: autoinstalling dependencies (Linux)'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Test setup
+        run: |
+          cp -a ../action/tests/cpp-autobuild autobuild-dir
+      - uses: ./../action/init
+        with:
+          languages: cpp
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+        with:
+          working-directory: autobuild-dir
+        env:
+          CODEQL_EXTRACTOR_CPP_AUTOINSTALL_DEPENDENCIES: true
+      - run: |
+          if ! ls /usr/bin/errno; then
+            echo "Did not autoinstall errno"
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__diagnostics-export.yml

@@ -0,0 +1,136 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Diagnostic export
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: diagnostics-export-${{github.ref}}
+jobs:
+  diagnostics-export:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Diagnostic export
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Add test diagnostics
+        env:
+          CODEQL_PATH: ${{ steps.init.outputs.codeql-path }}
+        run: |
+          "$CODEQL_PATH" database add-diagnostic \
+            "$RUNNER_TEMP/codeql_databases/javascript" \
+            --file-path /path/to/file \
+            --plaintext-message "Plaintext message" \
+            --source-id "lang/diagnostics/example" \
+            --source-name "Diagnostic name" \
+            --ready-for-status-page
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+      - name: Upload SARIF
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: diagnostics-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
+          path: '${{ runner.temp }}/results/javascript.sarif'
+          retention-days: 7
+      - name: Check diagnostics appear in SARIF
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/javascript.sarif'
+        with:
+          script: |
+            const fs = require('fs');
+
+            function checkStatusPageNotification(n) {
+              const expectedMessage = 'Plaintext message';
+              if (n.message.text !== expectedMessage) {
+                core.setFailed(`Expected the status page diagnostic to have the message '${expectedMessage}', but found '${n.message.text}'.`);
+              }
+              if (n.locations.length !== 1) {
+                core.setFailed(`Expected the status page diagnostic to have exactly 1 location, but found ${n.locations.length}.`);
+              }
+            }
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+
+            const toolExecutionNotifications = run.invocations[0].toolExecutionNotifications;
+            const statusPageNotifications = toolExecutionNotifications.filter(n =>
+              n.descriptor.id === 'lang/diagnostics/example' && n.properties?.visibility?.statusPage
+            );
+            if (statusPageNotifications.length !== 1) {
+              core.setFailed(
+                'Expected exactly one status page reporting descriptor for this diagnostic in the ' +
+                  `'runs[].invocations[].toolExecutionNotifications[]' SARIF property, but found ` +
+                  `${statusPageNotifications.length}. All notification reporting descriptors: ` +
+                  `${JSON.stringify(toolExecutionNotifications)}.`
+              );
+            }
+            checkStatusPageNotification(statusPageNotifications[0]);
+
+            const notifications = run.tool.driver.notifications;
+            const diagnosticNotification = notifications.filter(n =>
+              n.id === 'lang/diagnostics/example' && n.name === 'lang/diagnostics/example' &&
+                n.fullDescription.text === 'Diagnostic name'
+            );
+            if (diagnosticNotification.length !== 1) {
+              core.setFailed(
+                'Expected exactly one notification for this diagnostic in the ' +
+                  `'runs[].tool.driver.notifications[]' SARIF property, but found ` +
+                  `${diagnosticNotification.length}. All notifications: ` +
+                  `${JSON.stringify(notifications)}.`
+              );
+            }
+
+            core.info('Finished diagnostic export test');
+    env:
+      CODEQL_ACTION_EXPORT_DIAGNOSTICS: true
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__export-file-baseline-information.yml

@@ -0,0 +1,128 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Export file baseline information
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: export-file-baseline-information-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  export-file-baseline-information:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+          - os: windows-latest
+            version: nightly-latest
+    name: Export file baseline information
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+      - name: Upload SARIF
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: with-baseline-information-${{ matrix.os }}-${{ matrix.version }}.sarif.json
+          path: '${{ runner.temp }}/results/javascript.sarif'
+          retention-days: 7
+      - name: Check results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          expected_baseline_languages="c csharp go java kotlin javascript python ruby"
+          if [[ $RUNNER_OS == "macOS" ]]; then
+            expected_baseline_languages+=" swift"
+          fi
+
+          for lang in ${expected_baseline_languages}; do
+            rule_name="cli/expected-extracted-files/${lang}"
+            found_notification=$(jq --arg rule_name "${rule_name}" '[.runs[0].tool.driver.notifications |
+              select(. != null) | flatten | .[].id] | any(. == $rule_name)' javascript.sarif)
+            if [[ "${found_notification}" != "true" ]]; then
+              echo "Expected SARIF output to contain notification '${rule_name}', but found no such notification."
+              exit 1
+            else
+              echo "Found notification '${rule_name}'."
+            fi
+          done
+    env:
+      CODEQL_ACTION_SKIP_FILE_COVERAGE_ON_PRS: false
+      CODEQL_ACTION_SUBLANGUAGE_FILE_COVERAGE: true
+      CODEQL_ACTION_PER_LANGUAGE_BUNDLES: false
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__extractor-ram-threads.yml

@@ -0,0 +1,80 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Extractor ram and threads options test
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: extractor-ram-threads-${{github.ref}}
+jobs:
+  extractor-ram-threads:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Extractor ram and threads options test
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: java
+          ram: 230
+          threads: 1
+      - name: Assert Results
+        run: |
+          if [ "${CODEQL_RAM}" != "230" ]; then
+            echo "CODEQL_RAM is '${CODEQL_RAM}' instead of 230"
+            exit 1
+          fi
+          if [ "${CODEQL_EXTRACTOR_JAVA_RAM}" != "230" ]; then
+            echo "CODEQL_EXTRACTOR_JAVA_RAM is '${CODEQL_EXTRACTOR_JAVA_RAM}' instead of 230"
+            exit 1
+          fi
+          if [ "${CODEQL_THREADS}" != "1" ]; then
+            echo "CODEQL_THREADS is '${CODEQL_THREADS}' instead of 1"
+            exit 1
+          fi
+          if [ "${CODEQL_EXTRACTOR_JAVA_THREADS}" != "1" ]; then
+            echo "CODEQL_EXTRACTOR_JAVA_THREADS is '${CODEQL_EXTRACTOR_JAVA_THREADS}' instead of 1"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__global-proxy.yml

@@ -0,0 +1,101 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Proxy test
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: global-proxy-${{github.ref}}
+jobs:
+  global-proxy:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Proxy test
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'false'
+      - name: Block direct internet access to force proxy usage
+        run: |
+          apt-get update -qq && apt-get install -y -qq iptables >/dev/null 2>&1
+          PROXY_IP=$(getent hosts squid-proxy | awk '{ print $1 }')
+          echo "Squid proxy IP: $PROXY_IP"
+          # Allow all traffic to the proxy container
+          iptables -A OUTPUT -d "$PROXY_IP" -j ACCEPT
+          # Allow DNS resolution
+          iptables -A OUTPUT -p udp --dport 53 -j ACCEPT
+          iptables -A OUTPUT -p tcp --dport 53 -j ACCEPT
+          # Allow loopback
+          iptables -A OUTPUT -o lo -j ACCEPT
+          # Allow already-established connections (from checkout/prepare-test)
+          iptables -A OUTPUT -m conntrack --ctstate ESTABLISHED,RELATED -j ACCEPT
+          # Block all other outbound HTTP and HTTPS, ensuring direct access fails
+          iptables -A OUTPUT -p tcp --dport 80 -j REJECT --reject-with tcp-reset
+          iptables -A OUTPUT -p tcp --dport 443 -j REJECT --reject-with tcp-reset
+          echo "Direct HTTP/HTTPS access is now blocked - all traffic must go through the proxy"
+
+      - name: Set proxy environment variables
+        shell: bash
+        run: |
+          echo "http_proxy=http://squid-proxy:3128" >> $GITHUB_ENV
+          echo "HTTP_PROXY=http://squid-proxy:3128" >> $GITHUB_ENV
+          echo "https_proxy=http://squid-proxy:3128" >> $GITHUB_ENV
+          echo "HTTPS_PROXY=http://squid-proxy:3128" >> $GITHUB_ENV
+
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TOLERATE_MISSING_GIT_VERSION: true
+      CODEQL_ACTION_TEST_MODE: true
+    container:
+      image: ubuntu:22.04
+      options: --cap-add=NET_ADMIN
+    services:
+      squid-proxy:
+        image: ubuntu/squid:latest
+        ports:
+          - 3128:3128

.github/workflows/__go-custom-queries.yml

@@ -0,0 +1,97 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: Custom queries'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-custom-queries-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  go-custom-queries:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Go: Custom queries'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          config-file: ./.github/codeql/custom-queries.yml
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-indirect-tracing-workaround-diagnostic.yml

@@ -0,0 +1,109 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: diagnostic when Go is changed after init step'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-indirect-tracing-workaround-diagnostic-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-indirect-tracing-workaround-diagnostic:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: 'Go: diagnostic when Go is changed after init step'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      # Deliberately change Go after the `init` step
+      - uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: '1.20'
+      - name: Build code
+        run: go build main.go
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+      - name: Check diagnostic appears in SARIF
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/go.sarif'
+        with:
+          script: |
+            const fs = require('fs');
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+
+            const toolExecutionNotifications = run.invocations[0].toolExecutionNotifications;
+            const statusPageNotifications = toolExecutionNotifications.filter(n =>
+              n.descriptor.id === 'go/workflow/go-installed-after-codeql-init' && n.properties?.visibility?.statusPage
+            );
+            if (statusPageNotifications.length !== 1) {
+              core.setFailed(
+                'Expected exactly one status page reporting descriptor for this diagnostic in the ' +
+                  `'runs[].invocations[].toolExecutionNotifications[]' SARIF property, but found ` +
+                  `${statusPageNotifications.length}. All notification reporting descriptors: ` +
+                  `${JSON.stringify(toolExecutionNotifications)}.`
+              );
+            }
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-indirect-tracing-workaround-no-file-program.yml

@@ -0,0 +1,110 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: diagnostic when `file` is not installed'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-indirect-tracing-workaround-no-file-program-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-indirect-tracing-workaround-no-file-program:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: 'Go: diagnostic when `file` is not installed'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Remove `file` program
+        run: |
+          echo $(which file)
+          sudo rm -rf $(which file)
+          echo $(which file)
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: go build main.go
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+      - name: Check diagnostic appears in SARIF
+        uses: actions/github-script@ed597411d8f924073f98dfc5c65a23a2325f34cd # v8.0.0
+        env:
+          SARIF_PATH: '${{ runner.temp }}/results/go.sarif'
+        with:
+          script: |
+            const fs = require('fs');
+
+            const sarif = JSON.parse(fs.readFileSync(process.env['SARIF_PATH'], 'utf8'));
+            const run = sarif.runs[0];
+
+            const toolExecutionNotifications = run.invocations[0].toolExecutionNotifications;
+            const statusPageNotifications = toolExecutionNotifications.filter(n =>
+              n.descriptor.id === 'go/workflow/file-program-unavailable' && n.properties?.visibility?.statusPage
+            );
+            if (statusPageNotifications.length !== 1) {
+              core.setFailed(
+                'Expected exactly one status page reporting descriptor for this diagnostic in the ' +
+                  `'runs[].invocations[].toolExecutionNotifications[]' SARIF property, but found ` +
+                  `${statusPageNotifications.length}. All notification reporting descriptors: ` +
+                  `${JSON.stringify(toolExecutionNotifications)}.`
+              );
+            }
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-indirect-tracing-workaround.yml

@@ -0,0 +1,104 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: workaround for indirect tracing'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-indirect-tracing-workaround-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-indirect-tracing-workaround:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: 'Go: workaround for indirect tracing'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: go build main.go
+      - uses: ./../action/analyze
+      - run: |
+          if [[ -z "${CODEQL_ACTION_GO_BINARY}" ]]; then
+            echo "Expected the workaround for indirect tracing of static binaries to trigger, but the" \
+              "CODEQL_ACTION_GO_BINARY environment variable is not set."
+            exit 1
+          fi
+          if [[ ! -f "${CODEQL_ACTION_GO_BINARY}" ]]; then
+            echo "CODEQL_ACTION_GO_BINARY is set, but the corresponding script does not exist."
+            exit 1
+          fi
+
+
+          # Once we start running Bash 4.2 in all environments, we can replace the
+          # `! -z` flag with the more elegant `-v` which confirms that the variable
+          # is actually unset and not potentially set to a blank value.
+          if [[ ! -z "${CODEQL_ACTION_DID_AUTOBUILD_GOLANG}" ]]; then
+            echo "Expected the Go autobuilder not to be run, but the" \
+              "CODEQL_ACTION_DID_AUTOBUILD_GOLANG environment variable was set."
+            exit 1
+          fi
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d go ]]; then
+            echo "Did not find a Go database"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-tracing-autobuilder.yml

@@ -0,0 +1,110 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: tracing with autobuilder step'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-tracing-autobuilder-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-tracing-autobuilder:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: stable-v2.23.9
+          - os: ubuntu-latest
+            version: stable-v2.24.3
+          - os: ubuntu-latest
+            version: stable-v2.25.6
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+    name: 'Go: tracing with autobuilder step'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/autobuild
+      - uses: ./../action/analyze
+      - run: |
+          if [[ "${CODEQL_ACTION_DID_AUTOBUILD_GOLANG}" != true ]]; then
+            echo "Expected the Go autobuilder to be run, but the" \
+              "CODEQL_ACTION_DID_AUTOBUILD_GOLANG environment variable was not true."
+            exit 1
+          fi
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d go ]]; then
+            echo "Did not find a Go database"
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-tracing-custom-build-steps.yml

@@ -0,0 +1,113 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: tracing with custom build steps'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-tracing-custom-build-steps-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-tracing-custom-build-steps:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: stable-v2.23.9
+          - os: ubuntu-latest
+            version: stable-v2.24.3
+          - os: ubuntu-latest
+            version: stable-v2.25.6
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+    name: 'Go: tracing with custom build steps'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: go build main.go
+      - uses: ./../action/analyze
+      - run: |
+          # Once we start running Bash 4.2 in all environments, we can replace the
+          # `! -z` flag with the more elegant `-v` which confirms that the variable
+          # is actually unset and not potentially set to a blank value.
+          if [[ ! -z "${CODEQL_ACTION_DID_AUTOBUILD_GOLANG}" ]]; then
+            echo "Expected the Go autobuilder not to be run, but the" \
+              "CODEQL_ACTION_DID_AUTOBUILD_GOLANG environment variable was set."
+            exit 1
+          fi
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d go ]]; then
+            echo "Did not find a Go database"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__go-tracing-legacy-workflow.yml

@@ -0,0 +1,104 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Go: tracing with legacy workflow'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: go-tracing-legacy-workflow-${{github.ref}}-${{inputs.go-version}}
+jobs:
+  go-tracing-legacy-workflow:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: stable-v2.23.9
+          - os: ubuntu-latest
+            version: stable-v2.24.3
+          - os: ubuntu-latest
+            version: stable-v2.25.6
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+    name: 'Go: tracing with legacy workflow'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+      - run: |
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d go ]]; then
+            echo "Did not find a Go database"
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__init-with-registries.yml

@@ -0,0 +1,119 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Packaging: Download using registries'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: init-with-registries-${{github.ref}}
+jobs:
+  init-with-registries:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Packaging: Download using registries'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      packages: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Init with registries
+        uses: ./../action/init
+        with:
+          db-location: '${{ runner.temp }}/customDbLocation'
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          config-file: ./.github/codeql/codeql-config-registries.yml
+          languages: javascript
+          registries: |
+            - url: "https://ghcr.io/v2/"
+              packages: "*/*"
+              token: "${{ secrets.GITHUB_TOKEN }}"
+
+      - name: Verify packages installed
+        run: |
+          PRIVATE_PACK="$HOME/.codeql/packages/codeql-testing/private-pack"
+          CODEQL_PACK1="$HOME/.codeql/packages/codeql-testing/codeql-pack1"
+
+          if [[ -d $PRIVATE_PACK ]]
+          then
+              echo "$PRIVATE_PACK was installed."
+          else
+              echo "::error $PRIVATE_PACK pack was not installed."
+              exit 1
+          fi
+
+          if [[ -d $CODEQL_PACK1 ]]
+          then
+              echo "$CODEQL_PACK1 was installed."
+          else
+              echo "::error $CODEQL_PACK1 pack was not installed."
+              exit 1
+          fi
+
+      - name: Verify qlconfig.yml file was created
+        run: |
+          QLCONFIG_PATH=$RUNNER_TEMP/qlconfig.yml
+          echo "Expected qlconfig.yml file to be created at $QLCONFIG_PATH"
+          if [[ -f $QLCONFIG_PATH ]]
+          then
+              echo "qlconfig.yml file was created."
+          else
+              echo "::error qlconfig.yml file was not created."
+              exit 1
+          fi
+
+      - name: Verify contents of qlconfig.yml
+        run: |
+          QLCONFIG_PATH=$RUNNER_TEMP/qlconfig.yml
+          cat $QLCONFIG_PATH | yq -e '.registries[] | select(.url == "https://ghcr.io/v2/") | select(.packages == "*/*")'
+          if [[ $? -eq 0 ]]
+          then
+              echo "Registry was added to qlconfig.yml file."
+          else
+              echo "::error Registry was not added to qlconfig.yml file."
+              echo "Contents of qlconfig.yml file:"
+              cat $QLCONFIG_PATH
+              exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__javascript-source-root.yml

@@ -0,0 +1,80 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Custom source root
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: javascript-source-root-${{github.ref}}
+jobs:
+  javascript-source-root:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Custom source root
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Move codeql-action
+        run: |
+          mkdir ../new-source-root
+          mv * ../new-source-root
+      - uses: ./../action/init
+        with:
+          languages: javascript
+          source-root: ../new-source-root
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          skip-queries: true
+      - name: Assert database exists
+        run: |
+          cd "$RUNNER_TEMP/codeql_databases"
+          if [[ ! -d javascript ]]; then
+            echo "Did not find a JavaScript database"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__job-run-uuid-sarif.yml

@@ -0,0 +1,81 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Job run UUID added to SARIF
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: job-run-uuid-sarif-${{github.ref}}
+jobs:
+  job-run-uuid-sarif:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Job run UUID added to SARIF
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+      - name: Upload SARIF
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
+        with:
+          name: ${{ matrix.os }}-${{ matrix.version }}.sarif.json
+          path: '${{ runner.temp }}/results/javascript.sarif'
+          retention-days: 7
+      - name: Check results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          actual=$(jq -r '.runs[0].properties.jobRunUuid' javascript.sarif)
+          if [[ "$actual" != "$CODEQL_ACTION_JOB_RUN_UUID" ]]; then
+            echo "Expected SARIF output to contain job run UUID '$CODEQL_ACTION_JOB_RUN_UUID', but found '$actual'."
+            exit 1
+          else
+            echo "Found job run UUID '$actual'."
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__language-aliases.yml

@@ -0,0 +1,72 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Language aliases
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: language-aliases-${{github.ref}}
+jobs:
+  language-aliases:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Language aliases
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: C#,java-kotlin,typescript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: 'Check languages'
+        run: |
+          expected_languages="csharp,java,javascript"
+          actual_languages=$(jq -r '.languages | join(",")' "$RUNNER_TEMP"/config)
+
+          if [ "$expected_languages" != "$actual_languages" ]; then
+            echo "Resolved languages did not match expected list. " \
+              "Expected languages: $expected_languages. Actual languages: $actual_languages."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__linux-arm64.yml

@@ -0,0 +1,106 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Linux Arm64
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: linux-arm64-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  linux-arm64:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-24.04-arm
+            version: nightly-latest
+    name: Linux Arm64
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: ${{ env.LANGUAGES }}
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          upload-database: false
+      - name: Assert databases exist
+        run: |
+          cd "$RUNNER_TEMP/codeql_databases"
+          for lang in ${LANGUAGES//,/ }; do
+            if [[ ! -d "$lang" ]]; then
+              echo "Did not find a database for $lang"
+              exit 1
+            fi
+            echo "Found database for $lang"
+          done
+    env:
+      LANGUAGES: cpp,csharp,go,java,javascript,python,ruby
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__local-bundle.yml

@@ -0,0 +1,98 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Local CodeQL bundle
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: local-bundle-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  local-bundle:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Local CodeQL bundle
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Fetch latest CodeQL bundle
+        run: |
+          wget https://github.com/github/codeql-action/releases/latest/download/codeql-bundle-linux64.tar.zst
+      - id: init
+        uses: ./../action/init
+        with:
+          # Swift is not supported on Ubuntu so we manually exclude it from the list here
+          languages: cpp,csharp,go,java,javascript,python,ruby
+          tools: ./codeql-bundle-linux64.tar.zst
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__multi-language-autodetect.yml

@@ -0,0 +1,196 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Multi-language repository
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: multi-language-autodetect-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  multi-language-autodetect:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: macos-15-xlarge
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.21.4
+          - os: macos-15-xlarge
+            version: stable-v2.21.4
+          - os: ubuntu-latest
+            version: stable-v2.22.4
+          - os: macos-15-xlarge
+            version: stable-v2.22.4
+          - os: ubuntu-latest
+            version: stable-v2.23.9
+          - os: macos-latest-xlarge
+            version: stable-v2.23.9
+          - os: ubuntu-latest
+            version: stable-v2.24.3
+          - os: macos-latest-xlarge
+            version: stable-v2.24.3
+          - os: ubuntu-latest
+            version: stable-v2.25.6
+          - os: macos-latest-xlarge
+            version: stable-v2.25.6
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest-xlarge
+            version: default
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest-xlarge
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest-xlarge
+            version: nightly-latest
+    name: Multi-language repository
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Install Python 3.13.15 for older CLI versions
+        # Older CLI versions don't work with Python 3.13.16 or newer because their Python extractor
+        # imports `importlib._bootstrap._ERR_MSG`, which those Python versions no longer define.
+        # See https://github.com/github/codeql-action/pull/3212
+        if: matrix.version != 'nightly-latest' && matrix.version != 'linked'
+        uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
+        with:
+          python-version: '3.13.15'
+
+      - name: Use Xcode 16
+        # Only the older CodeQL CLI versions need Xcode 16, and these run on macOS 15.
+        if: matrix.os == 'macos-15-xlarge'
+        run: sudo xcode-select -s "/Applications/Xcode_16.app"
+
+      - uses: ./../action/init
+        id: init
+        with:
+          db-location: '${{ runner.temp }}/customDbLocation'
+          languages: ${{ runner.os == 'Linux' && 'cpp,csharp,go,java,javascript,python,ruby' || '' }}
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Build code
+        run: ./build.sh
+
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+
+      - name: Check language autodetect for all languages excluding Swift
+        run: |
+          CPP_DB=${{ fromJson(steps.analysis.outputs.db-locations).cpp }}
+          if [[ ! -d $CPP_DB ]] || [[ ! $CPP_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for CPP, or created it in the wrong location."
+            exit 1
+          fi
+          CSHARP_DB=${{ fromJson(steps.analysis.outputs.db-locations).csharp }}
+          if [[ ! -d $CSHARP_DB ]] || [[ ! $CSHARP_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for C Sharp, or created it in the wrong location."
+            exit 1
+          fi
+          GO_DB=${{ fromJson(steps.analysis.outputs.db-locations).go }}
+          if [[ ! -d $GO_DB ]] || [[ ! $GO_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Go, or created it in the wrong location."
+            exit 1
+          fi
+          JAVA_DB=${{ fromJson(steps.analysis.outputs.db-locations).java }}
+          if [[ ! -d $JAVA_DB ]] || [[ ! $JAVA_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Java, or created it in the wrong location."
+            exit 1
+          fi
+          JAVASCRIPT_DB=${{ fromJson(steps.analysis.outputs.db-locations).javascript }}
+          if [[ ! -d $JAVASCRIPT_DB ]] || [[ ! $JAVASCRIPT_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Javascript, or created it in the wrong location."
+            exit 1
+          fi
+          PYTHON_DB=${{ fromJson(steps.analysis.outputs.db-locations).python }}
+          if [[ ! -d $PYTHON_DB ]] || [[ ! $PYTHON_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Python, or created it in the wrong location."
+            exit 1
+          fi
+          RUBY_DB=${{ fromJson(steps.analysis.outputs.db-locations).ruby }}
+          if [[ ! -d $RUBY_DB ]] || [[ ! $RUBY_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Ruby, or created it in the wrong location."
+            exit 1
+          fi
+
+      - name: Check language autodetect for Swift on macOS
+        if: runner.os == 'macOS'
+        run: |
+          SWIFT_DB=${{ fromJson(steps.analysis.outputs.db-locations).swift }}
+          if [[ ! -d $SWIFT_DB ]] || [[ ! $SWIFT_DB == ${{ runner.temp }}/customDbLocation/* ]]; then
+            echo "Did not create a database for Swift, or created it in the wrong location."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_RESOLVE_SUPPORTED_LANGUAGES_USING_CLI: true
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__overlay-init-fallback.yml

@@ -0,0 +1,76 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Overlay database init fallback
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: overlay-init-fallback-${{github.ref}}
+jobs:
+  overlay-init-fallback:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Overlay database init fallback
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: actions # Any language without overlay support will do
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+        env:
+          CODEQL_OVERLAY_DATABASE_MODE: overlay-base
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check database
+        run: |
+          cd "$RUNNER_TEMP/codeql_databases/actions"
+          if ! grep -q 'overlayBaseDatabase: false' codeql-database.yml ; then
+            echo "This test needs to be updated to use a non-overlay language."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__packaging-codescanning-config-inputs-js.yml

@@ -0,0 +1,132 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Packaging: Config and input passed to the CLI'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: packaging-codescanning-config-inputs-js-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  packaging-codescanning-config-inputs-js:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Packaging: Config and input passed to the CLI'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Install Node.js
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
+        with:
+          node-version: 20.x
+          cache: npm
+      - name: Install newer npm
+        run: npm install -g npm@11.19.1
+      - name: Install dependencies
+        run: npm ci
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          config-file: '.github/codeql/codeql-config-packaging3.yml'
+          packs: +codeql-testing/codeql-pack1@1.0.0
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+
+      - name: Check results
+        uses: ./../action/.github/actions/check-sarif
+        with:
+          sarif-file: ${{ runner.temp }}/results/javascript.sarif
+          queries-run: javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
+          queries-not-run: foo,bar
+
+      - name: Assert Results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          # We should have 4 hits from these rules
+          EXPECTED_RULES="javascript/example/empty-or-one-block javascript/example/empty-or-one-block javascript/example/other-query-block javascript/example/two-block"
+
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(cat javascript.sarif | jq -r '.runs[0].results[].ruleId' | sort | tr "\n\r" " " | xargs)"
+          echo "Found matching rules '$RULES'"
+          if [ "$RULES" != "$EXPECTED_RULES" ]; then
+            echo "Did not match expected rules '$EXPECTED_RULES'."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__packaging-config-inputs-js.yml

@@ -0,0 +1,132 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Packaging: Config and input'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: packaging-config-inputs-js-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  packaging-config-inputs-js:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Packaging: Config and input'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Install Node.js
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
+        with:
+          node-version: 20.x
+          cache: npm
+      - name: Install newer npm
+        run: npm install -g npm@11.19.1
+      - name: Install dependencies
+        run: npm ci
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          config-file: '.github/codeql/codeql-config-packaging3.yml'
+          packs: +codeql-testing/codeql-pack1@1.0.0
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+
+      - name: Check results
+        uses: ./../action/.github/actions/check-sarif
+        with:
+          sarif-file: ${{ runner.temp }}/results/javascript.sarif
+          queries-run: javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
+          queries-not-run: foo,bar
+
+      - name: Assert Results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          # We should have 4 hits from these rules
+          EXPECTED_RULES="javascript/example/empty-or-one-block javascript/example/empty-or-one-block javascript/example/other-query-block javascript/example/two-block"
+
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(cat javascript.sarif | jq -r '.runs[0].results[].ruleId' | sort | tr "\n\r" " " | xargs)"
+          echo "Found matching rules '$RULES'"
+          if [ "$RULES" != "$EXPECTED_RULES" ]; then
+            echo "Did not match expected rules '$EXPECTED_RULES'."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__packaging-config-js.yml

@@ -0,0 +1,131 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Packaging: Config file'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: packaging-config-js-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  packaging-config-js:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Packaging: Config file'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Install Node.js
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
+        with:
+          node-version: 20.x
+          cache: npm
+      - name: Install newer npm
+        run: npm install -g npm@11.19.1
+      - name: Install dependencies
+        run: npm ci
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          config-file: '.github/codeql/codeql-config-packaging.yml'
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+
+      - name: Check results
+        uses: ./../action/.github/actions/check-sarif
+        with:
+          sarif-file: ${{ runner.temp }}/results/javascript.sarif
+          queries-run: javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
+          queries-not-run: foo,bar
+
+      - name: Assert Results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          # We should have 4 hits from these rules
+          EXPECTED_RULES="javascript/example/empty-or-one-block javascript/example/empty-or-one-block javascript/example/other-query-block javascript/example/two-block"
+
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(cat javascript.sarif | jq -r '.runs[0].results[].ruleId' | sort | tr "\n\r" " " | xargs)"
+          echo "Found matching rules '$RULES'"
+          if [ "$RULES" != "$EXPECTED_RULES" ]; then
+            echo "Did not match expected rules '$EXPECTED_RULES'."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__packaging-inputs-js.yml

@@ -0,0 +1,131 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: 'PR Check - Packaging: Action input'
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: packaging-inputs-js-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  packaging-inputs-js:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: 'Packaging: Action input'
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Install Node.js
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
+        with:
+          node-version: 20.x
+          cache: npm
+      - name: Install newer npm
+        run: npm install -g npm@11.19.1
+      - name: Install dependencies
+        run: npm ci
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          config-file: '.github/codeql/codeql-config-packaging2.yml'
+          languages: javascript
+          packs: codeql-testing/codeql-pack1@1.0.0, codeql-testing/codeql-pack2, codeql-testing/codeql-pack3:other-query.ql
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+
+      - name: Check results
+        uses: ./../action/.github/actions/check-sarif
+        with:
+          sarif-file: ${{ runner.temp }}/results/javascript.sarif
+          queries-run: javascript/example/empty-or-one-block,javascript/example/empty-or-one-block,javascript/example/other-query-block,javascript/example/two-block
+          queries-not-run: foo,bar
+
+      - name: Assert Results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          # We should have 4 hits from these rules
+          EXPECTED_RULES="javascript/example/empty-or-one-block javascript/example/empty-or-one-block javascript/example/other-query-block javascript/example/two-block"
+
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(cat javascript.sarif | jq -r '.runs[0].results[].ruleId' | sort | tr "\n\r" " " | xargs)"
+          echo "Found matching rules '$RULES'"
+          if [ "$RULES" != "$EXPECTED_RULES" ]; then
+            echo "Did not match expected rules '$EXPECTED_RULES'."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__per-language-bundle-validation.yml

@@ -0,0 +1,164 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Per-language bundles
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: per-language-bundle-validation-${{github.ref}}
+jobs:
+  per-language-bundle-validation:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - language: actions
+            os: ubuntu-latest
+            version: nightly-latest
+            expected-extractors: actions javascript
+          - language: cpp
+            os: ubuntu-latest
+            version: nightly-latest
+            build-mode: manual
+            build-command: gcc -o main main.c
+          - language: csharp
+            os: ubuntu-latest
+            version: nightly-latest
+            build-mode: none
+          - language: go
+            os: ubuntu-latest
+            version: nightly-latest
+            build-mode: autobuild
+          - language: java
+            os: ubuntu-latest
+            version: nightly-latest
+            build-mode: none
+          - language: javascript
+            os: ubuntu-latest
+            version: nightly-latest
+          - language: python
+            os: ubuntu-latest
+            version: nightly-latest
+          - language: ruby
+            os: ubuntu-latest
+            version: nightly-latest
+          - language: rust
+            os: ubuntu-latest
+            version: nightly-latest
+          - language: swift
+            os: macos-latest-xlarge
+            version: nightly-latest
+            build-mode: autobuild
+    name: Per-language bundles
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: ${{ matrix.language }}
+          build-mode: ${{ matrix['build-mode'] }}
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check that the bundle contains only the expected extractors
+        env:
+          CODEQL_PATH: ${{ steps.init.outputs.codeql-path }}
+          LANGUAGE: ${{ matrix.language }}
+          EXPECTED_EXTRACTORS: ${{ matrix['expected-extractors'] || matrix.language }}
+        run: |
+          extractors="$("$CODEQL_PATH" resolve languages --format=json | jq -r 'keys[]')"
+          echo "Extractors in the bundle:"
+          echo "$extractors"
+          echo "Expected: $EXPECTED_EXTRACTORS"
+
+          for expected in $EXPECTED_EXTRACTORS; do
+            if ! echo "$extractors" | grep -qx "$expected"; then
+              echo "::error::The ${LANGUAGE} bundle does not contain the ${expected} extractor."
+              exit 1
+            fi
+          done
+
+          # If the bundle contained extractors beyond those the language needs, then it would not
+          # have been trimmed, and this job would be silently validating the combined bundle.
+          for other in actions cpp csharp go java javascript python ruby rust swift; do
+            if echo "$EXPECTED_EXTRACTORS" | grep -qw "$other"; then
+              continue
+            fi
+            if echo "$extractors" | grep -qx "$other"; then
+              echo "::error::The ${LANGUAGE} bundle also contains the ${other} extractor, so it is not trimmed."
+              exit 1
+            fi
+          done
+      - name: Check that the bundle was not added to the toolcache
+        env:
+          CODEQL_PATH: ${{ steps.init.outputs.codeql-path }}
+        run: |
+          # A bundle that is missing most of its extractors must never be left in the toolcache,
+          # where a later job analyzing a different language could pick it up. The runner image
+          # ships with its own CodeQL in the toolcache, so check where this bundle was extracted to
+          # rather than whether the toolcache contains CodeQL at all.
+          echo "CodeQL is at $CODEQL_PATH"
+          if [[ "$CODEQL_PATH" == "$RUNNER_TOOL_CACHE"/* ]]; then
+            echo "::error::The per-language bundle was added to the toolcache at $CODEQL_PATH."
+            exit 1
+          fi
+          if [[ "$CODEQL_PATH" != "$RUNNER_TEMP"/* ]]; then
+            echo "::error::Expected the per-language bundle to be extracted under $RUNNER_TEMP, but found it at $CODEQL_PATH."
+            exit 1
+          fi
+      - name: Build code
+        if: matrix['build-command']
+        run: ${{ matrix['build-command'] }}
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check that a database was created for the language
+        env:
+          DB_LOCATIONS: ${{ steps.analysis.outputs.db-locations }}
+          LANGUAGE: ${{ matrix.language }}
+        run: |
+          database="$(echo "$DB_LOCATIONS" | jq -r --arg lang "$LANGUAGE" '.[$lang] // empty')"
+          if [ -z "$database" ] || [ ! -d "$database" ]; then
+            echo "::error::No CodeQL database was created for ${LANGUAGE}."
+            echo "Databases: $DB_LOCATIONS"
+            exit 1
+          fi
+          echo "Created a ${LANGUAGE} database at ${database}."
+    env:
+      CODEQL_ACTION_PER_LANGUAGE_BUNDLES: true
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__remote-config.yml

@@ -0,0 +1,96 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Remote config file
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: remote-config-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  remote-config:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Remote config file
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: cpp,csharp,java,javascript,python
+          config-file: ${{ github.repository }}/tests/multi-language-repo/.github/codeql/custom-queries.yml@${{ github.sha }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__resolve-environment-action.yml

@@ -0,0 +1,85 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Resolve environment
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: resolve-environment-action-${{github.ref}}
+jobs:
+  resolve-environment-action:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Resolve environment
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: go,javascript-typescript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+
+      - name: Resolve environment for Go
+        uses: ./../action/resolve-environment
+        id: resolve-environment-go
+        with:
+          language: go
+
+      - name: Fail if Go configuration missing
+        if: (!fromJSON(steps.resolve-environment-go.outputs.environment).configuration.go)
+        run: exit 1
+
+      - name: Resolve environment for JavaScript/TypeScript
+        uses: ./../action/resolve-environment
+        id: resolve-environment-js
+        with:
+          language: javascript-typescript
+
+      - name: Fail if JavaScript/TypeScript configuration present
+        if: fromJSON(steps.resolve-environment-js.outputs.environment).configuration.javascript
+        run: exit 1
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__rubocop-multi-language.yml

@@ -0,0 +1,74 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - RuboCop multi-language
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: rubocop-multi-language-${{github.ref}}
+jobs:
+  rubocop-multi-language:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: RuboCop multi-language
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Set up Ruby
+        uses: ruby/setup-ruby@14594264cd68ce8a2345dd349bc3d138a4ef85c8 # v1.327.0
+        with:
+          ruby-version: 2.6
+      - name: Install Code Scanning integration
+        run: bundle add code-scanning-rubocop --version 0.3.0 --skip-install
+      - name: Install dependencies
+        run: bundle install
+      - name: RuboCop run
+        run: |
+          bash -c "
+            bundle exec rubocop --require code_scanning --format CodeScanning::SarifFormatter -o rubocop.sarif
+            [[ $? -ne 2 ]]
+          "
+      - uses: ./../action/upload-sarif
+        with:
+          sarif_file: rubocop.sarif
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__ruby.yml

@@ -0,0 +1,82 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Ruby analysis
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: ruby-${{github.ref}}
+jobs:
+  ruby:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+    name: Ruby analysis
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: ruby
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check database
+        run: |
+          RUBY_DB="${{ fromJson(steps.analysis.outputs.db-locations).ruby }}"
+          if [[ ! -d "$RUBY_DB" ]]; then
+            echo "Did not create a database for Ruby."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__rust.yml

@@ -0,0 +1,80 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Rust analysis
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: rust-${{github.ref}}
+jobs:
+  rust:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: stable-v2.20.7
+          - os: ubuntu-latest
+            version: stable-v2.22.1
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Rust analysis
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          languages: rust
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check database
+        run: |
+          RUST_DB="${{ fromJson(steps.analysis.outputs.db-locations).rust }}"
+          if [[ ! -d "$RUST_DB" ]]; then
+            echo "Did not create a database for Rust."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__split-workflow.yml

@@ -0,0 +1,133 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Split workflow
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: split-workflow-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  split-workflow:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: macos-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+          - os: macos-latest
+            version: nightly-latest
+    name: Split workflow
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          config-file: '.github/codeql/codeql-config-packaging3.yml'
+          packs: +codeql-testing/codeql-pack1@1.0.0
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        with:
+          skip-queries: true
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+
+      - name: Assert No Results
+        run: |
+          if [ "$(ls -A $RUNNER_TEMP/results)" ]; then
+            echo "Expected results directory to be empty after skipping query execution!"
+            exit 1
+          fi
+      - uses: ./../action/analyze
+        with:
+          output: '${{ runner.temp }}/results'
+          upload-database: false
+      - name: Assert Results
+        run: |
+          cd "$RUNNER_TEMP/results"
+          # We should have 4 hits from these rules
+          EXPECTED_RULES="javascript/example/empty-or-one-block javascript/example/empty-or-one-block javascript/example/other-query-block javascript/example/two-block"
+
+          # use tr to replace newlines with spaces and xargs to trim leading and trailing whitespace
+          RULES="$(cat javascript.sarif | jq -r '.runs[0].results[].ruleId' | sort | tr "\n\r" " " | xargs)"
+          echo "Found matching rules '$RULES'"
+          if [ "$RULES" != "$EXPECTED_RULES" ]; then
+            echo "Did not match expected rules '$EXPECTED_RULES'."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__start-proxy.yml

@@ -0,0 +1,105 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Start proxy
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: start-proxy-${{github.ref}}
+jobs:
+  start-proxy:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: macos-latest
+            version: linked
+          - os: windows-latest
+            version: linked
+    name: Start proxy
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Setup proxy for registries
+        id: proxy
+        uses: ./../action/start-proxy
+        with:
+          language: java
+          registry_secrets: |
+            [
+              {
+                "type": "maven_repository",
+                "url": "https://repo.maven.apache.org/maven2/"
+              },
+              {
+                "type": "maven_repository",
+                "url": "https://repo1.maven.org/maven2"
+              }
+            ]
+
+      - name: Print proxy outputs
+        run: |
+          echo "${{ steps.proxy.outputs.proxy_host }}"
+          echo "${{ steps.proxy.outputs.proxy_port }}"
+          echo "${{ steps.proxy.outputs.proxy_urls }}"
+
+      - name: Fail if proxy outputs are not set
+        if: (!steps.proxy.outputs.proxy_host) || (!steps.proxy.outputs.proxy_port) || (!steps.proxy.outputs.proxy_ca_certificate) || (!steps.proxy.outputs.proxy_urls)
+        run: exit 1
+
+      - name: Fail if proxy_urls does not contain all registries
+        if: |
+          join(fromJSON(steps.proxy.outputs.proxy_urls)[*].type, ',') != 'maven_repository,maven_repository'
+          || !contains(steps.proxy.outputs.proxy_urls, 'https://repo.maven.apache.org/maven2/')
+          || !contains(steps.proxy.outputs.proxy_urls, 'https://repo1.maven.org/maven2')
+        run: exit 1
+
+      - uses: ./../action/init
+        env:
+          CODEQL_PROXY_HOST: ${{ steps.proxy.outputs.proxy_host }}
+          CODEQL_PROXY_PORT: ${{ steps.proxy.outputs.proxy_port }}
+          CODEQL_PROXY_CA_CERTIFICATE: ${{ steps.proxy.outputs.proxy_ca_certificate }}
+        with:
+          languages: java
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          config-file: codeql-action@main:tests/multi-language-repo/.github/codeql/custom-queries.yml
+    env:
+      CODEQL_ACTION_PROXY_API_REQUESTS: 'true'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__submit-sarif-failure.yml

@@ -0,0 +1,82 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Submit SARIF after failure
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: submit-sarif-failure-${{github.ref}}
+jobs:
+  submit-sarif-failure:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: default
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Submit SARIF after failure
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: write
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - uses: ./init
+        with:
+          languages: javascript
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Fail
+        # We want this job to pass if the Action correctly uploads the SARIF file for
+        # the failed run.
+        # Setting this step to continue on error means that it is marked as completing
+        # successfully, so will not fail the job.
+        continue-on-error: true
+        run: exit 1
+      - uses: ./analyze
+        # In a real workflow, this step wouldn't run. Since we used `continue-on-error`
+        # above, we manually disable it with an `if` condition.
+        if: false
+        with:
+          category: '/test-codeql-version:${{ matrix.version }}'
+    env:
+      CODEQL_ACTION_EXPECT_UPLOAD_FAILED_SARIF: true
+      CODEQL_ACTION_UPLOAD_FAILED_SARIF: true
+      CODEQL_ACTION_TEST_MODE: false
+      CODEQL_ACTION_TESTING_ENVIRONMENT: codeql-action-pr-checks

.github/workflows/__swift-autobuild.yml

@@ -0,0 +1,78 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Swift analysis using autobuild
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs: {}
+  workflow_call:
+    inputs: {}
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: swift-autobuild-${{github.ref}}
+jobs:
+  swift-autobuild:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest-xlarge
+            version: nightly-latest
+    name: Swift analysis using autobuild
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: swift
+          build-mode: autobuild
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check working directory
+        run: pwd
+      - uses: ./../action/autobuild
+        timeout-minutes: 30
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check database
+        run: |
+          SWIFT_DB="${{ fromJson(steps.analysis.outputs.db-locations).swift }}"
+          if [[ ! -d "$SWIFT_DB" ]]; then
+            echo "Did not create a database for Swift."
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__swift-custom-build.yml

@@ -0,0 +1,111 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Swift analysis using a custom build command
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: swift-custom-build-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  swift-custom-build:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: macos-latest-xlarge
+            version: linked
+          - os: macos-latest-xlarge
+            version: default
+          - os: macos-latest-xlarge
+            version: nightly-latest
+    name: Swift analysis using a custom build command
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          languages: swift
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Check working directory
+        run: pwd
+      - name: Build code
+        run: ./build.sh
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - name: Check database
+        run: |
+          SWIFT_DB="${{ fromJson(steps.analysis.outputs.db-locations).swift }}"
+          if [[ ! -d "$SWIFT_DB" ]]; then
+            echo "Did not create a database for Swift."
+            exit 1
+          fi
+    env:
+      DOTNET_GENERATE_ASPNET_CERTIFICATE: 'false'
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__unset-environment.yml

@@ -0,0 +1,138 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Test unsetting environment variables
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: unset-environment-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  unset-environment:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+          - os: ubuntu-latest
+            version: nightly-latest
+    name: Test unsetting environment variables
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        id: init
+        with:
+          db-location: ${{ runner.temp }}/customDbLocation
+          # Swift is not supported on Ubuntu so we manually exclude it from the list here
+          languages: cpp,csharp,go,java,javascript,python,ruby
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+      - name: Build code
+        run: env -i PATH="$PATH" HOME="$HOME" ./build.sh
+      - uses: ./../action/analyze
+        id: analysis
+        with:
+          upload-database: false
+      - run: |
+          CPP_DB="${{ fromJson(steps.analysis.outputs.db-locations).cpp }}"
+          if [[ ! -d "$CPP_DB" ]] || [[ ! "$CPP_DB" == "${RUNNER_TEMP}/customDbLocation/cpp" ]]; then
+            echo "::error::Did not create a database for CPP, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/cpp' but actual was '${CPP_DB}'"
+            exit 1
+          fi
+          CSHARP_DB="${{ fromJson(steps.analysis.outputs.db-locations).csharp }}"
+          if [[ ! -d "$CSHARP_DB" ]] || [[ ! "$CSHARP_DB" == "${RUNNER_TEMP}/customDbLocation/csharp" ]]; then
+            echo "::error::Did not create a database for C Sharp, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/csharp' but actual was '${CSHARP_DB}'"
+            exit 1
+          fi
+          GO_DB="${{ fromJson(steps.analysis.outputs.db-locations).go }}"
+          if [[ ! -d "$GO_DB" ]] || [[ ! "$GO_DB" == "${RUNNER_TEMP}/customDbLocation/go" ]]; then
+            echo "::error::Did not create a database for Go, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/go' but actual was '${GO_DB}'"
+            exit 1
+          fi
+          JAVA_DB="${{ fromJson(steps.analysis.outputs.db-locations).java }}"
+          if [[ ! -d "$JAVA_DB" ]] || [[ ! "$JAVA_DB" == "${RUNNER_TEMP}/customDbLocation/java" ]]; then
+            echo "::error::Did not create a database for Java, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/java' but actual was '${JAVA_DB}'"
+            exit 1
+          fi
+          JAVASCRIPT_DB="${{ fromJson(steps.analysis.outputs.db-locations).javascript }}"
+          if [[ ! -d "$JAVASCRIPT_DB" ]] || [[ ! "$JAVASCRIPT_DB" == "${RUNNER_TEMP}/customDbLocation/javascript" ]]; then
+            echo "::error::Did not create a database for Javascript, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/javascript' but actual was '${JAVASCRIPT_DB}'"
+            exit 1
+          fi
+          PYTHON_DB="${{ fromJson(steps.analysis.outputs.db-locations).python }}"
+          if [[ ! -d "$PYTHON_DB" ]] || [[ ! "$PYTHON_DB" == "${RUNNER_TEMP}/customDbLocation/python" ]]; then
+            echo "::error::Did not create a database for Python, or created it in the wrong location." \
+              "Expected location was '${RUNNER_TEMP}/customDbLocation/python' but actual was '${PYTHON_DB}'"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__upload-ref-sha-input.yml

@@ -0,0 +1,103 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: "PR Check - Upload-sarif: 'ref' and 'sha' from inputs"
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: upload-ref-sha-input-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  upload-ref-sha-input:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+    name: "Upload-sarif: 'ref' and 'sha' from inputs"
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: cpp,csharp,java,javascript,python
+          config-file: ${{ github.repository }}/tests/multi-language-repo/.github/codeql/custom-queries.yml@${{ github.sha }}
+      - name: Build code
+        run: ./build.sh
+      # Generate some SARIF we can upload with the upload-sarif step
+      - uses: ./../action/analyze
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          upload: never
+      - uses: ./../action/upload-sarif
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__upload-sarif.yml

@@ -0,0 +1,168 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Test different uses of `upload-sarif`
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: upload-sarif-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  upload-sarif:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: default
+            analysis-kinds: code-scanning
+          - os: ubuntu-latest
+            version: default
+            analysis-kinds: code-quality
+          - os: ubuntu-latest
+            version: default
+            analysis-kinds: code-scanning,code-quality
+    name: Test different uses of `upload-sarif`
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          languages: csharp,java,javascript,python
+          analysis-kinds: ${{ matrix.analysis-kinds }}
+      - name: Build code
+        run: ./build.sh
+      # Generate some SARIF we can upload with the upload-sarif step
+      - uses: ./../action/analyze
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          upload: never
+          output: ${{ runner.temp }}/results
+
+      - name: |
+          Upload all SARIF files for `analysis-kinds: ${{ matrix.analysis-kinds }}`
+        uses: ./../action/upload-sarif
+        id: upload-sarif
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          sarif_file: ${{ runner.temp }}/results
+          category: |
+            ${{ github.workflow }}:upload-sarif/analysis-kinds:${{ matrix.analysis-kinds }}/os:${{ matrix.os }}/version:${{ matrix.version }}/test:all-files/
+      - name: 'Fail for missing output from `upload-sarif` step for `code-scanning`'
+        if: contains(matrix.analysis-kinds, 'code-scanning') && !(fromJSON(steps.upload-sarif.outputs.sarif-ids).code-scanning)
+        run: exit 1
+      - name: 'Fail for missing output from `upload-sarif` step for `code-quality`'
+        if: contains(matrix.analysis-kinds, 'code-quality') && !(fromJSON(steps.upload-sarif.outputs.sarif-ids).code-quality)
+        run: exit 1
+
+      - name: Upload single SARIF file for Code Scanning
+        uses: ./../action/upload-sarif
+        id: upload-single-sarif-code-scanning
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          sarif_file: ${{ runner.temp }}/results/javascript.sarif
+          category: |
+            ${{ github.workflow }}:upload-sarif/analysis-kinds:${{ matrix.analysis-kinds }}/os:${{ matrix.os }}/version:${{ matrix.version }}/test:single-code-scanning/
+      - name: 'Fail for missing output from `upload-single-sarif-code-scanning` step'
+        if: contains(matrix.analysis-kinds, 'code-scanning') && !(fromJSON(steps.upload-single-sarif-code-scanning.outputs.sarif-ids).code-scanning)
+        run: exit 1
+      - name: Upload single SARIF file for Code Quality
+        uses: ./../action/upload-sarif
+        id: upload-single-sarif-code-quality
+        if: contains(matrix.analysis-kinds, 'code-quality')
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          sarif_file: ${{ runner.temp }}/results/javascript.quality.sarif
+          category: |
+            ${{ github.workflow }}:upload-sarif/analysis-kinds:${{ matrix.analysis-kinds }}/os:${{ matrix.os }}/version:${{ matrix.version }}/test:single-code-quality/
+      - name: 'Fail for missing output from `upload-single-sarif-code-quality` step'
+        if: contains(matrix.analysis-kinds, 'code-quality') && !(fromJSON(steps.upload-single-sarif-code-quality.outputs.sarif-ids).code-quality)
+        run: exit 1
+
+      - name: Change SARIF file extension
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        run: mv ${{ runner.temp }}/results/javascript.sarif ${{ runner.temp }}/results/javascript.sarif.json
+      - name: Upload single non-`.sarif` file
+        uses: ./../action/upload-sarif
+        id: upload-single-non-sarif
+        if: contains(matrix.analysis-kinds, 'code-scanning')
+        with:
+          ref: 'refs/heads/main'
+          sha: '5e235361806c361d4d3f8859e3c897658025a9a2'
+          sarif_file: ${{ runner.temp }}/results/javascript.sarif.json
+          category: |
+            ${{ github.workflow }}:upload-sarif/analysis-kinds:${{ matrix.analysis-kinds }}/os:${{ matrix.os }}/version:${{ matrix.version }}/test:non-sarif/
+      - name: 'Fail for missing output from `upload-single-non-sarif` step'
+        if: contains(matrix.analysis-kinds, 'code-scanning') && !(fromJSON(steps.upload-single-non-sarif.outputs.sarif-ids).code-scanning)
+        run: exit 1
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/__with-checkout-path.yml

@@ -0,0 +1,146 @@
+# Warning: This file is generated automatically, and should not be modified.
+# Instead, please modify the template in the pr-checks directory and run:
+#     pr-checks/sync.sh
+# to regenerate this file.
+
+name: PR Check - Use a custom `checkout_path`
+env:
+  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}
+  GO111MODULE: auto
+on:
+  push:
+    branches:
+      - main
+      - releases/v*
+  pull_request: {}
+  merge_group:
+    types:
+      - checks_requested
+  schedule:
+    - cron: '0 5 * * *'
+  workflow_dispatch:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+  workflow_call:
+    inputs:
+      dotnet-version:
+        type: string
+        description: The version of .NET to install
+        required: false
+        default: 9.x
+      go-version:
+        type: string
+        description: The version of Go to install
+        required: false
+        default: '>=1.21.0'
+defaults:
+  run:
+    shell: bash
+concurrency:
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
+  group: with-checkout-path-${{github.ref}}-${{inputs.dotnet-version}}-${{inputs.go-version}}
+jobs:
+  with-checkout-path:
+    strategy:
+      fail-fast: false
+      matrix:
+        include:
+          - os: ubuntu-latest
+            version: linked
+    name: Use a custom `checkout_path`
+    if: github.triggering_actor != 'dependabot[bot]'
+    permissions:
+      contents: read
+      security-events: read
+    timeout-minutes: 45
+    runs-on: ${{ matrix.os }}
+    steps:
+      # This ensures we don't accidentally use the original checkout for any part of the test.
+      - name: Check out repository
+        uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+      - name: Install .NET
+        uses: actions/setup-dotnet@a98b56852c35b8e3190ac28c8c2271da59106c68 # v6.0.0
+        with:
+          dotnet-version: ${{ inputs.dotnet-version || '9.x' }}
+      - name: Install Go
+        uses: actions/setup-go@b7ad1dad31e06c5925ef5d2fc7ad053ef454303e # v7.0.0
+        with:
+          go-version: ${{ inputs.go-version || '>=1.21.0' }}
+          cache: false
+      - name: Prepare test
+        id: prepare-test
+        uses: ./.github/actions/prepare-test
+        with:
+          version: ${{ matrix.version }}
+          use-all-platform-bundle: 'false'
+          setup-kotlin: 'true'
+      - name: Delete original checkout
+        run: |
+          # delete the original checkout so we don't accidentally use it.
+          # Actions does not support deleting the current working directory, so we
+          # delete the contents of the directory instead.
+          rm -rf ./* .github .git
+      # Check out the actions repo again, but at a different location.
+      # choose an arbitrary SHA so that we can later test that the commit_oid is not from main
+      - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
+        with:
+          ref: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
+          path: x/y/z/some-path
+
+      - uses: ./../action/init
+        with:
+          tools: ${{ steps.prepare-test.outputs.tools-url }}
+          # it's enough to test one compiled language and one interpreted language
+          languages: csharp,javascript
+          source-root: x/y/z/some-path/tests/multi-language-repo
+
+      - name: Build code
+        working-directory: x/y/z/some-path/tests/multi-language-repo
+        run: |
+          ./build.sh
+
+      - uses: ./../action/analyze
+        with:
+          checkout_path: x/y/z/some-path/tests/multi-language-repo
+          ref: v1.1.0
+          sha: 474bbf07f9247ffe1856c6a0f94aeeb10e7afee6
+
+      - name: Verify SARIF after upload
+        run: |
+          PAYLOAD_FILE="$RUNNER_TEMP/payload-code-scanning.json"
+          EXPECTED_COMMIT_OID="474bbf07f9247ffe1856c6a0f94aeeb10e7afee6"
+          EXPECTED_REF="v1.1.0"
+          EXPECTED_CHECKOUT_URI_SUFFIX="/x/y/z/some-path/tests/multi-language-repo"
+
+          ACTUAL_COMMIT_OID="$(cat "$PAYLOAD_FILE" | jq -r .commit_oid)"
+          ACTUAL_REF="$(cat "$PAYLOAD_FILE" | jq -r .ref)"
+          ACTUAL_CHECKOUT_URI="$(cat "$PAYLOAD_FILE" | jq -r .checkout_uri)"
+
+          if [[ "$EXPECTED_COMMIT_OID" != "$ACTUAL_COMMIT_OID" ]]; then
+            echo "::error Invalid commit oid. Expected: $EXPECTED_COMMIT_OID Actual: $ACTUAL_COMMIT_OID"
+            echo "$PAYLOAD_FILE"
+            exit 1
+          fi
+
+          if [[ "$EXPECTED_REF" != "$ACTUAL_REF" ]]; then
+            echo "::error Invalid ref. Expected: '$EXPECTED_REF' Actual: '$ACTUAL_REF'"
+            echo "$PAYLOAD_FILE"
+            exit 1
+          fi
+
+          if [[ "$ACTUAL_CHECKOUT_URI" != *$EXPECTED_CHECKOUT_URI_SUFFIX ]]; then
+            echo "::error Invalid checkout URI suffix. Expected suffix: $EXPECTED_CHECKOUT_URI_SUFFIX Actual uri: $ACTUAL_CHECKOUT_URI"
+            echo "$PAYLOAD_FILE"
+            exit 1
+          fi
+    env:
+      CODEQL_ACTION_TEST_MODE: true

.github/workflows/codescanning-config-cli.yml

@@ -57,7 +57,7 @@ jobs:
       uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
 
     - name: Set up Node.js
-      uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+      uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
       with:
         node-version: 24
         cache: 'npm'

.github/workflows/debug-artifacts-failure-safe.yml

@@ -30,7 +30,7 @@ jobs:
       fail-fast: false
       matrix:
         version:
-        - stable-v2.20.3
+        - stable-v2.20.7
         - default
         - linked
         - nightly-latest
@@ -89,7 +89,7 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Download all artifacts
-        uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c # v8.0.1
+        uses: actions/download-artifact@9000827ccba6bdab643e8b6fd33ac0654aef8333 # v8.0.2
       - name: Check expected artifacts exist
         run: |
           LANGUAGES="cpp csharp go java javascript python"

.github/workflows/debug-artifacts-safe.yml

@@ -29,7 +29,7 @@ jobs:
       fail-fast: false
       matrix:
         version:
-        - stable-v2.20.3
+        - stable-v2.20.7
         - default
         - linked
         - nightly-latest
@@ -82,10 +82,10 @@ jobs:
     runs-on: ubuntu-latest
     steps:
       - name: Download all artifacts
-        uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c # v8.0.1
+        uses: actions/download-artifact@9000827ccba6bdab643e8b6fd33ac0654aef8333 # v8.0.2
       - name: Check expected artifacts exist
         run: |
-          VERSIONS="stable-v2.20.3 default linked nightly-latest"
+          VERSIONS="stable-v2.20.7 default linked nightly-latest"
           LANGUAGES="cpp csharp go java javascript python"
           for version in $VERSIONS; do
             pushd "./my-debug-artifacts-${version//./}"

.github/workflows/post-release-mergeback.yml

@@ -47,7 +47,7 @@ jobs:
       - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
         with:
           fetch-depth: 0  # ensure we have all tags and can push commits
-      - uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+      - uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: 24
           cache: 'npm'

.github/workflows/pr-checks.yml

@@ -1,11 +1,14 @@
 name: PR Checks
 
 on:
+  push:
+  pull_request:
+  merge_group:
+    types: [checks_requested]
   workflow_dispatch:
-  workflow_call:
 
 concurrency:
-  cancel-in-progress: ${{ github.event_name == 'pull_request' || github.event_name == 'workflow_call' }}
+  cancel-in-progress: ${{ github.event_name == 'pull_request' || false }}
   group: ${{ github.workflow }}-${{ github.ref }}
 
 defaults:
@@ -39,7 +42,7 @@ jobs:
       - uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
 
       - name: Set up Node.js
-        uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: ${{ matrix.node-version }}
           cache: "npm"
@@ -107,7 +110,7 @@ jobs:
           fi
 
       - name: Set up Node.js
-        uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: 24
           cache: "npm"
@@ -172,7 +175,7 @@ jobs:
 
       - name: Upload repo size comment
         if: steps.fetch-base.outcome == 'success'
-        uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+        uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
         with:
           name: repo-size-comment
           path: ${{ runner.temp }}/repo-size/
@@ -220,7 +223,7 @@ jobs:
 
     steps:
       - name: Download repo size comment
-        uses: actions/download-artifact@3e5f45b2cfb9172054b4087a40e8e0b5a5461e7c # v8.0.1
+        uses: actions/download-artifact@9000827ccba6bdab643e8b6fd33ac0654aef8333 # v8.0.2
         with:
           name: repo-size-comment
           path: repo-size-comment

.github/workflows/query-filters.yml

@@ -33,7 +33,7 @@ jobs:
       uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
 
     - name: Install Node.js
-      uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+      uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
       with:
         node-version: 24
         cache: npm

.github/workflows/rebuild.yml

@@ -30,7 +30,7 @@ jobs:
           ref: ${{ env.HEAD_REF }}
 
       - name: Set up Node.js
-        uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: 24
           cache: 'npm'

.github/workflows/update-bundle.yml

@@ -41,7 +41,7 @@ jobs:
           git config --global user.name "github-actions[bot]"
 
       - name: Set up Node.js
-        uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: 24
           cache: 'npm'

.github/workflows/update-supported-enterprise-server-versions.yml

@@ -26,7 +26,7 @@ jobs:
         uses: actions/checkout@3d3c42e5aac5ba805825da76410c181273ba90b1 # v7.0.1
 
       - name: Set up Node.js
-        uses: actions/setup-node@820762786026740c76f36085b0efc47a31fe5020 # v7.0.0
+        uses: actions/setup-node@949feb2413d6458794dcd2491c4babbbce0c15c1 # v7.1.0
         with:
           node-version: 24
           cache: 'npm'

CHANGELOG.md

@@ -4,8 +4,20 @@ See the [releases page](https://github.com/github/codeql-action/releases) for th
 
 ## [UNRELEASED]
 
+No user facing changes.
+
+## 4.39.0 - 15 Oct 2026
+
+- _Breaking change_: Bump the minimum required CodeQL bundle version to 2.20.7. [#4205](https://github.com/github/codeql-action/pull/4205)
+- The `codeql-action/analyze` step now validates that a correct argument for the `checkout_path` input has been provided. The `checkout_path` input must be set to the path where the repository that is being analyzed is checked out at on the runner, if that path is something other than the workspace root. If the path does not point to a repository checkout or is different from the path that was used by `codeql-action/init`, then the CodeQL Action now produces a warning. [#4148](https://github.com/github/codeql-action/pull/4148)
+- Resolved an issue with third-party caching implementations that prevented caches from being restored correctly. [#4206](https://github.com/github/codeql-action/pull/4206)
+- The `codeql-action/start-proxy` step that is used in Code Scanning Default Setup now finds CodeQL releases using the same logic as `codeql-action/init`. This primarily benefits customers who are using GitHub instances other than `github.com` where the `codeql-action/start-proxy` step may previously have been unable to locate recent releases and ended up using outdated versions of the private registry authentication proxy as a result. [#4198](https://github.com/github/codeql-action/pull/4198)
+
+## 4.38.3 - 08 Oct 2026
+
 - _Upcoming breaking change_: CodeQL version 2.21.2 and earlier were discontinued on 24 September 2026 alongside GitHub Enterprise Server 3.17, and will be unsupported by the next minor release of the CodeQL Action. Added a deprecation warning for customers using these versions of CodeQL. [#4188](https://github.com/github/codeql-action/pull/4188)
 - Update default CodeQL bundle version to [2.27.2](https://github.com/github/codeql-action/releases/tag/codeql-bundle-v2.27.2). [#4203](https://github.com/github/codeql-action/pull/4203)
+- Fixed a bug where the decision of whether to use a per-language bundle did not account for custom configurations that reference queries outside of compiled CodeQL packs. This issue was caught during internal testing and did not affect any customer repositories. We will resume the roll out of per-language bundles in the coming weeks. [#4184](https://github.com/github/codeql-action/pull/4184)
 
 ## 4.38.2 - 24 Sept 2026
 

CONTRIBUTING.md

@@ -53,6 +53,7 @@ Here are a few things you can do that will increase the likelihood of your pull
 - Write tests.
 - Keep your change as focused as possible. If there are multiple changes you would like to make that are not dependent upon each other, consider submitting them as separate pull requests.
 - Write a [good commit message](http://tbaggery.com/2008/04/19/a-note-about-git-commit-messages.html).
+- For user-facing changes, add a change-note file. See [unreleased-change-notes/README.md](unreleased-change-notes/README.md).
 
 ## Releasing (write access required)
 

ava.setup.mjs

@@ -1,3 +1,4 @@
 import pkg from "./package.json" with { type: "json" };
 
 globalThis.__CODEQL_ACTION_VERSION__ = pkg.version;
+globalThis.__CODEQL_ACTION_TEST_ENV__ = "unit-test";

build.mjs

@@ -78,7 +78,7 @@ const UPLOAD_LIB_SRC = "./src/upload-lib";
  *
  * The virtual module additionally re-exports `upload-lib` under the `uploadLib` namespace so that
  * external consumers can access it via the small `lib/upload-lib.js` stub emitted below.
- * 
+ *
  * A tiny stub file is emitted for each Action entrypoint, and one for `upload-lib`. Each stub
  * imports the shared bundle and calls/re-exports from the respective entry point.
  *
@@ -212,6 +212,7 @@ const context = await esbuild.context({
   target: ["node20"],
   define: {
     __CODEQL_ACTION_VERSION__: JSON.stringify(pkg.version),
+    __CODEQL_ACTION_TEST_ENV__: JSON.stringify(""),
   },
   metafile: true,
 });

eslint.config.mjs

@@ -140,6 +140,17 @@ export default [
       "no-async-foreach/no-async-foreach": "error",
       "no-sequences": "error",
       "no-shadow": "off",
+
+      // A basic check that we don't use `exportVariable` from `@actions/core`.
+      "no-restricted-syntax": [
+        "error",
+        {
+          selector: "MemberExpression[property.name='exportVariable']",
+          message:
+            "Use the `export` method of an `Env` instance or `exportEnvVar` from `environment.ts` instead.",
+        },
+      ],
+
       // This is overly restrictive with unsetting `EnvVar`s
       "@typescript-eslint/no-dynamic-delete": "off",
       "@typescript-eslint/no-shadow": "error",
@@ -157,6 +168,15 @@ export default [
       ],
     },
   },
+  {
+    files: ["src/environment.ts"],
+
+    // We allow `exportVariable` from `@actions/core` to be used in this file
+    // since it defines the wrapper around it that other modules use.
+    rules: {
+      "no-restricted-syntax": "off",
+    },
+  },
   {
     files: ["**/*.ts", "**/*.js"],
 

package-lock.json

@@ -1,12 +1,12 @@
 {
   "name": "codeql",
-  "version": "4.38.3",
+  "version": "4.39.1",
   "lockfileVersion": 3,
   "requires": true,
   "packages": {
     "": {
       "name": "codeql",
-      "version": "4.38.3",
+      "version": "4.39.1",
       "license": "MIT",
       "workspaces": [
         "pr-checks"
@@ -14,7 +14,7 @@
       "dependencies": {
         "@actions/artifact": "^5.0.3",
         "@actions/artifact-legacy": "npm:@actions/artifact@^1.1.2",
-        "@actions/cache": "^5.2.0",
+        "@actions/cache": "^5.3.0",
         "@actions/core": "^2.0.3",
         "@actions/exec": "^2.0.0",
         "@actions/github": "^8.0.1",
@@ -23,15 +23,14 @@
         "@actions/io": "^2.0.0",
         "@actions/tool-cache": "^3.0.1",
         "@octokit/core": "^7.0.8",
-        "@octokit/plugin-paginate-rest": "^15.0.0",
+        "@octokit/plugin-paginate-rest": "^16.0.0",
         "@octokit/plugin-rest-endpoint-methods": "^18.0.0",
         "@octokit/plugin-retry": "^8.1.1",
         "archiver": "^8.0.0",
-        "fast-deep-equal": "^3.1.3",
-        "follow-redirects": "^1.16.0",
+        "follow-redirects": "^1.16.1",
         "get-folder-size": "^5.0.0",
         "https-proxy-agent": "^7.0.6",
-        "js-yaml": "^5.4.2",
+        "js-yaml": "^5.4.3",
         "jsonschema": "1.5.0",
         "long": "^5.3.2",
         "node-forge": "^1.4.0",
@@ -58,14 +57,14 @@
         "eslint-import-resolver-typescript": "^4.4.5",
         "eslint-plugin-github": "^6.1.2",
         "eslint-plugin-import-x": "^4.17.1",
-        "eslint-plugin-jsdoc": "^64.5.4",
+        "eslint-plugin-jsdoc": "^65.2.0",
         "eslint-plugin-no-async-foreach": "^0.1.1",
         "glob": "^13.0.6",
-        "globals": "^17.12.0",
+        "globals": "^17.13.0",
         "nock": "^14.0.17",
         "sinon": "^22.1.0",
         "typescript": "^6.0.3",
-        "typescript-eslint": "^8.70.1"
+        "typescript-eslint": "^8.71.1"
       }
     },
     "node_modules/@aashutoshrathi/word-wrap": {
@@ -459,19 +458,19 @@
       }
     },
     "node_modules/@actions/cache": {
-      "version": "5.2.0",
-      "resolved": "https://registry.npmjs.org/@actions/cache/-/cache-5.2.0.tgz",
-      "integrity": "sha512-1R1Oc8cuDNCygsIP7gLiKLGCymOw/k5FkGQkXZFcLz6/RWyMImkfP0dZX6kjA9SRAmANcKNocI2XrsIaZ1it8w==",
+      "version": "5.3.0",
+      "resolved": "https://registry.npmjs.org/@actions/cache/-/cache-5.3.0.tgz",
+      "integrity": "sha512-VqJBlQFt1lpp7op7o/Z0syWywX9cN8TxjFCPjHyGHmXCiczU5NII5ZdEpGpTelUnOGFG2bO7viUx9q3q7WR/Gg==",
       "license": "MIT",
       "dependencies": {
-        "@actions/core": "^2.0.0",
+        "@actions/core": "^2.0.3",
         "@actions/exec": "^2.0.0",
         "@actions/glob": "^0.5.1",
         "@actions/http-client": "^3.0.2",
         "@actions/io": "^2.0.0",
         "@azure/abort-controller": "^1.1.0",
-        "@azure/core-rest-pipeline": "^1.22.0",
-        "@azure/storage-blob": "^12.29.1",
+        "@azure/core-rest-pipeline": "^1.25.0",
+        "@azure/storage-blob": "^12.34.0",
         "@protobuf-ts/runtime-rpc": "^2.11.1",
         "semver": "^6.3.1"
       }
@@ -2205,12 +2204,12 @@
       "license": "MIT"
     },
     "node_modules/@octokit/plugin-paginate-rest": {
-      "version": "15.0.0",
-      "resolved": "https://registry.npmjs.org/@octokit/plugin-paginate-rest/-/plugin-paginate-rest-15.0.0.tgz",
-      "integrity": "sha512-lw9A9YL5s4VPj+VEx8uMxaxQm2YTgrPDkrLEuZuu18R8TK3oPcXF4K6t52nx6xn1RcogZC9i188sAr/4XYJaQQ==",
+      "version": "16.0.0",
+      "resolved": "https://registry.npmjs.org/@octokit/plugin-paginate-rest/-/plugin-paginate-rest-16.0.0.tgz",
+      "integrity": "sha512-7RtUeGZypAK4EA4LrjTCnsLALNOoUcYh5vOnCNXpdIQVTQCPh4OFu7324iPqAls3KGgVnZktKUnNKZCOKyHrlA==",
       "license": "MIT",
       "dependencies": {
-        "@octokit/types": "^17.0.0"
+        "@octokit/types": "^18.0.0"
       },
       "engines": {
         "node": ">= 20"
@@ -2219,21 +2218,6 @@
         "@octokit/core": ">=6"
       }
     },
-    "node_modules/@octokit/plugin-paginate-rest/node_modules/@octokit/openapi-types": {
-      "version": "28.0.0",
-      "resolved": "https://registry.npmjs.org/@octokit/openapi-types/-/openapi-types-28.0.0.tgz",
-      "integrity": "sha512-0rFyLuyHvIj6uuZWuDslxkowFYdPXoNIkeAv4b27dzm2Tf4vGWXnPsMcxs7d65kLdMERgP3wc1AEPlqMz8e1cQ==",
-      "license": "MIT"
-    },
-    "node_modules/@octokit/plugin-paginate-rest/node_modules/@octokit/types": {
-      "version": "17.0.0",
-      "resolved": "https://registry.npmjs.org/@octokit/types/-/types-17.0.0.tgz",
-      "integrity": "sha512-ByP1v7YL5SMveFPP7+sj0/ZuWCOOg/Chs4NafOMpq6WNIM/hdGY0S7C0TCGDBWu1aGmOxmUIhMx3cO+IdwYZ1Q==",
-      "license": "MIT",
-      "dependencies": {
-        "@octokit/openapi-types": "^28.0.0"
-      }
-    },
     "node_modules/@octokit/plugin-request-log": {
       "version": "1.0.4",
       "resolved": "https://registry.npmjs.org/@octokit/plugin-request-log/-/plugin-request-log-1.0.4.tgz",
@@ -2718,17 +2702,17 @@
       "license": "MIT"
     },
     "node_modules/@typescript-eslint/eslint-plugin": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/eslint-plugin/-/eslint-plugin-8.70.1.tgz",
-      "integrity": "sha512-nDNrUQ/4ruSNYbu749TRY7cfrzPtoLHEXSNBI8aaNY32LlZCajixqRf3FqcKC4p5Cam4VOHYx/t+i5+nKXvrqA==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/eslint-plugin/-/eslint-plugin-8.71.1.tgz",
+      "integrity": "sha512-nNlBf6HuotqMgZvSkWD5hNdemiBIxQ2NmrlgfcUIeZRs+BbakjscCQRq/Hb74EFVnFiSWWdL12JruqwBy3ERDw==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
         "@eslint-community/regexpp": "^4.12.2",
-        "@typescript-eslint/scope-manager": "8.70.1",
-        "@typescript-eslint/type-utils": "8.70.1",
-        "@typescript-eslint/utils": "8.70.1",
-        "@typescript-eslint/visitor-keys": "8.70.1",
+        "@typescript-eslint/scope-manager": "8.71.1",
+        "@typescript-eslint/type-utils": "8.71.1",
+        "@typescript-eslint/utils": "8.71.1",
+        "@typescript-eslint/visitor-keys": "8.71.1",
         "ignore": "^7.0.5",
         "natural-compare": "^1.4.0",
         "ts-api-utils": "^2.5.0"
@@ -2741,7 +2725,7 @@
         "url": "https://opencollective.com/typescript-eslint"
       },
       "peerDependencies": {
-        "@typescript-eslint/parser": "^8.70.1",
+        "@typescript-eslint/parser": "^8.71.1",
         "eslint": "^8.57.0 || ^9.0.0 || ^10.0.0",
         "typescript": ">=4.8.4 <6.1.0"
       }
@@ -2757,16 +2741,16 @@
       }
     },
     "node_modules/@typescript-eslint/parser": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/parser/-/parser-8.70.1.tgz",
-      "integrity": "sha512-nO974WLllwhSFWQXnMLj6nDGa8f0khKEz1JzpPJ1u7Vm/4X1X6ZHajpoknU4bb41vJyMB0HHVyS2GqdhWfIXZw==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/parser/-/parser-8.71.1.tgz",
+      "integrity": "sha512-oM/5sAqz/l1v/zYK1qTOPrn2+JIrBGC1V6uNYucRO5gh6eT9vWJ/RhPbGE59byvZEUQ4VP6XkLBaS5Jti5jpvw==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/scope-manager": "8.70.1",
-        "@typescript-eslint/types": "8.70.1",
-        "@typescript-eslint/typescript-estree": "8.70.1",
-        "@typescript-eslint/visitor-keys": "8.70.1",
+        "@typescript-eslint/scope-manager": "8.71.1",
+        "@typescript-eslint/types": "8.71.1",
+        "@typescript-eslint/typescript-estree": "8.71.1",
+        "@typescript-eslint/visitor-keys": "8.71.1",
         "debug": "^4.4.3"
       },
       "engines": {
@@ -2800,14 +2784,14 @@
       }
     },
     "node_modules/@typescript-eslint/project-service": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/project-service/-/project-service-8.70.1.tgz",
-      "integrity": "sha512-62xOgboPfwc3/IgPSX/W6oQR3ZbF04194FPGUGH8HL8iLFHbt/456/8Ph1wLNUgVF+s94FlHoipBsz+v7+LMnA==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/project-service/-/project-service-8.71.1.tgz",
+      "integrity": "sha512-Oijc9RUsohHjncg6iGi7gCtjnEjYt9FWv9u6ygK8uKcHK5eLjLAkqERQ9BaytbpceOFdk6kifPCS/zAZE+A99g==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/tsconfig-utils": "^8.70.1",
-        "@typescript-eslint/types": "^8.70.1",
+        "@typescript-eslint/tsconfig-utils": "^8.71.1",
+        "@typescript-eslint/types": "^8.71.1",
         "debug": "^4.4.3"
       },
       "engines": {
@@ -2840,14 +2824,14 @@
       }
     },
     "node_modules/@typescript-eslint/scope-manager": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/scope-manager/-/scope-manager-8.70.1.tgz",
-      "integrity": "sha512-Pa0EeSeAusQc1WbjQMac+YfenewYTBu0KjgYvkUKwhXaHUKbFog23Dm/rp0DX/6tyYOQ3Xl1a+3EcFNZynGHCw==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/scope-manager/-/scope-manager-8.71.1.tgz",
+      "integrity": "sha512-1YUDZXdTnXLlob03SFHBipdyMBsDVm7zoSz0ytTJ39dk5J1TgsTK03VlR/dLXG/RLLUrPcYbD4rp23BmHxHP0w==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/types": "8.70.1",
-        "@typescript-eslint/visitor-keys": "8.70.1"
+        "@typescript-eslint/types": "8.71.1",
+        "@typescript-eslint/visitor-keys": "8.71.1"
       },
       "engines": {
         "node": "^18.18.0 || ^20.9.0 || >=21.1.0"
@@ -2858,9 +2842,9 @@
       }
     },
     "node_modules/@typescript-eslint/tsconfig-utils": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/tsconfig-utils/-/tsconfig-utils-8.70.1.tgz",
-      "integrity": "sha512-jumze1fPI+sDOaM2TWGQdn39PDxTr7TZGeuyLkAbNyx2vtMT3uRnVKChN0hfht5V2TugphJzF6bYXvBcE09qqg==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/tsconfig-utils/-/tsconfig-utils-8.71.1.tgz",
+      "integrity": "sha512-oTvkml5SxXhgg+WWKhod5qWQICDXtOB+/Hi9VdPKFAANJ2b7YOgMffgvzXuqog7R6A/JtrzRf128dsxummyWhg==",
       "dev": true,
       "license": "MIT",
       "engines": {
@@ -2875,15 +2859,15 @@
       }
     },
     "node_modules/@typescript-eslint/type-utils": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/type-utils/-/type-utils-8.70.1.tgz",
-      "integrity": "sha512-7zKTnyvaVWqzLZHPFQtX1hVHqgkMC+WebPWakNCSyrQVbIP1AM0L0TlBZtACldIRb6PptI8Odk+jyZ5kP3B1VA==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/type-utils/-/type-utils-8.71.1.tgz",
+      "integrity": "sha512-kH3t3jZCYv2PZSBEWPKTariLrCaoF1CLoPitYFBJOhAGEwWnSRAtGEifrfrpBa4K9JlwWNZotgA5w3/wLSk/FQ==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/types": "8.70.1",
-        "@typescript-eslint/typescript-estree": "8.70.1",
-        "@typescript-eslint/utils": "8.70.1",
+        "@typescript-eslint/types": "8.71.1",
+        "@typescript-eslint/typescript-estree": "8.71.1",
+        "@typescript-eslint/utils": "8.71.1",
         "debug": "^4.4.3",
         "ts-api-utils": "^2.5.0"
       },
@@ -2918,9 +2902,9 @@
       }
     },
     "node_modules/@typescript-eslint/types": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/types/-/types-8.70.1.tgz",
-      "integrity": "sha512-Dm1ypdhhrGCTyyehxElhgJ6kgk8MVCv5qXdoOVqPr1uqk42jX8KjrZqhROvdShczA8qrDoYiOWn1ykWlx2k81Q==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/types/-/types-8.71.1.tgz",
+      "integrity": "sha512-ybYnPTUwg3VQQOFEiBPLs8Jxl1ry2vXdn1kVKguomBbvxpetdu3MKTNDqFNUrlG8ylP9MpZosmXMFYlGQHk1oQ==",
       "dev": true,
       "license": "MIT",
       "engines": {
@@ -2932,16 +2916,16 @@
       }
     },
     "node_modules/@typescript-eslint/typescript-estree": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/typescript-estree/-/typescript-estree-8.70.1.tgz",
-      "integrity": "sha512-TU8PwyGN0PQJUcE96mw8eCQ44SmxGdQlJmlWakHaHQ15eIuuvye5yNtmh/i6oS88jzXVQB71xdNkbkB/fMwL0g==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/typescript-estree/-/typescript-estree-8.71.1.tgz",
+      "integrity": "sha512-pSKSEK1JJpHs6KiKVtABCE4iJK5d7FLFzDXQNBQ2oRY7LEd3UwOt3TZemTgu9syTIf56dJWlTn/pdmrO9oKUXQ==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/project-service": "8.70.1",
-        "@typescript-eslint/tsconfig-utils": "8.70.1",
-        "@typescript-eslint/types": "8.70.1",
-        "@typescript-eslint/visitor-keys": "8.70.1",
+        "@typescript-eslint/project-service": "8.71.1",
+        "@typescript-eslint/tsconfig-utils": "8.71.1",
+        "@typescript-eslint/types": "8.71.1",
+        "@typescript-eslint/visitor-keys": "8.71.1",
         "debug": "^4.4.3",
         "minimatch": "^10.2.2",
         "semver": "^7.7.3",
@@ -3017,16 +3001,16 @@
       }
     },
     "node_modules/@typescript-eslint/utils": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/utils/-/utils-8.70.1.tgz",
-      "integrity": "sha512-Esgul8MsnKnRLdYU2Eb2cRV9bS5HJYtKj1ByJnOzzG2M58DGdSUQ1jUuILxipqcpB2h9WLrbD5GijIWUjX/Tqw==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/utils/-/utils-8.71.1.tgz",
+      "integrity": "sha512-CBjT6gfAz3DW2j9Q4moFnqt208Aq+506sVGXfpRcyAeqn0EpayL0mjdWoCO2t3RC7GewNrFxdeehuEaPg6DMzQ==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
         "@eslint-community/eslint-utils": "^4.9.1",
-        "@typescript-eslint/scope-manager": "8.70.1",
-        "@typescript-eslint/types": "8.70.1",
-        "@typescript-eslint/typescript-estree": "8.70.1"
+        "@typescript-eslint/scope-manager": "8.71.1",
+        "@typescript-eslint/types": "8.71.1",
+        "@typescript-eslint/typescript-estree": "8.71.1"
       },
       "engines": {
         "node": "^18.18.0 || ^20.9.0 || >=21.1.0"
@@ -3041,13 +3025,13 @@
       }
     },
     "node_modules/@typescript-eslint/visitor-keys": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/@typescript-eslint/visitor-keys/-/visitor-keys-8.70.1.tgz",
-      "integrity": "sha512-Vwj9lUIW5Xq3wQ9w6gv3R86g1hMK8f2zNOdGTAgeXUMMXFK78G9ruCjjqutHMNJc0+CH7LYRnHeUB9IT8wFmcw==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/@typescript-eslint/visitor-keys/-/visitor-keys-8.71.1.tgz",
+      "integrity": "sha512-0GxiUGqMU0qXJt58cBsiG3DP8lUmBaFo2vChtUX+CT7PnR3v/VGLLrzVP4K9r1lNiZXjHYefMBbPunplr09v6w==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/types": "8.70.1",
+        "@typescript-eslint/types": "8.71.1",
         "eslint-visitor-keys": "^5.0.0"
       },
       "engines": {
@@ -5381,15 +5365,15 @@
       }
     },
     "node_modules/eslint-plugin-jsdoc": {
-      "version": "64.5.4",
-      "resolved": "https://registry.npmjs.org/eslint-plugin-jsdoc/-/eslint-plugin-jsdoc-64.5.4.tgz",
-      "integrity": "sha512-xfRhXPSSWT612muJ6XTvxuVJ8zYHv99qNgBqPVqF28aSqoy4s4XbSkrWXnYA2hl5ejC02yEpk6fqkj3BmJ6Xbg==",
+      "version": "65.2.0",
+      "resolved": "https://registry.npmjs.org/eslint-plugin-jsdoc/-/eslint-plugin-jsdoc-65.2.0.tgz",
+      "integrity": "sha512-IMZaNwdDa5otUQYGWN1pzywZLsGKswitvFFNhcO8IOsBfaWpWIDXYuZh2sYhe9MNyKN9hz0YryOFaKdpbTP5Bw==",
       "dev": true,
       "license": "BSD-3-Clause",
       "dependencies": {
         "@es-joy/jsdoccomment": "~0.98.0",
         "@es-joy/resolve.exports": "1.2.0",
-        "@typescript-eslint/utils": "^8.70.0",
+        "@typescript-eslint/utils": "^8.70.1",
         "are-docs-informative": "^0.1.1",
         "comment-parser": "1.4.9",
         "debug": "^4.4.3",
@@ -5817,6 +5801,7 @@
     },
     "node_modules/fast-deep-equal": {
       "version": "3.1.3",
+      "dev": true,
       "license": "MIT"
     },
     "node_modules/fast-diff": {
@@ -6007,9 +5992,9 @@
       "license": "ISC"
     },
     "node_modules/follow-redirects": {
-      "version": "1.16.0",
-      "resolved": "https://registry.npmjs.org/follow-redirects/-/follow-redirects-1.16.0.tgz",
-      "integrity": "sha512-y5rN/uOsadFT/JfYwhxRS5R7Qce+g3zG97+JrtFZlC9klX/W5hD7iiLzScI4nZqUS7DNUdhPgw4xI8W2LuXlUw==",
+      "version": "1.16.1",
+      "resolved": "https://registry.npmjs.org/follow-redirects/-/follow-redirects-1.16.1.tgz",
+      "integrity": "sha512-FNvFGzoMLWmE6Yj9spb/zjd7yiNCHiAW9/Tg9CXrQ8wuu32HtlJOwWO11OJafl5FfY3DxTdQ0vj42zU1kvv5jg==",
       "funding": [
         {
           "type": "individual",
@@ -6293,9 +6278,9 @@
       }
     },
     "node_modules/globals": {
-      "version": "17.12.0",
-      "resolved": "https://registry.npmjs.org/globals/-/globals-17.12.0.tgz",
-      "integrity": "sha512-cezEd/DTyyht9cvSSURyygXPfy04GtWO/5e6ZPvH7fCtjKz9PYOmuawphw1Ctd1f6C+5JypXfGD7ahNMXvevBA==",
+      "version": "17.13.0",
+      "resolved": "https://registry.npmjs.org/globals/-/globals-17.13.0.tgz",
+      "integrity": "sha512-RwMTC61u7hrG3ZJMkZQOK4JLJrKS8QtoTii63EmWvFXHqycY9FObBJQCbsLxSO8kjKhWE5kV1GC+Vb1g3RI0Zg==",
       "dev": true,
       "license": "MIT",
       "engines": {
@@ -7136,9 +7121,9 @@
       }
     },
     "node_modules/js-yaml": {
-      "version": "5.4.2",
-      "resolved": "https://registry.npmjs.org/js-yaml/-/js-yaml-5.4.2.tgz",
-      "integrity": "sha512-m+aqu+LwO1O6sIopafj8HUVl5aawITwZQe/yHpMCKjaWBaA/d07B/QdMb3529REftiU+RMMHL3Vlsw3hON7vWg==",
+      "version": "5.4.3",
+      "resolved": "https://registry.npmjs.org/js-yaml/-/js-yaml-5.4.3.tgz",
+      "integrity": "sha512-yzzNtgczwgoVHNigCyKTXcQJU4Y8t/ikU4UxXW0BvrLfHTGWZhsNcOT2s/a7vn81/4KqVnNmHjaUEPlvWnNwVw==",
       "funding": [
         {
           "type": "github",
@@ -7494,9 +7479,9 @@
       }
     },
     "node_modules/mdast-util-from-markdown": {
-      "version": "2.0.3",
-      "resolved": "https://registry.npmjs.org/mdast-util-from-markdown/-/mdast-util-from-markdown-2.0.3.tgz",
-      "integrity": "sha512-W4mAWTvSlKvf8L6J+VN9yLSqQ9AOAAvHuoDAmPkz4dHf553m5gVj2ejadHJhoJmcmxEnOv6Pa8XJhpxE93kb8Q==",
+      "version": "2.1.0",
+      "resolved": "https://registry.npmjs.org/mdast-util-from-markdown/-/mdast-util-from-markdown-2.1.0.tgz",
+      "integrity": "sha512-KRLgmPaP2H1ul2bpoJkOS+9pAcDAAj9Nu1mqLnh8NLeJG5tlvj42TH80PIGBpROWlRXLk0lDrWNuZCFy/tsB4A==",
       "license": "MIT",
       "dependencies": {
         "@types/mdast": "^4.0.0",
@@ -9996,16 +9981,16 @@
       }
     },
     "node_modules/typescript-eslint": {
-      "version": "8.70.1",
-      "resolved": "https://registry.npmjs.org/typescript-eslint/-/typescript-eslint-8.70.1.tgz",
-      "integrity": "sha512-AcWG7KDjZ2THNXsgwttMaGmzVi0VFRlFYfqFHYQRbDpF3owuYbuiL8c7UUrd2k8s3PoSfIQrWfrGXfcElrWLYA==",
+      "version": "8.71.1",
+      "resolved": "https://registry.npmjs.org/typescript-eslint/-/typescript-eslint-8.71.1.tgz",
+      "integrity": "sha512-oiNVPC3/NbV1FpaHU07l8O6ynqG9v4PAiW2WvTrAmZdR0f2HI/gE668ElMLCK7Xbsu5k2fK5C4fXNiq05j7/nQ==",
       "dev": true,
       "license": "MIT",
       "dependencies": {
-        "@typescript-eslint/eslint-plugin": "8.70.1",
-        "@typescript-eslint/parser": "8.70.1",
-        "@typescript-eslint/typescript-estree": "8.70.1",
-        "@typescript-eslint/utils": "8.70.1"
+        "@typescript-eslint/eslint-plugin": "8.71.1",
+        "@typescript-eslint/parser": "8.71.1",
+        "@typescript-eslint/typescript-estree": "8.71.1",
+        "@typescript-eslint/utils": "8.71.1"
       },
       "engines": {
         "node": "^18.18.0 || ^20.9.0 || >=21.1.0"
@@ -10500,10 +10485,10 @@
         "@actions/core": "^2.0.3",
         "@actions/github": "^8.0.1",
         "@octokit/core": "^7.0.8",
-        "@octokit/plugin-paginate-rest": ">=15.0.0",
+        "@octokit/plugin-paginate-rest": ">=16.0.0",
         "@octokit/plugin-rest-endpoint-methods": "^18.0.0",
         "lite-matter": "^0.1.2",
-        "mdast-util-from-markdown": "^2.0.3",
+        "mdast-util-from-markdown": "^2.1.0",
         "semver": "^7.8.5",
         "yaml": "^2.9.1"
       },

package.json

@@ -1,6 +1,6 @@
 {
   "name": "codeql",
-  "version": "4.38.3",
+  "version": "4.39.1",
   "private": true,
   "description": "CodeQL action",
   "scripts": {
@@ -22,7 +22,7 @@
   "dependencies": {
     "@actions/artifact": "^5.0.3",
     "@actions/artifact-legacy": "npm:@actions/artifact@^1.1.2",
-    "@actions/cache": "^5.2.0",
+    "@actions/cache": "^5.3.0",
     "@actions/core": "^2.0.3",
     "@actions/exec": "^2.0.0",
     "@actions/github": "^8.0.1",
@@ -31,15 +31,14 @@
     "@actions/io": "^2.0.0",
     "@actions/tool-cache": "^3.0.1",
     "@octokit/core": "^7.0.8",
-    "@octokit/plugin-paginate-rest": "^15.0.0",
+    "@octokit/plugin-paginate-rest": "^16.0.0",
     "@octokit/plugin-rest-endpoint-methods": "^18.0.0",
     "@octokit/plugin-retry": "^8.1.1",
     "archiver": "^8.0.0",
-    "fast-deep-equal": "^3.1.3",
-    "follow-redirects": "^1.16.0",
+    "follow-redirects": "^1.16.1",
     "get-folder-size": "^5.0.0",
     "https-proxy-agent": "^7.0.6",
-    "js-yaml": "^5.4.2",
+    "js-yaml": "^5.4.3",
     "jsonschema": "1.5.0",
     "long": "^5.3.2",
     "node-forge": "^1.4.0",
@@ -66,14 +65,14 @@
     "eslint-import-resolver-typescript": "^4.4.5",
     "eslint-plugin-github": "^6.1.2",
     "eslint-plugin-import-x": "^4.17.1",
-    "eslint-plugin-jsdoc": "^64.5.4",
+    "eslint-plugin-jsdoc": "^65.2.0",
     "eslint-plugin-no-async-foreach": "^0.1.1",
     "glob": "^13.0.6",
-    "globals": "^17.12.0",
+    "globals": "^17.13.0",
     "nock": "^14.0.17",
     "sinon": "^22.1.0",
     "typescript": "^6.0.3",
-    "typescript-eslint": "^8.70.1"
+    "typescript-eslint": "^8.71.1"
   },
   "overrides": {
     "@actions/tool-cache": {

pr-checks/changelog/validate.test.ts

@@ -154,26 +154,6 @@ await describe("isValidChangenoteFile", async () => {
     assert.equal(isValidChangenoteFile("non-existent-file.md"), false);
   });
 
-  await it("rejects invalid filename", async () => {
-    await withTmpFile(
-      "fix-bug.md",
-      "---\ncategory: fix\n---\n- Fixed a bug\n",
-      (filePath) => {
-        assert.equal(isValidChangenoteFile(filePath), false);
-      },
-    );
-  });
-
-  await it("rejects missing frontmatter", async () => {
-    await withTmpFile(
-      "2026-01-01-fix-bug.md",
-      "- Fixed a bug\n",
-      (filePath) => {
-        assert.equal(isValidChangenoteFile(filePath), false);
-      },
-    );
-  });
-
   await it("rejects invalid Markdown", async () => {
     await withTmpFile(
       "2026-01-01-fix-bug.md",

pr-checks/changelog/validate.ts

@@ -1,5 +1,4 @@
 import * as fs from "node:fs";
-import * as path from "node:path";
 
 import { matter } from "lite-matter";
 import type { List, ListItem } from "mdast";
@@ -95,21 +94,7 @@ export function isValidChangenoteFile(filename: string): boolean {
     return false;
   }
 
-  const { data: frontmatter, content } = matter(fileData);
-
-  if (!isValidChangenoteFilename(path.basename(filename))) {
-    isValid = false;
-    console.error(
-      `${filename}: invalid filename; must match pattern YYYY-MM-DD-id.md`,
-    );
-  }
-  if (!hasValidChangenoteCategory(frontmatter)) {
-    isValid = false;
-    const categories = Object.keys(VALID_CHANGE_NOTE_CATEGORIES).join(", ");
-    console.error(
-      `${filename}: invalid category; must be one of: ${categories}`,
-    );
-  }
+  const { content } = matter(fileData);
   if (!isValidChangenoteContent(content)) {
     isValid = false;
     console.error(

pr-checks/changenotes.ts

@@ -28,12 +28,12 @@ interface ChangenoteFile {
 
 /**
  * Returns the absolute file paths of all files in
- * {@link CHANGENOTES_DIR} (except ".gitkeep").
+ * {@link CHANGENOTES_DIR} (except ".gitkeep" and "README.md").
  * */
 function listUnreleasedChangenoteDir(): string[] {
   return fs
     .readdirSync(CHANGENOTES_DIR)
-    .filter((name) => name !== ".gitkeep")
+    .filter((name) => ![".gitkeep", "README.md"].includes(name))
     .map((name) => path.join(CHANGENOTES_DIR, name));
 }
 
@@ -50,6 +50,28 @@ function getChangenotes(): ChangenoteFile[] {
   });
 }
 
+/**
+ * Populates the '[UNRELEASED]' section of CHANGELOG.md with the contents
+ * of the changenotes in {@link CHANGENOTES_DIR} and then deletes those changenotes.
+ * @param contents The contents of CHANGELOG.md
+ * @returns The updated contents of CHANGELOG.md
+ */
+export function transferChangenotesToChangelog(contents: string): string {
+  const changenotes = getChangenotes();
+  const changenoteBodies = changenotes.map((c) => c.content.trim());
+  const changenotePaths = changenotes.map((c) => c.absolutePath);
+
+  const changelog = parseChangelog(contents);
+  addBodyLinesToUnreleasedSection(changelog, changenoteBodies);
+  const updatedChangelog = renderChangelog(changelog);
+
+  for (const p of changenotePaths) {
+    fs.unlinkSync(p);
+  }
+
+  return updatedChangelog;
+}
+
 const entryPoint = process.argv[1];
 if (entryPoint && import.meta.url === pathToFileURL(entryPoint).href) {
   try {
@@ -91,26 +113,13 @@ function usage(): ExitCode {
 
 function assemble(): ExitCode {
   try {
-    const changenotes = getChangenotes();
-    const changenoteBodies = changenotes.map((c) => c.content);
-    const changenotePaths = changenotes.map((c) => c.absolutePath);
-
     withChangelog((contents) => {
-      const changelog = parseChangelog(contents);
-      addBodyLinesToUnreleasedSection(changelog, changenoteBodies);
-      return renderChangelog(changelog);
+      return transferChangenotesToChangelog(contents);
     }, {});
-
-    // Delete changenotes only after successful processing.
-    for (const p of changenotePaths) {
-      fs.unlinkSync(p);
-    }
-
     return ExitCode.Success;
   } catch (e) {
     console.error("Failed to assemble changenotes to 'CHANGELOG.md'", e);
   }
-
   return ExitCode.Failure;
 }
 

pr-checks/checks/analysis-kinds.yml

@@ -46,7 +46,7 @@ steps:
       post-processed-sarif-path: "${{ runner.temp }}/post-processed"
 
   - name: Upload SARIF files
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: |
         analysis-kinds-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}
@@ -54,7 +54,7 @@ steps:
       retention-days: 7
 
   - name: Upload post-processed SARIF
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: |
         post-processed-${{ matrix.os }}-${{ matrix.version }}-${{ matrix.analysis-kinds }}

pr-checks/checks/config-export.yml

@@ -14,7 +14,7 @@ steps:
       output: "${{ runner.temp }}/results"
       upload-database: false
   - name: Upload SARIF
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: config-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
       path: "${{ runner.temp }}/results/javascript.sarif"

pr-checks/checks/diagnostics-export.yml

@@ -27,7 +27,7 @@ steps:
       output: "${{ runner.temp }}/results"
       upload-database: false
   - name: Upload SARIF
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: diagnostics-export-${{ matrix.os }}-${{ matrix.version }}.sarif.json
       path: "${{ runner.temp }}/results/javascript.sarif"

pr-checks/checks/export-file-baseline-information.yml

@@ -27,7 +27,7 @@ steps:
     with:
       output: "${{ runner.temp }}/results"
   - name: Upload SARIF
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: with-baseline-information-${{ matrix.os }}-${{ matrix.version }}.sarif.json
       path: "${{ runner.temp }}/results/javascript.sarif"

pr-checks/checks/job-run-uuid-sarif.yml

@@ -12,7 +12,7 @@ steps:
     with:
       output: "${{ runner.temp }}/results"
   - name: Upload SARIF
-    uses: actions/upload-artifact@043fb46d1a93c77aae656e7c1c64a875d1fc6a0a # v7.0.1
+    uses: actions/upload-artifact@cf430e030ddbb5b0abf93d22962f4752f3646cd9 # v7.0.2
     with:
       name: ${{ matrix.os }}-${{ matrix.version }}.sarif.json
       path: "${{ runner.temp }}/results/javascript.sarif"

pr-checks/checks/multi-language-autodetect.yml

@@ -10,23 +10,22 @@ operatingSystems:
   - os: macos
     runner-image: macos-15-xlarge
     codeql-versions:
-      - stable-v2.19.4
       - stable-v2.20.7
       - stable-v2.21.4
       - stable-v2.22.4
 env:
-  CODEQL_ACTION_CLEANUP_TOOLCACHE_BUNDLES: true
   CODEQL_ACTION_RESOLVE_SUPPORTED_LANGUAGES_USING_CLI: true
 installGo: true
 installDotNet: true
 steps:
-  - name: Install Python 3.13 for older CLI versions
-    # We need Python 3.13 for older CLI versions because they are not compatible with Python 3.14 or newer.
+  - name: Install Python 3.13.15 for older CLI versions
+    # Older CLI versions don't work with Python 3.13.16 or newer because their Python extractor
+    # imports `importlib._bootstrap._ERR_MSG`, which those Python versions no longer define.
     # See https://github.com/github/codeql-action/pull/3212
     if: matrix.version != 'nightly-latest' && matrix.version != 'linked'
     uses: actions/setup-python@5fda3b95a4ea91299a34e894583c3862153e4b97 # v7.0.0
     with:
-      python-version: "3.13"
+      python-version: "3.13.15"
 
   - name: Use Xcode 16
     # Only the older CodeQL CLI versions need Xcode 16, and these run on macOS 15.

pr-checks/checks/rust.yml

@@ -1,8 +1,8 @@
 name: "Rust analysis"
 description: "Tests creation of a Rust database"
 versions:
-  # experimental rust support introduced, requires action to set `CODEQL_ENABLE_EXPERIMENTAL_FEATURES`
-  - stable-v2.19.4
+  # oldest CodeQL version supported by the Action, where Rust support is experimental and requires the Action to set `CODEQL_ENABLE_EXPERIMENTAL_FEATURES`
+  - stable-v2.20.7
   # first public preview version
   - stable-v2.22.1
   - linked

pr-checks/package.json

@@ -6,10 +6,10 @@
     "@actions/core": "^2.0.3",
     "@actions/github": "^8.0.1",
     "@octokit/core": "^7.0.8",
-    "@octokit/plugin-paginate-rest": ">=15.0.0",
+    "@octokit/plugin-paginate-rest": ">=16.0.0",
     "@octokit/plugin-rest-endpoint-methods": "^18.0.0",
     "lite-matter": "^0.1.2",
-    "mdast-util-from-markdown": "^2.0.3",
+    "mdast-util-from-markdown": "^2.1.0",
     "semver": "^7.8.5",
     "yaml": "^2.9.1"
   },

pr-checks/sync.ts

@@ -136,8 +136,6 @@ type LanguageSetups = Partial<Record<BuiltInLanguage, LanguageSetup>>;
 // The default set of CodeQL Bundle versions to use for the PR checks.
 const defaultTestVersions = [
   // The oldest supported CodeQL version. If bumping, update `CODEQL_MINIMUM_VERSION` in `codeql.ts`
-  "stable-v2.19.4",
-  // The last CodeQL release in the 2.20 series.
   "stable-v2.20.7",
   // The last CodeQL release in the 2.21 series.
   "stable-v2.21.4",
@@ -147,6 +145,8 @@ const defaultTestVersions = [
   "stable-v2.23.9",
   // The last CodeQL release in the 2.24 series.
   "stable-v2.24.3",
+  // The last CodeQL release in the 2.25 series.
+  "stable-v2.25.6",
   // The default version of CodeQL for Dotcom, as determined by feature flags.
   "default",
   // The version of CodeQL shipped with the Action in `defaults.json`. During the release process
@@ -215,8 +215,8 @@ const languageSetups: LanguageSetups = {
         name: "Install Node.js",
         uses: pinnedUses(
           "actions/setup-node",
-          "820762786026740c76f36085b0efc47a31fe5020",
-          "v7.0.0",
+          "949feb2413d6458794dcd2491c4babbbce0c15c1",
+          "v7.1.0",
         ),
         with: {
           "node-version": defaultLanguageVersions.javascript,
@@ -571,7 +571,6 @@ function generateJob(
   specSteps.items.unshift(...steps);
 
   const checkJob: Record<string, any> = {
-    needs: ["pr-checks"],
     strategy: {
       "fail-fast": false,
       matrix: checkSpecification.matrix ?? {
@@ -699,35 +698,6 @@ function generateValidationJobs(
   };
 }
 
-/**
- * Constructs the body of a job that calls another workflow.
- *
- * @param jobName The friendly name of the job.
- * @param workflowBaseName The base name of the workflow file to call.
- * @param options Optional settings and overrides for the workflow call.
- * @param options.inputs Optionally, the inputs for the workflow.
- * @param options.permissions Permission overrides for the call.
- */
-function workflowCall(
-  jobName: string,
-  workflowBaseName: string,
-  options?: {
-    inputs?: Record<string, string>;
-    permissions?: Record<string, "read" | "write">;
-  },
-) {
-  return {
-    name: jobName,
-    permissions: {
-      contents: "read",
-      "security-events": "read",
-      ...options?.permissions,
-    },
-    uses: `./.github/workflows/${workflowBaseName}.yml`,
-    with: options?.inputs,
-  };
-}
-
 /**
  * Main entry point for the sync script.
  */
@@ -744,47 +714,6 @@ function main(): void {
 
   console.log(`Found ${checkFiles.length} check specification(s).`);
 
-  let allInputs: Record<string, WorkflowInput> = {};
-
-  const initialChecksJob = workflowCall("Initial checks", "pr-checks", {
-    permissions: { "security-events": "write", "pull-requests": "write" },
-  });
-
-  const cron = new yaml.Scalar("0 5 * * *");
-  cron.type = yaml.Scalar.QUOTE_SINGLE;
-
-  const checkWorkflow = {
-    name: `PR Checks`,
-    env: {
-      GITHUB_TOKEN: "${{ secrets.GITHUB_TOKEN }}",
-      GO111MODULE: "auto",
-    },
-    on: {
-      push: {
-        branches: ["main", "releases/v*"],
-      },
-      pull_request: {},
-      merge_group: {
-        types: ["checks_requested"],
-      },
-      schedule: [{ cron }],
-      workflow_dispatch: {
-        inputs: {},
-      },
-      workflow_call: {
-        inputs: {},
-      },
-    },
-    defaults: {
-      run: {
-        shell: "bash",
-      },
-    },
-    jobs: {
-      "pr-checks": initialChecksJob,
-    },
-  };
-
   const collections: Record<
     string,
     Array<{
@@ -824,31 +753,56 @@ function main(): void {
       });
     }
 
-    allInputs = { ...allInputs, ...combinedInputs };
-
-    checkWorkflow.jobs[checkName] = checkJob;
-
-    for (const [name, job] of Object.entries(validationJobs)) {
-      checkWorkflow.jobs[name] = job;
+    let extraGroupName = "";
+    for (const inputName of Object.keys(combinedInputs)) {
+      extraGroupName += `-\${{inputs.${inputName}}}`;
     }
+
+    const cron = new yaml.Scalar("0 5 * * *");
+    cron.type = yaml.Scalar.QUOTE_SINGLE;
+
+    const workflow = {
+      name: `PR Check - ${checkSpecification.name}`,
+      env: {
+        GITHUB_TOKEN: "${{ secrets.GITHUB_TOKEN }}",
+        GO111MODULE: "auto",
+      },
+      on: {
+        push: {
+          branches: ["main", "releases/v*"],
+        },
+        pull_request: {},
+        merge_group: {
+          types: ["checks_requested"],
+        },
+        schedule: [{ cron }],
+        workflow_dispatch: {
+          inputs: combinedInputs,
+        },
+        workflow_call: {
+          inputs: combinedInputs,
+        },
+      },
+      defaults: {
+        run: {
+          shell: "bash",
+        },
+      },
+      concurrency: {
+        "cancel-in-progress":
+          "${{ github.event_name == 'pull_request' || false }}",
+        group: `${checkName}-\${{github.ref}}${extraGroupName}`,
+      },
+      jobs: {
+        [checkName]: checkJob,
+        ...validationJobs,
+      },
+    };
+
+    const outputPath = path.join(OUTPUT_DIR, `__${checkName}.yml`);
+    writeYaml(outputPath, workflow);
   }
 
-  let extraGroupName = "";
-  for (const inputName of Object.keys(allInputs)) {
-    extraGroupName += `-\${{inputs.${inputName}}}`;
-  }
-
-  checkWorkflow["concurrency"] = {
-    "cancel-in-progress": "${{ github.event_name == 'pull_request' || false }}",
-    group: `pr-\${{github.ref}}${extraGroupName}`,
-  };
-
-  checkWorkflow.on.workflow_call.inputs = allInputs;
-  checkWorkflow.on.workflow_dispatch.inputs = allInputs;
-
-  const mainOutputPath = path.join(OUTPUT_DIR, `__pr.yml`);
-  writeYaml(mainOutputPath, checkWorkflow);
-
   // Write workflow files for collections.
   for (const collectionName of Object.keys(collections)) {
     const jobs: Record<string, any> = {};
@@ -864,9 +818,15 @@ function main(): void {
         checkWith[inputName] = `\${{ inputs.${inputName} }}`;
       }
 
-      jobs[checkName] = workflowCall(specification.name, `__${checkName}`, {
-        inputs: checkWith,
-      });
+      jobs[checkName] = {
+        name: specification.name,
+        permissions: {
+          contents: "read",
+          "security-events": "read",
+        },
+        uses: `./.github/workflows/__${checkName}.yml`,
+        with: checkWith,
+      };
     }
 
     const collectionWorkflow = {
@@ -888,10 +848,8 @@ function main(): void {
   }
 
   console.log(
-    `\nDone. Generated ${checkFiles.length} check(s) to ${OUTPUT_DIR}`,
+    `\nDone. Wrote ${checkFiles.length} workflow file(s) to ${OUTPUT_DIR}`,
   );
 }
 
-if (import.meta.main) {
-  main();
-}
+main();

pr-checks/update-release-branch.ts

@@ -23,7 +23,13 @@ import { parseArgs } from "node:util";
 
 import { type ApiClient, getApiClient } from "./api-client";
 import * as changelog from "./changelog";
-import { DryRunOption, REPO_ROOT } from "./config";
+import { transferChangenotesToChangelog } from "./changenotes";
+import {
+  CHANGELOG_FILE,
+  CHANGENOTES_DIR,
+  DryRunOption,
+  REPO_ROOT,
+} from "./config";
 import {
   getCurrentVersion,
   replaceVersionInPackageJson,
@@ -693,11 +699,14 @@ export async function prepareNewBranch(
 
     console.log("Updating changelog");
     changelog.withChangelog(
-      (contents) => changelog.setVersionAndDate(version, contents),
+      (contents) => {
+        const populatedContents = transferChangenotesToChangelog(contents);
+        return changelog.setVersionAndDate(version, populatedContents);
+      },
       { ...options, initChangelog: true },
     );
 
-    runGit(["add", "CHANGELOG.md"], {
+    runGit(["add", CHANGELOG_FILE, CHANGENOTES_DIR], {
       dryRun: options.dryRun,
     });
     runGit(["commit", "-m", `Update changelog for v${version}`], {

queries/default-setup-environment-variables.ql

@@ -23,7 +23,8 @@ predicate isSafeForDefaultSetup(string envVar) {
       "GITHUB_BASE_REF", "GITHUB_EVENT_NAME", "GITHUB_JOB", "GITHUB_RUN_ATTEMPT", "GITHUB_RUN_ID",
       "GITHUB_SHA", "GITHUB_REPOSITORY", "GITHUB_SERVER_URL", "GITHUB_TOKEN", "GITHUB_WORKFLOW",
       "GITHUB_WORKSPACE", "GOFLAGS", "ImageVersion", "JAVA_TOOL_OPTIONS", "RUNNER_ARCH",
-      "RUNNER_ENVIRONMENT", "RUNNER_NAME", "RUNNER_OS", "RUNNER_TEMP", "RUNNER_TOOL_CACHE"
+      "RUNNER_ENVIRONMENT", "RUNNER_NAME", "RUNNER_OS", "RUNNER_TEMP", "RUNNER_TOOL_CACHE",
+      "NODE_ENV"
     ]
 }
 

src/action-common.test.ts

@@ -19,6 +19,24 @@ import { getErrorMessage } from "./util";
 
 setupTests(test);
 
+for (const [key, displayName] of Object.entries(
+  statusReport.ACTION_DISPLAY_NAMES,
+)) {
+  test(`getDisplayActionName - '${displayName}' instead of '${key}'`, (t) => {
+    t.is(statusReport.getDisplayActionName(key as ActionName), displayName);
+  });
+}
+
+test("getDisplayActionName - returns action name", (t) => {
+  for (const actionName of Object.values(ActionName)) {
+    if (statusReport.ACTION_DISPLAY_NAMES[actionName]) {
+      continue;
+    }
+
+    t.is(statusReport.getDisplayActionName(actionName), actionName);
+  }
+});
+
 interface RunInActionsTestOpts {
   runFn?: () => Promise<any>;
   expectedErrorMessage?: string;

src/action-common.ts

@@ -56,6 +56,29 @@ export interface FeatureState {
 /** Identifies a type of state an Action may have. */
 export type StateFeature = keyof FeatureState;
 
+/**
+ * The `Env` feature implies the availability of the `ReadOnlyEnv` feature.
+ *
+ * If `T` is `Env`, this returns `Env | ReadOnlyEnv`.
+ * Otherwise, it is the identity and returns T.
+ */
+type ImpliedFeatures<T extends StateFeature> = T extends "Env"
+  ? "Env" | "ReadOnlyEnv"
+  : T;
+
+/**
+ * Given an object type `Obj`, this tries to lookup a corresponding `StateFeature`
+ * to which the object type belongs in `FeatureState`. Resolves to `never` if there
+ * is no match.
+ */
+type FeatureNameFor<Obj extends object> = {
+  [K in StateFeature]: [Obj] extends [FeatureState[K]]
+    ? [FeatureState[K]] extends [Obj]
+      ? K
+      : never
+    : never;
+}[StateFeature];
+
 /** Constructs the intersection of all state types identifies by `Fs`. */
 export type FieldsOf<Fs extends readonly StateFeature[]> = Fs extends []
   ? Record<never, never>
@@ -66,8 +89,54 @@ export type FieldsOf<Fs extends readonly StateFeature[]> = Fs extends []
     ? FeatureState[Head] & FieldsOf<Tail>
     : never;
 
+/**
+ * Symbol used for a field in `ActionState` that carries the type array of state features.
+ * This is a Symbol so that it doesn't clash with any property names we might want to have.
+ */
+const stateFeatures = Symbol();
+
 /** Describes the state of an Action that has access to the state corresponding to `Fs`. */
-export type ActionState<Fs extends readonly StateFeature[]> = FieldsOf<Fs>;
+export type ActionState<Fs extends readonly StateFeature[]> = FieldsOf<Fs> & {
+  /**
+   * When given a chance, TypeScript will simplify an `ActionState<Fs>` type as much as possible,
+   * which results in a concrete object type that doesn't mention `Fs`.
+   *
+   * That causes problems for functions which accept `ActionState<Fs>` values, but need to know the
+   * feature keys `Fs`. This property here explicitly captures `Fs` in the concrete object type
+   * that results from simplifying `ActionState<Fs>`.
+   *
+   * This is a function rather than a field, because we want to be able to provide values of type
+   * `ActionState<Fs>` to functions expecting `ActionState<As>` where `As` is a subset of `Fs`.
+   *
+   * Since function types are contravariant in the types of their parameters, using a function
+   * type here allows that to happen.
+   *
+   * Because the field is optional, we don't have to explicitly provide a value
+   * for it anywhere while the type is still inferred.
+   *
+   * `Fs[number]` returns the union of all features in `Fs`. We wrap it in `ImpliedFeatures`
+   * so that `Env` is expanded into `Env | ReadOnlyEnv`, allowing functions that expect the
+   * `ReadOnlyEnv` feature to be provided with an `ActionState` that has the `Env` feature
+   * without requiring this to be made explicit.
+   */
+  readonly [stateFeatures]?: (ts: ImpliedFeatures<Fs[number]>) => void;
+};
+
+/** Extends `state` with an `extra` feature. */
+export function extendActionState<
+  // In first position, so that it can be explicitly provided if `FeatureNameFor`
+  // should not work on `extra`.
+  F extends StateFeature,
+  Fs extends readonly StateFeature[],
+  E extends FeatureState[F],
+>(
+  state: ActionState<Fs>,
+  extra: E,
+): ActionState<[...Fs, FeatureNameFor<E> & F]> {
+  return { ...state, ...extra } as unknown as ActionState<
+    [...Fs, FeatureNameFor<E> & F]
+  >;
+}
 
 /** The type of an Action's main entry point. This is a function that is provided
  * with a basic `ActionState` object with features that are always available.

src/actions-util.test.ts

@@ -7,12 +7,13 @@ import {
   isAnalyzingPullRequest,
   isDefaultSetup,
   isDynamicWorkflow,
+  printDebugLogs,
 } from "./actions-util";
 import { computeAutomationID } from "./api-client";
 import { EnvVar } from "./environment";
 import { getRunnerLogger } from "./logging";
-import { setupTests } from "./testing-utils";
-import { initializeEnvironment } from "./util";
+import { getTestEnv, RecordingLogger, setupTests } from "./testing-utils";
+import { withTmpDir } from "./util";
 
 setupTests(test);
 
@@ -100,6 +101,21 @@ test("computeAutomationID()", async (t) => {
   );
 });
 
+test("printDebugLogs - doesn't throw when config doesn't have needed properties", async (t) => {
+  const logger = new RecordingLogger();
+  await t.notThrowsAsync(printDebugLogs(logger, {}));
+  await t.notThrowsAsync(printDebugLogs(logger, { languages: [] }));
+  await t.notThrowsAsync(printDebugLogs(logger, { dbLocation: "nowhere" }));
+});
+
+test("printDebugLogs - doesn't throw when language db doesn't exist", async (t) =>
+  withTmpDir(async (tmpDir) => {
+    const logger = new RecordingLogger();
+    await t.notThrowsAsync(
+      printDebugLogs(logger, { dbLocation: tmpDir, languages: ["javascript"] }),
+    );
+  }));
+
 test.serial("getPullRequestBranches() with pull request context", (t) => {
   withMockedContext(
     {
@@ -212,8 +228,9 @@ test.serial(
 );
 
 test.serial("initializeEnvironment", (t) => {
-  initializeEnvironment("1.2.3");
-  t.deepEqual(process.env[EnvVar.VERSION], "1.2.3");
+  const env = getTestEnv();
+  env.initialise("1.2.3");
+  t.deepEqual(env.getOptional(EnvVar.VERSION), "1.2.3");
 });
 
 test.serial("fixCodeQualityCategory", (t) => {

src/actions-util.ts

@@ -6,7 +6,7 @@ import * as toolrunner from "@actions/exec/lib/toolrunner";
 import * as github from "@actions/github";
 import * as io from "@actions/io";
 
-import type { Config } from "./config-utils";
+import { hasConfigKey, type Config } from "./config/action-config";
 import { Env, EnvVar, ActionsEnvVars, ReadOnlyEnv } from "./environment";
 import { Logger } from "./logging";
 import {
@@ -30,7 +30,6 @@ declare const __CODEQL_ACTION_VERSION__: string;
 export interface ActionsEnv {
   getRequiredInput: (name: string) => string;
   getOptionalInput: (name: string) => string | undefined;
-  exportVariable: (name: string, value: string) => void;
 }
 
 /**
@@ -40,7 +39,6 @@ export function getActionsEnv(): ActionsEnv {
   return {
     getRequiredInput,
     getOptionalInput,
-    exportVariable: core.exportVariable,
   };
 }
 
@@ -95,7 +93,7 @@ export function getActionVersion(): string {
  *
  * This will be "dynamic" for default setup workflow runs.
  */
-export function getWorkflowEventName(env: Env = getEnv()) {
+export function getWorkflowEventName(env: ReadOnlyEnv = getEnv()) {
   return env.getRequired(ActionsEnvVars.GITHUB_EVENT_NAME);
 }
 
@@ -103,7 +101,7 @@ export function getWorkflowEventName(env: Env = getEnv()) {
  * Returns whether the current workflow is executing a local copy of the Action, e.g. we're running
  * a workflow on the codeql-action repo itself.
  */
-export function isRunningLocalAction(env: Env = getEnv()): boolean {
+export function isRunningLocalAction(env: ReadOnlyEnv = getEnv()): boolean {
   const relativeScriptPath = getRelativeScriptPath(env);
   return (
     relativeScriptPath.startsWith("..") || path.isAbsolute(relativeScriptPath)
@@ -115,14 +113,14 @@ export function isRunningLocalAction(env: Env = getEnv()): boolean {
  *
  * This can be used to get the Action's name or tell if we're running a local Action.
  */
-function getRelativeScriptPath(env: Env): string {
+function getRelativeScriptPath(env: ReadOnlyEnv): string {
   const runnerTemp = env.getRequired(ActionsEnvVars.RUNNER_TEMP);
   const actionsDirectory = path.join(path.dirname(runnerTemp), "_actions");
   return path.relative(actionsDirectory, __filename);
 }
 
 /** Returns the contents of `GITHUB_EVENT_PATH` as a JSON object. */
-export function getWorkflowEvent(env: Env = getEnv()): any {
+export function getWorkflowEvent(env: ReadOnlyEnv = getEnv()): any {
   const eventJsonFile = env.getRequired(ActionsEnvVars.GITHUB_EVENT_PATH);
   try {
     return JSON.parse(fs.readFileSync(eventJsonFile, "utf-8"));
@@ -133,28 +131,38 @@ export function getWorkflowEvent(env: Env = getEnv()): any {
   }
 }
 
-export async function printDebugLogs(config: Config) {
+export async function printDebugLogs(logger: Logger, config: Partial<Config>) {
+  if (
+    !hasConfigKey(config, "languages") ||
+    !hasConfigKey(config, "dbLocation")
+  ) {
+    logger.debug(
+      `Not printing debug logs, because the configuration does not include the 'languages' or 'dbLocation' fields.`,
+    );
+    return;
+  }
+
   for (const language of config.languages) {
     const databaseDirectory = getCodeQLDatabasePath(config, language);
     const logsDirectory = path.join(databaseDirectory, "log");
     if (!doesDirectoryExist(logsDirectory)) {
-      core.info(`Directory ${logsDirectory} does not exist.`);
+      logger.info(`Directory ${logsDirectory} does not exist.`);
       continue; // Skip this language database.
     }
 
     const walkLogFiles = (dir: string) => {
       const entries = fs.readdirSync(dir, { withFileTypes: true });
       if (entries.length === 0) {
-        core.info(`No debug logs found at directory ${logsDirectory}.`);
+        logger.info(`No debug logs found at directory ${logsDirectory}.`);
       }
       for (const entry of entries) {
         if (entry.isFile()) {
           const absolutePath = path.resolve(dir, entry.name);
-          core.startGroup(
+          logger.startGroup(
             `CodeQL Debug Logs - ${language} - ${entry.name} from file at path ${absolutePath}`,
           );
-          process.stdout.write(fs.readFileSync(absolutePath));
-          core.endGroup();
+          logger.info(fs.readFileSync(absolutePath, "utf-8"));
+          logger.endGroup();
         } else if (entry.isDirectory()) {
           walkLogFiles(path.resolve(dir, entry.name));
         }

src/analyze-action-post.ts

@@ -9,7 +9,6 @@ import * as core from "@actions/core";
 
 import * as actionsUtil from "./actions-util";
 import { getGitHubVersion } from "./api-client";
-import { getCodeQL } from "./codeql";
 import { getConfig } from "./config-utils";
 import * as debugArtifacts from "./debug-artifacts";
 import {
@@ -38,12 +37,9 @@ export async function runWrapper() {
         logger,
       );
       if (config !== undefined) {
-        const codeql = await getCodeQL(logger, config.codeQLCmd);
-        const version = await codeql.getVersion();
         await debugArtifacts.uploadCombinedSarifArtifacts(
           logger,
           config.gitHubVersion.type,
-          version.version,
         );
       }
     }

src/analyze-action.test.ts

@@ -45,6 +45,7 @@ test.serial(
       requiredInputStub.withArgs("token").returns("fake-token");
       requiredInputStub.withArgs("upload-database").returns("false");
       requiredInputStub.withArgs("output").returns("out");
+      requiredInputStub.withArgs("checkout_path").returns("");
       const optionalInputStub = sinon.stub(actionsUtil, "getOptionalInput");
       optionalInputStub.withArgs("expect-error").returns("false");
       sinon.stub(api, "getGitHubVersion").resolves(gitHubVersion);
@@ -104,6 +105,7 @@ test.serial(
       requiredInputStub.withArgs("token").returns("fake-token");
       requiredInputStub.withArgs("upload-database").returns("false");
       requiredInputStub.withArgs("output").returns("out");
+      requiredInputStub.withArgs("checkout_path").returns("");
       const optionalInputStub = sinon.stub(actionsUtil, "getOptionalInput");
       optionalInputStub.withArgs("expect-error").returns("false");
       sinon.stub(api, "getGitHubVersion").resolves(gitHubVersion);

src/analyze-action.ts

@@ -4,12 +4,18 @@ import { performance } from "perf_hooks";
 
 import * as core from "@actions/core";
 
-import { Action, ActionState, runInActions } from "./action-common";
+import {
+  Action,
+  ActionState,
+  extendActionState,
+  runInActions,
+} from "./action-common";
 import * as actionsUtil from "./actions-util";
 import * as analyses from "./analyses";
 import {
   CodeQLAnalysisError,
   dbIsFinalized,
+  determineCheckoutPath,
   QueriesStatusReport,
   runFinalize,
   runQueries,
@@ -212,13 +218,11 @@ async function runAutobuildIfLegacyGoWorkflow(config: Config, logger: Logger) {
   await runAutobuild(config, BuiltInLanguage.go, logger);
 }
 
-async function run({
-  startedAt,
-  logger,
-  actions,
-}: ActionState<["Base", "Logger", "Actions"]>) {
+async function run(action: ActionState<["Base", "Logger", "Env", "Actions"]>) {
   // To capture errors appropriately, keep as much code within the try-catch as
   // possible, and only use safe functions outside.
+  const startedAt = action.startedAt;
+  const logger = action.logger;
 
   let uploadResults:
     | Partial<Record<analyses.AnalysisKind, UploadResult>>
@@ -234,7 +238,7 @@ async function run({
   let databaseUploadResults: DatabaseUploadResult[] = [];
 
   try {
-    util.initializeEnvironment(actionsUtil.getActionVersion());
+    action.env.initialise(actionsUtil.getActionVersion());
 
     // Make inputs accessible in the `post` step, details at
     // https://github.com/github/codeql-action/issues/2553
@@ -267,17 +271,6 @@ async function run({
       );
     }
 
-    // Unset the CODEQL_PROXY_* environment variables when using older CodeQL
-    // CLIs, as they are not needed and can cause issues.
-    if (
-      process.env.CODEQL_PROXY_HOST === "" &&
-      !(await util.codeQlVersionAtLeast(codeql, "2.20.7"))
-    ) {
-      delete process.env.CODEQL_PROXY_HOST;
-      delete process.env.CODEQL_PROXY_PORT;
-      delete process.env.CODEQL_PROXY_CA_CERTIFICATE;
-    }
-
     if (actionsUtil.getOptionalInput("cleanup-level")) {
       logger.info(
         "The 'cleanup-level' input is ignored since the CodeQL Action now automatically " +
@@ -287,7 +280,7 @@ async function run({
 
     const apiDetails = getApiDetails();
     const outputDir = actionsUtil.getRequiredInput("output");
-    core.exportVariable(EnvVar.SARIF_RESULTS_OUTPUT_DIR, outputDir);
+    action.env.export(EnvVar.SARIF_RESULTS_OUTPUT_DIR, outputDir);
     const threads = util.getThreadsFlag(
       actionsUtil.getOptionalInput("threads") || process.env["CODEQL_THREADS"],
       logger,
@@ -311,7 +304,7 @@ async function run({
       logger,
     );
 
-    const checkoutPath = actions.getRequiredInput("checkout_path");
+    const checkoutPath = await determineCheckoutPath(action, config);
 
     // Setup diff informed analysis if needed (based on whether init created the file)
     const diffRangePackDir = await setupDiffInformedQueryRun(
@@ -403,11 +396,13 @@ async function run({
       checkoutPath,
     );
 
+    const actionWithFeatures = extendActionState(action, { features });
+
     // Possibly upload the database bundles for remote queries.
     // Note: Take care with the ordering of this call since databases may be cleaned up
     // at the `overlay` or `clear` level.
     databaseUploadResults = await cleanupAndUploadDatabases(
-      { logger, features },
+      actionWithFeatures,
       repositoryNwo,
       codeql,
       config,
@@ -456,7 +451,7 @@ async function run({
         `expect-error input was set to true but no error was thrown.`,
       );
     }
-    core.exportVariable(EnvVar.ANALYZE_DID_COMPLETE_SUCCESSFULLY, "true");
+    action.env.export(EnvVar.ANALYZE_DID_COMPLETE_SUCCESSFULLY, "true");
   } catch (unwrappedError) {
     const error = util.wrapError(unwrappedError);
     if (

src/analyze.test.ts

@@ -10,10 +10,12 @@ import {
   resolveQuerySuiteAlias,
   addSarifExtension,
   diffRangeExtensionPackContents,
+  determineCheckoutPath,
 } from "./analyze";
 import { createStubCodeQL } from "./codeql";
 import { defaultSuites } from "./config/db-config";
 import { Feature } from "./feature-flags";
+import * as gitUtils from "./git-utils";
 import { BuiltInLanguage } from "./languages";
 import { getRunnerLogger } from "./logging";
 import {
@@ -21,12 +23,98 @@ import {
   setupActionsVars,
   createFeatures,
   createTestConfig,
+  callee,
 } from "./testing-utils";
 import * as uploadLib from "./upload-lib";
 import * as util from "./util";
 
 setupTests(test);
 
+test.serial(
+  "determineCheckoutPath - logs when checkout_path is not in a work tree",
+  async (t) => {
+    const expectedPath = path.resolve("/checkout/path");
+    const target = callee(determineCheckoutPath)
+      .withActions((actions) => {
+        sinon
+          .stub(actions, "getRequiredInput")
+          .withArgs("checkout_path")
+          .returns(expectedPath);
+      })
+      .withArgs(createTestConfig({}));
+    sinon.stub(gitUtils, "getGitRoot").resolves(undefined);
+
+    await target
+      .logs(t, "is not in the work tree of a git repository")
+      .passes(t.is, expectedPath);
+  },
+);
+
+test.serial(
+  "determineCheckoutPath - logs when checkout_path is not a repo root",
+  async (t) => {
+    const expectedPath = path.resolve("/checkout/path");
+    const target = callee(determineCheckoutPath)
+      .withActions((actions) => {
+        sinon
+          .stub(actions, "getRequiredInput")
+          .withArgs("checkout_path")
+          .returns(expectedPath);
+      })
+      .withArgs(createTestConfig({}));
+    sinon.stub(gitUtils, "getGitRoot").resolves("/checkout");
+
+    await target
+      .logs(t, "is not the root of the repository")
+      .passes(t.is, expectedPath);
+  },
+);
+
+test.serial(
+  "determineCheckoutPath - logs when checkout_path is not the same as repo root in config",
+  async (t) => {
+    const expectedPath = path.resolve("/checkout/path");
+    const target = callee(determineCheckoutPath)
+      .withActions((actions) => {
+        sinon
+          .stub(actions, "getRequiredInput")
+          .withArgs("checkout_path")
+          .returns(expectedPath);
+      })
+      .withArgs(createTestConfig({ repositoryRoot: "/some/other/path" }));
+    sinon.stub(gitUtils, "getGitRoot").resolves(expectedPath);
+
+    await target
+      .logs(t, "does not match that found by the 'codeql-action/init' step")
+      .passes(t.is, expectedPath);
+  },
+);
+
+test.serial(
+  "determineCheckoutPath - doesn't log any of the messages when all is as expected",
+  async (t) => {
+    const expectedPath = path.resolve("/checkout/path");
+    const target = callee(determineCheckoutPath)
+      .withActions((actions) => {
+        sinon
+          .stub(actions, "getRequiredInput")
+          .withArgs("checkout_path")
+          .returns(expectedPath);
+      })
+      .withArgs(createTestConfig({ repositoryRoot: expectedPath }));
+    sinon.stub(gitUtils, "getGitRoot").resolves(expectedPath);
+
+    await target
+      .notLogs(
+        t,
+        "is not in the work tree of a git repository",
+        "is not the root of the repository",
+        "does not match that found by the 'codeql-action/init' step",
+      )
+      .passes(t.is, expectedPath);
+  },
+);
+
 /**
  * Checks the status report produced by the analyze Action.
  *

src/analyze.ts

@@ -5,10 +5,12 @@ import { performance } from "perf_hooks";
 import * as io from "@actions/io";
 import * as yaml from "js-yaml";
 
+import type { ActionState } from "./action-common";
 import { getTemporaryDirectory } from "./actions-util";
 import * as analyses from "./analyses";
 import { setupCppAutobuild } from "./autobuild";
 import { type CodeQL } from "./codeql";
+import type { ActionConfig } from "./config/action-config";
 import { defaultSuites } from "./config/db-config";
 import * as configUtils from "./config-utils";
 import {
@@ -22,6 +24,7 @@ import {
 } from "./diff-informed-analysis-utils";
 import { EnvVar } from "./environment";
 import { FeatureEnablement, Feature } from "./feature-flags";
+import { getGitRoot } from "./git-utils";
 import { BuiltInLanguage, Language } from "./languages";
 import { Logger, withGroupAsync } from "./logging";
 import { OverlayDatabaseMode } from "./overlay/overlay-database-mode";
@@ -86,6 +89,58 @@ export interface QueriesStatusReport
   event_reports?: EventReport[];
 }
 
+/**
+ * Determines the path at which the repository being analysed is checked out at.
+ * Returns the value of the required `checkout_path` input and validates that it
+ * refers to the root of a repository.
+ *
+ * @param action The action state.
+ * @param config The CodeQL Action configuration state.
+ */
+export async function determineCheckoutPath(
+  action: ActionState<["Logger", "Actions"]>,
+  config: configUtils.Config,
+) {
+  const checkoutPathInput = action.actions.getRequiredInput("checkout_path");
+
+  // Try to obtain the root path of the repository and validate that it matches the input.
+  const absCheckoutPathInput = path.resolve(checkoutPathInput);
+  const repositoryRoot = await getGitRoot(absCheckoutPathInput);
+
+  if (repositoryRoot === undefined) {
+    action.logger.warning(
+      [
+        `The directory at '${absCheckoutPathInput}' is not in the work tree of a git repository.`,
+        "If the repository being analyzed is checked out elsewhere,",
+        "you must explicitly set the 'checkout_path' input for the 'codeql-action/analyze' step to",
+        "the checkout path.",
+      ].join(" "),
+    );
+  } else if (repositoryRoot !== absCheckoutPathInput) {
+    action.logger.warning(
+      [
+        `The directory at '${absCheckoutPathInput}' is not the root of the repository ('${repositoryRoot}').`,
+        "Set the 'checkout_path' input for the 'codeql-action/analyze' step to the root path of the checkout.",
+      ].join(" "),
+    );
+  } else if (
+    config.repositoryRoot !== undefined &&
+    repositoryRoot !== config.repositoryRoot
+  ) {
+    // The repository root that was persisted by the `init` step doesn't match the one we have found here.
+    action.logger.warning(
+      [
+        `The repository path at '${repositoryRoot}' does not match that found by the 'codeql-action/init' step: '${config.repositoryRoot}'.`,
+        "Ensure that the 'checkout_path' input for the 'codeql-action/analyze' step is set to the path of the same repository that",
+        "the 'codeql-action/init' step determined. This is either the GitHub Actions workspace or the repository root corresponding to",
+        "the 'source-root' input if that was provided.",
+      ].join(" "),
+    );
+  }
+
+  return absCheckoutPathInput;
+}
+
 async function setupPythonExtractor(logger: Logger) {
   const codeqlPython = process.env["CODEQL_PYTHON"];
   if (codeqlPython === undefined || codeqlPython.length === 0) {
@@ -124,7 +179,7 @@ export async function runExtraction(
           language === BuiltInLanguage.cpp &&
           config.buildMode === BuildMode.Autobuild
         ) {
-          await setupCppAutobuild(codeql, logger);
+          await setupCppAutobuild(logger);
         }
 
         // The Java and C# `build-mode: none` extractors place dependencies in the
@@ -171,7 +226,7 @@ async function shouldExtractLanguage(
 }
 
 export function dbIsFinalized(
-  config: configUtils.Config,
+  config: ActionConfig<"dbLocation">,
   language: Language,
   logger: Logger,
 ) {

src/api-client.test.ts

@@ -7,14 +7,21 @@ import { ProxyAgent } from "undici";
 import * as actionsUtil from "./actions-util";
 import * as api from "./api-client";
 import { DO_NOT_RETRY_STATUSES } from "./api-client";
-import { ActionsEnvVars, RegistryProxyVars } from "./environment";
-import { callee, getTestEnv, setupTests } from "./testing-utils";
+import { ActionsEnvVars, RegistryProxyVars, getEnv } from "./environment";
+import { GITHUB_DOTCOM_API_URL, GITHUB_DOTCOM_URL } from "./github";
+import {
+  callee,
+  getTestEnv,
+  RecordingLogger,
+  SAMPLE_DOTCOM_API_DETAILS,
+  setupTests,
+} from "./testing-utils";
 import * as util from "./util";
 
 setupTests(test);
 
 test.beforeEach(() => {
-  util.initializeEnvironment(actionsUtil.getActionVersion());
+  getEnv().initialise(actionsUtil.getActionVersion());
 });
 
 test.serial("getApiClient", async (t) => {
@@ -284,3 +291,87 @@ test("makeProxyRequestOptions - returns fetch with custom proxy", async (t) => {
     githubUtils.defaults.request,
   );
 });
+
+test.serial(
+  "getApiClientWithExternalAuth constructs clients with or without tokens",
+  (t) => {
+    t.notThrows(() => {
+      api.getApiClientWithExternalAuth(SAMPLE_DOTCOM_API_DETAILS);
+      api.getApiClientWithExternalAuth({
+        ...SAMPLE_DOTCOM_API_DETAILS,
+        auth: undefined,
+      });
+    });
+  },
+);
+
+test("getAuthorizationHeaderFor - returns undefined if there's no token", (t) => {
+  const logger = new RecordingLogger();
+
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      { ...SAMPLE_DOTCOM_API_DETAILS, auth: undefined },
+      `${GITHUB_DOTCOM_URL}/github`,
+    ),
+    undefined,
+  );
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      { ...SAMPLE_DOTCOM_API_DETAILS, auth: "" },
+      `${GITHUB_DOTCOM_URL}/github`,
+    ),
+    undefined,
+  );
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      { ...SAMPLE_DOTCOM_API_DETAILS, auth: "    " },
+      `${GITHUB_DOTCOM_URL}/github`,
+    ),
+    undefined,
+  );
+});
+
+test("getAuthorizationHeaderFor - returns header value with token if url is allowed", (t) => {
+  const logger = new RecordingLogger();
+
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      SAMPLE_DOTCOM_API_DETAILS,
+      `${GITHUB_DOTCOM_URL}/github`,
+    ),
+    `token ${SAMPLE_DOTCOM_API_DETAILS.auth}`,
+  );
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      SAMPLE_DOTCOM_API_DETAILS,
+      `${GITHUB_DOTCOM_API_URL}/github`,
+    ),
+    `token ${SAMPLE_DOTCOM_API_DETAILS.auth}`,
+  );
+});
+
+test("getAuthorizationHeaderFor - returns undefined if url is not allowed", (t) => {
+  const logger = new RecordingLogger();
+
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      SAMPLE_DOTCOM_API_DETAILS,
+      `https://localhost/github`,
+    ),
+    undefined,
+  );
+  t.is(
+    api.getAuthorizationHeaderFor(
+      logger,
+      SAMPLE_DOTCOM_API_DETAILS,
+      `https://api.localhost/github`,
+    ),
+    undefined,
+  );
+});